Citrus Sinensis ID: 019980

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330---
Protein Sequence
MDSKGKATNDDKEREQEQEQNPNSNNDNINSNELSDEETETNLEQQQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHccccccccccccccccccHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHccccEEEccccccccccccccccccEEEccccccccEEEEEcccccccHHHHHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccHHHHHHccccEEEccccccccccccccccEEEEEEEEcccccEEEEccccccHHHHHHHHHHHHcccccEEEEEcccccc
Coil and Loop (DISEMBL)
mdskgkatnddkereqeqeqnpnsnndninsnelsdeeTETNLEQQQqgqrqdsrtrtpftnlsQVDADLALARTLQEQERAYMMLRMNnnegsdygsweagsylhdedddfggdgddddddddedesdagdhenhecdgsdfviddddededafdvhaheeveednnpsveydsdvfssDEAYARALQDAEERDMAARLLALAEIhdreiedpedhgghsqdtweevdpdelsYEELLALGEVvgsesrglsadtlatlptvnykggtsqngsndsclgfSCVIcrldyedgetLTVLSCKHSYHSECINNWLKInkvcpvcsaevstsghs
Flexible Loop (DISEMBL)
mdskgkatnddkereqeqeqnpnsnndninSNELSDEETETNLEQqqqgqrqdsrtrtpftnlsqvdaDLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDEsdagdhenhecdgsDFVIDDDDEDEDAFDVHAheeveednnpsveydsdvFSSDEAYARALQDAEERDMAARLLALAEIHDreiedpedhgghsQDTWEEVDPDELSYEELLALGEVVGsesrglsadtlaTLPTVNYkggtsqngsndsCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Low Complexity Region (SEG)
MDSKGKATNDDKereqeqeqnpnsnndninsnelsdeetetnleqqqqgqrqdsrtrtPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHdedddfggdgddddddddedesdagdheNHECDGSdfviddddededafdvhaheeVEEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Disordered region (IsUnstruct)
********************************************************************************************************************************************************************************************************LA********************************YEELLALGEVVG*********TLATLPTVNYK*********DSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA********
Disordered Region (DISOPRED)
*********************************************************************LALARTLQEQE***************************************************************************************************************************************************VDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNY***************FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA*VS*****
Disordered Region (DISEMBL)
************************NNDNINSNE***********************RTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDG*******************HECDGSDFVIDDDDEDEDAFDVHAHE***********YDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREI*******************DELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC**********
Disordered Region (DISPRO)
************************************************************TNLSQVDADLALARTLQEQERAYMMLRMNNNE************L******************************************************************EYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIED*EDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTS*********GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDSKGKATNDDKEREQEQEQNPNSNNDNINSNELSDEETETNLEQQQQGQRQDSRTRTPFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAFDVHAHEEVEEDNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	333	2.2.26 [Sep-21-2011]
Q9LT17	340	E3 ubiquitin ligase BIG B	yes	no	0.768	0.752	0.623	3e-80
Q8L649	248	E3 ubiquitin ligase BIG B	no	no	0.309	0.415	0.542	5e-27
Q8BI21	518	RING finger protein 38 OS	yes	no	0.264	0.169	0.378	3e-13
Q9H0F5	515	RING finger protein 38 OS	yes	no	0.264	0.170	0.357	4e-13
Q08CG8	448	RING finger protein 44 OS	no	no	0.264	0.196	0.368	2e-12
Q7L0R7	432	RING finger protein 44 OS	no	no	0.264	0.203	0.357	3e-12
Q4V7B8	350	RING finger protein 44 OS	no	no	0.264	0.251	0.357	4e-12
Q3UHJ8	407	RING finger protein 44 OS	no	no	0.264	0.216	0.357	5e-12
Q6ZSG1	346	RING finger protein 165 O	no	no	0.285	0.274	0.355	7e-10
Q7T037	757	E3 ubiquitin-protein liga	N/A	no	0.273	0.120	0.34	8e-10

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

 Score =  298 bits (764), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 174/279 (62%), Positives = 211/279 (75%), Gaps = 23/279 (8%)

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 ELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYE 291
           ELSYEELLALG++VG+ESRGLSADT+A+LP+  YK G +QNG+N+     SCVICRLDYE
Sbjct: 242 ELSYEELLALGDIVGTESRGLSADTIASLPSKRYKEGDNQNGTNE-----SCVICRLDYE 296

Query: 292 DGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
           D E L +L CKHSYHSECINNWLKINKVCPVCSAEVSTS
Sbjct: 297 DDEDLILLPCKHSYHSECINNWLKINKVCPVCSAEVSTS 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 =  122 bits (305), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 58/107 (54%), Positives = 75/107 (70%), Gaps = 4/107 (3%)

Query: 222 QDTWEE-VDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLG 280
           Q +W++ +DPD ++YEEL+ LGE VG+ESRGLS + + TLPT  YK G+  +       G
Sbjct: 138 QVSWQDDIDPDTMTYEELVELGEAVGTESRGLSQELIETLPTKKYKFGSIFSRKR---AG 194

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327
             CVIC+L Y+ GE    L CKH YHSECI+ WL INKVCPVC++EV
Sbjct: 195 ERCVICQLKYKIGERQMNLPCKHVYHSECISKWLSINKVCPVCNSEV 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|Q8BI21|RNF38_MOUSE RING finger protein 38 OS=Mus musculus GN=Rnf38 PE=2 SV=1

 Score = 76.6 bits (187), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 36/95 (37%), Positives = 54/95 (56%), Gaps = 7/95 (7%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDG 293
           YE LL L E +G ++ RGL+   +  LP+  +      N SN       CV+C  D+E  
Sbjct: 423 YEALLNLAERLGEAKPRGLTKADIEQLPSYRF------NPSNHQSEQTLCVVCMCDFESR 476

Query: 294 ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 477 QLLRVLPCNHEFHAKCVDKWLKGNRTCPICRADAS 511

Mus musculus (taxid: 10090)

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

 Score = 75.9 bits (185), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 53/95 (55%), Gaps = 7/95 (7%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDG 293
           YE LL L E +G ++ RGL+   +  LP+  +     Q+          CV+C  D+E  
Sbjct: 420 YEALLNLAERLGEAKPRGLTKADIEQLPSYRFNPNNHQSEQT------LCVVCMCDFESR 473

Query: 294 ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 474 QLLRVLPCNHEFHAKCVDKWLKANRTCPICRADAS 508

Homo sapiens (taxid: 9606)

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

 Score = 73.6 bits (179), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 56/95 (58%), Gaps = 7/95 (7%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDG 293
           YE LL L E +G ++ RGL+   +  LP+  +     +N  ++  L   CV+C  D+E  
Sbjct: 353 YEALLNLAERLGEAKPRGLTKADIEQLPSYRFN---LENHQSEQTL---CVVCFSDFESR 406

Query: 294 ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 407 QLLRVLPCNHEFHAKCVDKWLKTNRTCPICRADAS 441

Danio rerio (taxid: 7955)

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

 Score = 73.2 bits (178), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 7/95 (7%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDG 293
           YE LL L E +G ++ RGL+   +  LP+  +   + Q+          CV+C  D+E  
Sbjct: 337 YEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQSEQT------LCVVCFSDFEAR 390

Query: 294 ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 391 QLLRVLPCNHEFHTKCVDKWLKANRTCPICRADAS 425

Homo sapiens (taxid: 9606)

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

 Score = 72.4 bits (176), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 7/95 (7%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDG 293
           YE LL L E +G ++ RGL+   +  LP+  +   + Q+          CV+C  D+E  
Sbjct: 255 YEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQSEQT------LCVVCFSDFEVR 308

Query: 294 ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 309 QLLRVLPCNHEFHAKCVDKWLKANRTCPICRADAS 343

Rattus norvegicus (taxid: 10116)

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

 Score = 72.4 bits (176), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 54/95 (56%), Gaps = 7/95 (7%)

Query: 235 YEELLALGEVVG-SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDG 293
           YE LL L E +G ++ RGL+   +  LP+  +   + Q+          CV+C  D+E  
Sbjct: 312 YEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQSEQT------LCVVCFSDFEVR 365

Query: 294 ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           + L VL C H +H++C++ WLK N+ CP+C A+ S
Sbjct: 366 QLLRVLPCNHEFHAKCVDKWLKANRTCPICRADAS 400

Mus musculus (taxid: 10090)

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

 Score = 65.1 bits (157), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 37/104 (35%), Positives = 53/104 (50%), Gaps = 9/104 (8%)

Query: 234 SYEELLALGEVVGSESRGLSADTL--ATLPTVNYKGGTSQNGSNDSCLGF------SCVI 285
           SYEELL L + +G+ +RG   +T+   T P   YK    Q+G      G        C I
Sbjct: 238 SYEELLQLEDRLGNVTRGAVQNTIERFTFPH-KYKKRRPQDGKGKKDEGEESDTDEKCTI 296

Query: 286 CRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329
           C    EDGE +  L C H +H  C++ WL ++K CP+C  ++ T
Sbjct: 297 CLSMLEDGEDVRRLPCMHLFHQLCVDQWLAMSKKCPICRVDIET 340

Homo sapiens (taxid: 9606)

>sp|Q7T037|RF12B_XENLA E3 ubiquitin-protein ligase RNF12-B OS=Xenopus laevis GN=rnf12-b PE=2 SV=1

 Score = 65.1 bits (157), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 34/100 (34%), Positives = 48/100 (48%), Gaps = 9/100 (9%)

Query: 233 LSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYED 292
           LS  +   L E    + RGL+ + +  L T NY       G ND+    +C +C  +Y +
Sbjct: 662 LSLAQFFLLNEDDDDQPRGLTKEQIDNLSTRNY-------GENDALK--TCSVCITEYTE 712

Query: 293 GETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGH 332
           G  L  L C H YH  CI+ WL  N  CP+C   V  +G+
Sbjct: 713 GNKLRKLPCSHEYHIHCIDRWLSENSTCPICRRAVLVAGN 752

Acts as a E3 ubiquitin-protein ligase specific for ldb1, mediating ubiquitination and proteasome-dependent degradation of excess ldb1 in a RING-dependent manner. Does not degrade ldb1 bound to lhx1/lim1, nor lim1 itself and thus contributes to the establishment of proper ldb1-lhx1/lim1 stoichiometry and the formation of a ldb1-lhx1/lim1 complex. Interferes with Spemann organizer function and suppresses secondary axis formation induced by ldb1 and lhx1/lim1.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	333
356575432	335	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.801	0.797	0.709	1e-100
359484061	452	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.831	0.612	0.645	1e-100
296085296	308	unnamed protein product [Vitis vinifera]	0.831	0.899	0.645	1e-100
356575434	341	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.801	0.782	0.688	2e-97
255561042	316	ring finger protein, putative [Ricinus c	0.810	0.854	0.716	2e-97
356536410	344	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.786	0.761	0.715	3e-92
357444871	333	RING finger protein [Medicago truncatula	0.885	0.885	0.652	2e-91
217075302	332	unknown [Medicago truncatula]	0.894	0.897	0.654	1e-90
356536412	353	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.786	0.742	0.686	9e-90
357444873	339	RING finger protein [Medicago truncatula	0.885	0.870	0.640	1e-89

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

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 203/286 (70%), Positives = 228/286 (79%), Gaps = 19/286 (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 DNNPSVEYDSDVFSSDEAYARALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTW 225
            +NP++E+D DVFSSDEAYARALQ+AEER+MAARLLA A I+DRE ED E+HG +SQD W
Sbjct: 172 HDNPTIEFDPDVFSSDEAYARALQEAEEREMAARLLAFAGINDREEEDIEEHGANSQDAW 231

Query: 226 EEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVI 285
           E+VDPDELSYEELLALGE VG+ESRGLS DT+A LP+VNYK G+ Q+GSND     SCVI
Sbjct: 232 EDVDPDELSYEELLALGEAVGTESRGLSTDTIACLPSVNYKTGSDQHGSND-----SCVI 286

Query: 286 CRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
           CR+DYED E+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 287 CRVDYEDDESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 332

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 204/316 (64%), Positives = 235/316 (74%), Gaps = 39/316 (12%)

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 DTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWL 314
           DT+A+LP+V YK  ++Q GSND     SCVICRLDYEDGETLTVLSCKHSYHSECINNWL
Sbjct: 381 DTIASLPSVTYKAQSNQEGSND-----SCVICRLDYEDGETLTVLSCKHSYHSECINNWL 435

Query: 315 KINKVCPVCSAEVSTS 330
           +INKVCP+CS EVS+S
Sbjct: 436 QINKVCPICSTEVSSS 451

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 204/316 (64%), Positives = 235/316 (74%), Gaps = 39/316 (12%)

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 DTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWL 314
           DT+A+LP+V YK  ++Q GSND     SCVICRLDYEDGETLTVLSCKHSYHSECINNWL
Sbjct: 237 DTIASLPSVTYKAQSNQEGSND-----SCVICRLDYEDGETLTVLSCKHSYHSECINNWL 291

Query: 315 KINKVCPVCSAEVSTS 330
           +INKVCP+CS EVS+S
Sbjct: 292 QINKVCPICSTEVSSS 307

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 =  362 bits (929), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 201/292 (68%), Positives = 226/292 (77%), Gaps = 25/292 (8%)

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 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCL 279
           +SQD WE+VDPDELSYEELLALGE VG+ESRGLS DT+A LP+VNYK G+ Q+GSND   
Sbjct: 232 NSQDAWEDVDPDELSYEELLALGEAVGTESRGLSTDTIACLPSVNYKTGSDQHGSND--- 288

Query: 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
             SCVICR+DYED E+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 289 --SCVICRVDYEDDESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 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 =  362 bits (928), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 207/289 (71%), Positives = 230/289 (79%), Gaps = 19/289 (6%)

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     +       DAFDVH      
Sbjct: 107 LHHHDDDDFGDPDDDDDDDDDDDDETDGDDDDEDDHGTDDV-------DAFDVH------ 153

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

Query: 225 WEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCV 284
           WEEVDPDELSYEEL+ALGEVVGSESRGLSADT+A+LPTVNYK G+SQNG+ND     SCV
Sbjct: 213 WEEVDPDELSYEELIALGEVVGSESRGLSADTIASLPTVNYKAGSSQNGTND-----SCV 267

Query: 285 ICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
           ICRLDYEDGETLT+LSCKHSYHSECINNWLKINKVCPVCS EVSTSGHS
Sbjct: 268 ICRLDYEDGETLTLLSCKHSYHSECINNWLKINKVCPVCSTEVSTSGHS 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 =  344 bits (883), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 201/281 (71%), Positives = 225/281 (80%), Gaps = 19/281 (6%)

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 DELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDY 290
           DELSYEELLAL EVVG+ESRGLS DT+A LP+VNYK G+ Q+GS+D     SCVICR+DY
Sbjct: 246 DELSYEELLALSEVVGTESRGLSTDTIACLPSVNYKTGSDQHGSHD-----SCVICRVDY 300

Query: 291 EDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
           EDGE+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 301 EDGESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 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 =  342 bits (876), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 212/325 (65%), Positives = 247/325 (76%), Gaps = 30/325 (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 ALQDAEERDMAARLLALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVG 246
           ALQ+AEER+MAARLLALA IHD++ ED E+H  +SQD WE+VDPDELSYEELLALGEVVG
Sbjct: 191 ALQEAEEREMAARLLALAGIHDQDAEDMEEHAANSQDAWEDVDPDELSYEELLALGEVVG 250

Query: 247 SESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYH 306
           +ESRGLS DT+A LP+VNYK G+ Q GSND     SCVICR+DYED E+LTVLSCKH YH
Sbjct: 251 TESRGLSTDTIACLPSVNYKAGSDQLGSND-----SCVICRVDYEDDESLTVLSCKHLYH 305

Query: 307 SECINNWLKINKVCPVCSAEVSTSG 331
            ECINNWLKINKVCPVCS EVS SG
Sbjct: 306 PECINNWLKINKVCPVCSTEVSASG 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 =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 210/321 (65%), Positives = 243/321 (75%), Gaps = 23/321 (7%)

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 GLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECI 310
           GLS DT+A LP+VNYK G+ Q GSND     SCVICR+DYED E+LTVLSCKH YH ECI
Sbjct: 254 GLSTDTIACLPSVNYKAGSDQLGSND-----SCVICRVDYEDDESLTVLSCKHLYHPECI 308

Query: 311 NNWLKINKVCPVCSAEVSTSG 331
           NNWLKINKVCPVCS EV  SG
Sbjct: 309 NNWLKINKVCPVCSTEVFASG 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 =  336 bits (861), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 199/290 (68%), Positives = 225/290 (77%), Gaps = 28/290 (9%)

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 QDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGF 281
           QD WE+VDPDELSYEELLAL EVVG+ESRGLS DT+A LP+VNYK G+ Q+GS+D     
Sbjct: 246 QDAWEDVDPDELSYEELLALSEVVGTESRGLSTDTIACLPSVNYKTGSDQHGSHD----- 300

Query: 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
           SCVICR+DYEDGE+LTVLSCKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 301 SCVICRVDYEDGESLTVLSCKHLYHPECINNWLKINKVCPVCSTEVSASG 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 =  335 bits (860), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 212/331 (64%), Positives = 245/331 (74%), Gaps = 36/331 (10%)

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 LGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLS 300
           LGEVVG+ESRGLS DT+A LP+VNYK G+ Q GSND     SCVICR+DYED E+LTVLS
Sbjct: 251 LGEVVGTESRGLSTDTIACLPSVNYKAGSDQLGSND-----SCVICRVDYEDDESLTVLS 305

Query: 301 CKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
           CKH YH ECINNWLKINKVCPVCS EVS SG
Sbjct: 306 CKHLYHPECINNWLKINKVCPVCSTEVSASG 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	333
TAIR|locus:2092271	340	AT3G19910 [Arabidopsis thalian	0.480	0.470	0.682	1.4e-76
TAIR|locus:504955576	248	BB "BIG BROTHER" [Arabidopsis	0.435	0.584	0.436	2.8e-27
TAIR|locus:2145086	280	AT5G52140 [Arabidopsis thalian	0.312	0.371	0.401	2e-23
TAIR|locus:2075641	210	AT3G47180 [Arabidopsis thalian	0.345	0.547	0.396	4.9e-21
TAIR|locus:2086305	486	AT3G15070 [Arabidopsis thalian	0.372	0.255	0.338	1.4e-15
ZFIN|ZDB-GENE-101206-1	474	wu:fb39e10 "wu:fb39e10" [Danio	0.273	0.191	0.41	7.5e-15
TAIR|locus:2160031	691	AT5G42940 [Arabidopsis thalian	0.300	0.144	0.377	7.6e-15
TAIR|locus:2124271	666	MBR2 "MED25 BINDING RING-H2 PR	0.321	0.160	0.351	9.2e-15
TAIR|locus:2149378	520	AT5G24870 [Arabidopsis thalian	0.330	0.211	0.355	9.6e-15
TAIR|locus:2009660	494	AT1G53190 [Arabidopsis thalian	0.369	0.248	0.333	3e-14

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

 Score = 588 (212.0 bits), Expect = 1.4e-76, Sum P(2) = 1.4e-76
 Identities = 114/167 (68%), Positives = 135/167 (80%)

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

Query:   224 TWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSC 283
              W+E+DPDELSYEELLALG++VG+ESRGLSADT+A+LP+  YK G +QNG+N+SC     
Sbjct:   234 AWDEMDPDELSYEELLALGDIVGTESRGLSADTIASLPSKRYKEGDNQNGTNESC----- 288

Query:   284 VICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
             VICRLDYED E L +L CKHSYHSECINNWLKINKVCPVCSAEVSTS
Sbjct:   289 VICRLDYEDDEDLILLPCKHSYHSECINNWLKINKVCPVCSAEVSTS 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 = 306 (112.8 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 72/165 (43%), Positives = 96/165 (58%)

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-VDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFS 282
             +W++ +DPD ++YEEL+ LGE VG+ESRGLS + + TLPT  YK G+  +       G  
Sbjct:   140 SWQDDIDPDTMTYEELVELGEAVGTESRGLSQELIETLPTKKYKFGSIFSRKR---AGER 196

Query:   283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327
             CVIC+L Y+ GE    L CKH YHSECI+ WL INKVCPVC++EV
Sbjct:   197 CVICQLKYKIGERQMNLPCKHVYHSECISKWLSINKVCPVCNSEV 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 = 215 (80.7 bits), Expect = 2.0e-23, Sum P(3) = 2.0e-23
 Identities = 47/117 (40%), Positives = 63/117 (53%)

Query:   220 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCL 279
             H+    E  DP+ ++YEEL  LG+ VG   +GLS + ++ L T  Y  GT        CL
Sbjct:   166 HNPTDDENNDPENMTYEELTELGDSVGDVGKGLSQERISRLRTHKY--GTKTKSWY--CL 221

Query:   280 GFS---------CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327
                         C IC ++Y  G+ +T L CKH YH +CI+ WLK NKVC +C AEV
Sbjct:   222 HMKKKFVADDSQCSICLMEYAKGDKITTLPCKHIYHKDCISQWLKQNKVCCICKAEV 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 = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 50/126 (39%), Positives = 78/126 (61%)

Query:   211 IEDPEDHGG-HSQDTW----EEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNY 265
             +ED E +     +D +    +E+DPD+LSYEEL+ALG+ +G E+RGL+   ++T   +N 
Sbjct:    90 LEDQESNSNLEEEDDFLEEEDEIDPDQLSYEELIALGDFIGVENRGLTPIEISTC--LNA 147

Query:   266 KGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCS 324
                   +  N+      CV+C++++E+ E+L VL  C H YHSECI  WL+  K+CP+C 
Sbjct:   148 STYVFSHNKNEID---RCVVCQMEFEERESLVVLRPCDHPYHSECITKWLETKKICPICC 204

Query:   325 AEVSTS 330
             +E S S
Sbjct:   205 SEPSVS 210

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 203 (76.5 bits), Expect = 1.4e-15, P = 1.4e-15
 Identities = 47/139 (33%), Positives = 74/139 (53%)

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------PTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHS 307
             ++ +  L        +N + G S +   DSC      IC+ +Y++ + +  L C H YH+
Sbjct:   398 SEDVKELLKRRTSTRINLEEGPSTDLETDSC-----TICQENYKNEDKIATLDCMHKYHA 452

Query:   308 ECINNWLKINKVCPVCSAE 326
             EC+  WL I  VCP+C +E
Sbjct:   453 ECLKKWLVIKNVCPICKSE 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 = 173 (66.0 bits), Expect = 7.5e-15, Sum P(2) = 7.5e-15
 Identities = 41/100 (41%), Positives = 51/100 (51%)

Query:   234 SYEELLALGEVVGS--ESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYE 291
             +YE LLA  E  G+      LS   +  LP   Y   T   G  D      C IC  +Y+
Sbjct:   379 NYEALLAFEEQQGAVMAKNTLSKAEIERLPIKTYDP-THSAGKTD------CQICFSEYK 431

Query:   292 DGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
              GE L +L C H YH +CI+ WLK N  CP+C A+VS SG
Sbjct:   432 AGERLRMLPCLHDYHVKCIDRWLKENATCPICRADVSESG 471

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

 Score = 199 (75.1 bits), Expect = 7.6e-15, P = 7.6e-15
 Identities = 40/106 (37%), Positives = 58/106 (54%)

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

Query:   278 CLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC 323
             C    CV C+ +Y +GE +  L C H +HS+CI  WLK   +CP+C
Sbjct:   637 C----CV-CQEEYTEGEDMGTLECGHEFHSQCIKEWLKQKNLCPIC 677

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

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

 Score = 198 (74.8 bits), Expect = 9.2e-15, P = 9.2e-15
 Identities = 39/111 (35%), Positives = 62/111 (55%)

Query:   220 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCL 279
             H +     +D D +SYEELLALGE +G  S GLS + +  +    +K  +S  GS+    
Sbjct:   559 HDRHRDMRLDVDNMSYEELLALGERIGDVSTGLSEEVILKVMK-QHKHTSSAAGSHQDME 617

Query:   280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC-SAEVST 329
                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

TAIR|locus:2149378 AT5G24870 [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 9.6e-15, P = 9.6e-15
 Identities = 42/118 (35%), Positives = 61/118 (51%)

Query:   220 HSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLA-TLPTVNYKGGTSQNGSNDSC 278
             H Q     +D D +SYEELLAL E +G+ S  LS + L  +L +  Y+     + S+D C
Sbjct:   403 HDQHRDMRLDIDNMSYEELLALEEKMGTVSTALSEEALLKSLKSSIYR---PNDESDDIC 459

Query:   279 LG----FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGH 332
             L       C IC+ +Y DG+ +  L C+H YH  C   WL++   CP+C     +  H
Sbjct:   460 LNKDDDVKCSICQEEYVDGDEVGTLPCQHKYHVSCAQQWLRMKNWCPICKTSAESQPH 517

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2009660 AT1G53190 [Arabidopsis thaliana (taxid:3702)]

 Score = 191 (72.3 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 44/132 (33%), Positives = 70/132 (53%)

Query:   201 LALAEIHDREIEDPEDHGGHSQDTWEEVDPDELSYEELLALGEVVGSESRGLSADTLAT- 259
             +AL E  D       +H  H +D    +D +E+SYEELLAL E +G+ + GL  + +   
Sbjct:   357 VALLEFGDFLGGSGNNHIDHHRDM--RLDIEEMSYEELLALSERIGTVNTGLPEEDVKNH 414

Query:   260 LPT-----VNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWL 314
             L T     +N++  +S   + D      C IC+  +++ E +  L C H YH+EC+  WL
Sbjct:   415 LKTRTCSGINFEKESSSPRTKDLETE-PCTICQESFKNEEKIATLDCGHEYHAECLEKWL 473

Query:   315 KINKVCPVCSAE 326
              +  VCP+C +E
Sbjct:   474 IVKNVCPICKSE 485

GO:0005634 "nucleus" evidence=ISM

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

---

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, ., -	0.6236	0.7687	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	333
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-11
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	7e-11
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	8e-10
smart00184	40	smart00184, RING, Ring finger	3e-09
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	9e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	1e-05
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	4e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	4e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	7e-04
smart00249	47	smart00249, PHD, PHD zinc finger	0.002
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	0.002
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	0.004

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

 Score = 68.6 bits (168), Expect = 3e-15
 Identities = 19/46 (41%), Positives = 28/46 (60%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326
             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 = 57.5 bits (139), Expect = 3e-11
 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV-CPVCSAEV 327
           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 = 56.4 bits (136), Expect = 7e-11
 Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 2/43 (4%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC 323
             C IC     D   + +  C H +  ECI  +LK    CP+C
Sbjct: 3   LECPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPIC 43

Length = 45

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

 Score = 54.4 bits (131), Expect = 8e-10
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 10/51 (19%)

Query: 283 CVICRLDYED--------GETLTVL--SCKHSYHSECINNWLKINKVCPVC 323
           C ICR  ++         G+   V+   C H++H  CI+ WLK    CP+C
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLC 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 = 51.7 bits (124), Expect = 3e-09
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVC 323
           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 = 52.7 bits (126), Expect = 9e-08
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV-CPVCSAEV 327
           G  C IC  ++   + L VL C H +H  C++ WL      CPVC   +
Sbjct: 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 3/42 (7%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKV-CPVC 323
           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 = 42.5 bits (100), Expect = 1e-05
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 2/43 (4%)

Query: 283 CVICRLDYEDGETLTVL--SCKHSYHSECINNWLKINKVCPVC 323
           C  C+     G+   V+   C H++H  CI  WL    VCP+ 
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLD 76

Length = 88

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

 Score = 45.0 bits (107), Expect = 4e-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 = 43.4 bits (103), Expect = 1e-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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 18/84 (21%)

Query: 250 RGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICR--LDYEDGETLTV--------L 299
           R  + D  A  PT        Q  ++D     +C IC   + + D E L          L
Sbjct: 265 RRATKDLNAMYPTAT----EEQLTNSDR----TCTICMDEMFHPDHEPLPRGLDMTPKRL 316

Query: 300 SCKHSYHSECINNWLKINKVCPVC 323
            C H  H  C+ NWL+  + CP+C
Sbjct: 317 PCGHILHLHCLKNWLERQQTCPIC 340

Length = 491

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

 Score = 38.2 bits (89), Expect = 4e-04
 Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 13/54 (24%)

Query: 283 CVICRLDYE----------DGETLTVLSCKHSYHSECINNWLKINKV---CPVC 323
           C ICR+ ++          D   L    CKH++H  CI  WL        CP+C
Sbjct: 24  CGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMC 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|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 41.1 bits (96), Expect = 7e-04
 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|214584 smart00249, PHD, PHD zinc finger

 Score = 35.7 bits (82), Expect = 0.002
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 5/46 (10%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECIN----NWLKINK-VCPVC 323
           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|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 38.6 bits (90), Expect = 0.002
 Identities = 25/72 (34%), Positives = 31/72 (43%), Gaps = 9/72 (12%)

Query: 257 LATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGET----LTVLS-CKHSYHSECIN 311
           L T+P+V  +     N S D      C IC     D E       +LS C H +  ECI+
Sbjct: 155 LKTIPSVLSEYEKLYNRSKDK----ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECID 210

Query: 312 NWLKINKVCPVC 323
            W K    CPVC
Sbjct: 211 IWKKEKNTCPVC 222

Length = 238

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 38.4 bits (89), Expect = 0.004
 Identities = 18/49 (36%), Positives = 29/49 (59%)

Query: 107 DEDDDFGGDGDDDDDDDDEDESDAGDHENHECDGSDFVIDDDDEDEDAF 155
           +E+DD   D DDDDD+D++D+ D  D ++ + D  D  + DD   +D  
Sbjct: 51  EEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGN 99

This is a family of uncharacterized proteins. Length = 449

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	333
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.68
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.53
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.35
PHA02929	238	N1R/p28-like protein; Provisional	99.31
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.27
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.17
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.06
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.03
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.03
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.01
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.97
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.96
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.89
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.89
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.88
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.86
PHA02926	242	zinc finger-like protein; Provisional	98.85
PF14634	44	zf-RING_5: zinc-RING finger domain	98.81
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.79
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.77
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.77
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.75
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.7
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.64
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.55
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.48
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.46
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.4
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.37
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.36
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.33
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.32
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.29
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.23
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.22
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.11
KOG4445	368	consensus Uncharacterized conserved protein, conta	98.02
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.89
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.77
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.76
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.66
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.51
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.39
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.36
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.33
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.32
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.16
COG5152	259	Uncharacterized conserved protein, contains RING a	97.1
KOG2660	331	consensus Locus-specific chromosome binding protei	97.08
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.07
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.96
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.85
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.83
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.5
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.45
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.37
PHA03096	284	p28-like protein; Provisional	96.36
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.34
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.33
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.16
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.1
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.1
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.06
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.0
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.99
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.94
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.91
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	95.86
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.82
PF04641	260	Rtf2: Rtf2 RING-finger	95.76
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.7
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.66
PHA02862	156	5L protein; Provisional	95.57
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.48
KOG1940	276	consensus Zn-finger protein [General function pred	95.24
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.07
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.03
KOG3002	299	consensus Zn finger protein [General function pred	95.01
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	94.56
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	93.94
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.75
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.67
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.99
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	92.92
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	92.64
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.61
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.5
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.64
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	91.64
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	91.6
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	91.19
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.09
KOG1609	323	consensus Protein involved in mRNA turnover and st	90.87
PF10446	458	DUF2457: Protein of unknown function (DUF2457); In	90.8
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	90.37
KOG0825	1134	consensus PHD Zn-finger protein [General function	90.19
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	89.44
KOG1829	580	consensus Uncharacterized conserved protein, conta	89.31
KOG3899	381	consensus Uncharacterized conserved protein [Funct	89.27
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	89.06
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	88.96
KOG3053	293	consensus Uncharacterized conserved protein [Funct	88.78
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	86.71
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	86.61
KOG1832	1516	consensus HIV-1 Vpr-binding protein [Cell cycle co	86.2
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	84.82
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	84.72
KOG0269	839	consensus WD40 repeat-containing protein [Function	83.77
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	83.66
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	83.13
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	80.55
KOG3005	276	consensus GIY-YIG type nuclease [General function	80.53
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	80.05

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

Probab=99.68  E-value=2.5e-17  Score=160.86  Aligned_cols=79  Identities=34%  Similarity=0.854  Sum_probs=68.8

Q ss_pred             CCCCCCHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCcccc
Q 019980          248 ESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAE  326 (333)
Q Consensus       248 ~s~GlS~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~  326 (333)
                      ..+++.+..++++|..+|+........ +.     |+|||+.|..|+++++|||+|.||..||.+||..++ .||+||+.
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~-----CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~d  276 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDAT-DT-----CAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRD  276 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCC-ce-----EEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCc
Confidence            345789999999999999988776544 33     999999999999999999999999999999998775 59999999


Q ss_pred             ccCCCC
Q 019980          327 VSTSGH  332 (333)
Q Consensus       327 V~~s~~  332 (333)
                      +.+...
T Consensus       277 i~~~~~  282 (348)
T KOG4628|consen  277 IRTDSG  282 (348)
T ss_pred             CCCCCC
Confidence            987653

>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=99.53  E-value=2.8e-15  Score=104.92  Aligned_cols=42  Identities=50%  Similarity=1.198  Sum_probs=40.0

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCS  324 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR  324 (333)
                      |+||++.|..++.+++|+|+|+||..||..||+.+++||+||
T Consensus         3 C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    3 CPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             ETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            999999999999999999999999999999999999999997

...

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

Probab=99.35  E-value=4e-13  Score=128.41  Aligned_cols=51  Identities=33%  Similarity=0.968  Sum_probs=47.3

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~s  330 (333)
                      +-+|+|||+.|..++++++|||.|.||..||.+||. .+..||+||++|++.
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp  374 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP  374 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence            456999999999999999999999999999999998 788999999999863

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.31  E-value=1.3e-12  Score=122.60  Aligned_cols=77  Identities=27%  Similarity=0.456  Sum_probs=56.7

Q ss_pred             CCCCCHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCe-----eEEeCCCCcccHHHHHHHHhcCCCCCCc
Q 019980          249 SRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGET-----LTVLSCKHSYHSECINNWLKINKVCPVC  323 (333)
Q Consensus       249 s~GlS~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~-----l~~LPCgH~FH~~CI~~WL~~kksCPvC  323 (333)
                      .++.++..+..||.+..........    .....|+||++.+..+..     .+.++|+|.||..||.+|++.+.+||+|
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~----~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlC  222 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNR----SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVC  222 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcC----CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCC
Confidence            4667999999999876443222111    122349999999875431     2344699999999999999999999999


Q ss_pred             cccccC
Q 019980          324 SAEVST  329 (333)
Q Consensus       324 R~~V~~  329 (333)
                      |..+..
T Consensus       223 R~~~~~  228 (238)
T PHA02929        223 RTPFIS  228 (238)
T ss_pred             CCEeeE
Confidence            998763

>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=99.27  E-value=3.1e-12  Score=99.44  Aligned_cols=42  Identities=43%  Similarity=0.991  Sum_probs=34.9

Q ss_pred             ccccccccCCC----------CeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980          283 CVICRLDYEDG----------ETLTVLSCKHSYHSECINNWLKINKVCPVCS  324 (333)
Q Consensus       283 C~ICLe~f~~g----------d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR  324 (333)
                      |+||++.|...          -.+...+|+|.||..||.+||+.+.+||+||
T Consensus        22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   22 CAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             ETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             ccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            99999999422          3455568999999999999999999999998

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=99.17  E-value=1.2e-11  Score=121.09  Aligned_cols=48  Identities=33%  Similarity=0.842  Sum_probs=41.0

Q ss_pred             Ccccccccc-cCCCC---------eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLD-YEDGE---------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~-f~~gd---------~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||+++ |.++.         +.++|||||+||..|++.|+.++.+||+||.+|.
T Consensus       288 ~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         288 RTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             CeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            449999999 55441         4478999999999999999999999999999943

>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=99.06  E-value=1.4e-10  Score=78.75  Aligned_cols=43  Identities=35%  Similarity=1.041  Sum_probs=36.5

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEV  327 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V  327 (333)
                      |+||+..+.  ..+..++|+|.||..||..|++. +..||+||+.+
T Consensus         2 C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           2 CPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            999999983  34555569999999999999997 77899999864

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

Probab=99.03  E-value=9.9e-11  Score=111.51  Aligned_cols=49  Identities=22%  Similarity=0.611  Sum_probs=44.4

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~  331 (333)
                      ...|+|||+....+   ..+||||+||..||..|+..+..||+||..+.++.
T Consensus       239 ~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  239 TRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            46699999998777   78999999999999999999999999999987753

>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=1.5e-10  Score=83.21  Aligned_cols=45  Identities=33%  Similarity=0.770  Sum_probs=38.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||++....   ++.+||+|. ||..|+..|++.++.||+||++|.
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            349999998654   588899999 999999999999999999999985

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.01  E-value=2.2e-10  Score=104.20  Aligned_cols=48  Identities=35%  Similarity=0.782  Sum_probs=40.2

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc----------------CCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI----------------NKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~----------------kksCPvCR~~V~~s  330 (333)
                      ...|+||++.+..+   ++++|+|.||..||.+|+..                ...||+||..|...
T Consensus        18 ~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~   81 (193)
T PLN03208         18 DFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA   81 (193)
T ss_pred             ccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence            35599999999876   67889999999999999852                24799999999653

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

Probab=98.97  E-value=3.8e-10  Score=77.15  Aligned_cols=39  Identities=44%  Similarity=1.001  Sum_probs=33.9

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC  323 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvC  323 (333)
                      |+||++.+..  .++.++|||+||..||.+|++.++.||+|
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  46788999999999999999999999998

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

Probab=98.96  E-value=3.1e-10  Score=105.25  Aligned_cols=48  Identities=42%  Similarity=0.786  Sum_probs=41.1

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC---CCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k---ksCPvCR~~V~~s  330 (333)
                      .+.|-|||+.-+.+   +++.|||.||+.||.+||..+   +.|||||..|...
T Consensus        47 ~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   47 FFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             ceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            45599999998877   677799999999999999754   6799999998754

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

Probab=98.89  E-value=1.2e-09  Score=87.48  Aligned_cols=47  Identities=34%  Similarity=0.919  Sum_probs=37.0

Q ss_pred             cccccccccC--------CCC--eeEEeCCCCcccHHHHHHHHhc---CCCCCCcccccc
Q 019980          282 SCVICRLDYE--------DGE--TLTVLSCKHSYHSECINNWLKI---NKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~--------~gd--~l~~LPCgH~FH~~CI~~WL~~---kksCPvCR~~V~  328 (333)
                      .|.||+..|.        +|+  .++.-.|+|.||..||.+||..   +..||+||+...
T Consensus        23 ~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   23 VCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             ceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            3999999997        222  3344469999999999999975   478999998754

>smart00504 Ubox Modified RING finger domain

Probab=98.89  E-value=1.8e-09  Score=80.00  Aligned_cols=46  Identities=24%  Similarity=0.458  Sum_probs=41.4

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ..|+||+..+..+   ++++|||+|+..||.+|++.+++||+|+..+..
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            3499999999987   678999999999999999999999999998853

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=98.88  E-value=6.9e-10  Score=115.05  Aligned_cols=49  Identities=27%  Similarity=0.807  Sum_probs=43.4

Q ss_pred             CCcccccccccCCCCe--eEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGET--LTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~--l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ...|+||++.+..+.+  .++|||+|+||..||..||++..+||+||..+.
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            3459999999998655  688999999999999999999999999999554

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

Probab=98.86  E-value=1.5e-09  Score=97.30  Aligned_cols=47  Identities=28%  Similarity=0.727  Sum_probs=40.3

Q ss_pred             CcccccccccCCCCee-EEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETL-TVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l-~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ..|+|||..|...  + ..+.|||+||..||+.-|+....||+|++.|..
T Consensus       132 ~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  132 YKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             cCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            3499999998743  4 336799999999999999999999999998864

>PHA02926 zinc finger-like protein; Provisional

Probab=98.85  E-value=1.7e-09  Score=100.16  Aligned_cols=48  Identities=29%  Similarity=0.683  Sum_probs=36.6

Q ss_pred             CcccccccccCCC-----CeeEEe-CCCCcccHHHHHHHHhcC------CCCCCcccccc
Q 019980          281 FSCVICRLDYEDG-----ETLTVL-SCKHSYHSECINNWLKIN------KVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~g-----d~l~~L-PCgH~FH~~CI~~WL~~k------ksCPvCR~~V~  328 (333)
                      .+|+|||+.....     ....+| +|+|.||..||..|.+.+      ++||+||..+.
T Consensus       171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4499999986322     123345 699999999999999753      46999999875

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.81  E-value=3.4e-09  Score=74.42  Aligned_cols=43  Identities=26%  Similarity=0.697  Sum_probs=38.3

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  325 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~  325 (333)
                      |.||+..|.......+++|+|+||..||..+......||+||+
T Consensus         2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            9999999965566788899999999999999867789999985

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

Probab=98.79  E-value=3.5e-09  Score=74.09  Aligned_cols=38  Identities=34%  Similarity=0.774  Sum_probs=30.4

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVC  323 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvC  323 (333)
                      |+||+..|..+   +.|+|||.|+..||..|.+..    ..||+|
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            89999999988   889999999999999999754    369998

>smart00184 RING Ring finger

Probab=98.77  E-value=6.8e-09  Score=67.91  Aligned_cols=38  Identities=42%  Similarity=1.079  Sum_probs=32.8

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVC  323 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvC  323 (333)
                      |+||+...   ...+.++|+|.||..||..|++ .+..||+|
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            88998884   3458889999999999999998 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)

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

Probab=98.77  E-value=4.2e-09  Score=83.14  Aligned_cols=46  Identities=33%  Similarity=0.794  Sum_probs=36.1

Q ss_pred             ccccccccC-----------CCC--eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          283 CVICRLDYE-----------DGE--TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       283 C~ICLe~f~-----------~gd--~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      |+||+..|.           +++  ++..-.|.|.||..||.+||..++.||+||++..
T Consensus        23 CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~   81 (88)
T COG5194          23 CAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV   81 (88)
T ss_pred             hhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence            888887775           222  2222349999999999999999999999998754

>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=98.75  E-value=4.9e-09  Score=71.80  Aligned_cols=39  Identities=38%  Similarity=1.057  Sum_probs=34.3

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHh--cCCCCCCc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK--INKVCPVC  323 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~--~kksCPvC  323 (333)
                      |+||++.+..+  +++++|+|.||..||.+|++  ....||+|
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            89999998866  35889999999999999998  55689998

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=98.70  E-value=7.8e-09  Score=103.53  Aligned_cols=46  Identities=33%  Similarity=0.721  Sum_probs=41.1

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ..|+||+..|..+   ++++|+|.||..||..||.....||+||..+..
T Consensus        27 l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        27 LRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            3499999999876   578999999999999999988899999998864

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=98.64  E-value=7e-09  Score=85.50  Aligned_cols=45  Identities=38%  Similarity=0.857  Sum_probs=35.9

Q ss_pred             ccccccccC-------------CCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980          283 CVICRLDYE-------------DGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV  327 (333)
Q Consensus       283 C~ICLe~f~-------------~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V  327 (333)
                      |+||+..+.             ..+.++.. -|.|.||..||.+||+++..||+|.++-
T Consensus        49 CAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   49 CAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             hHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            999987663             22333333 4999999999999999999999998864

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

Probab=98.62  E-value=1.3e-08  Score=103.05  Aligned_cols=49  Identities=27%  Similarity=0.802  Sum_probs=39.7

Q ss_pred             CcccccccccCCC--------------CeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDG--------------ETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~g--------------d~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~  329 (333)
                      ..|+|||..+...              .....+||.|+||..|+.+|+. .+..||+||..+++
T Consensus       572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4599999988621              1234569999999999999998 55699999999875

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

Probab=98.55  E-value=2.3e-08  Score=97.44  Aligned_cols=47  Identities=30%  Similarity=0.718  Sum_probs=43.0

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      +.|.||.+.|..+   .++||+|.||.-||...|..+..||.|+.++..+
T Consensus        24 LRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   24 LRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence            4599999999988   7889999999999999999999999999988643

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

Probab=98.48  E-value=3.8e-08  Score=77.18  Aligned_cols=47  Identities=34%  Similarity=0.958  Sum_probs=35.3

Q ss_pred             cccccccccCC--------CCeeE-Ee-CCCCcccHHHHHHHHhcC---CCCCCcccccc
Q 019980          282 SCVICRLDYED--------GETLT-VL-SCKHSYHSECINNWLKIN---KVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~--------gd~l~-~L-PCgH~FH~~CI~~WL~~k---ksCPvCR~~V~  328 (333)
                      .|.||+..|..        |+... ++ -|.|.||..||.+||..+   ..||+||+...
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            39999999973        22111 12 389999999999999644   57999998753

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

Probab=98.46  E-value=7.8e-08  Score=90.96  Aligned_cols=49  Identities=27%  Similarity=0.662  Sum_probs=41.5

Q ss_pred             CCCcccccccccCCCCeeEEeCCCCcccHHHHHH-HHhcCCC-CCCccccccCC
Q 019980          279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINN-WLKINKV-CPVCSAEVSTS  330 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~-WL~~kks-CPvCR~~V~~s  330 (333)
                      ....|+||++....+   ..+||||+||..||.. |=+++.- ||+||+.+.+.
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            356799999987766   7889999999999999 9877765 99999988654

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

Probab=98.40  E-value=2.3e-07  Score=67.01  Aligned_cols=41  Identities=32%  Similarity=0.841  Sum_probs=32.2

Q ss_pred             ccccccccCCCCeeEEeCCC-----CcccHHHHHHHHhcC--CCCCCcc
Q 019980          283 CVICRLDYEDGETLTVLSCK-----HSYHSECINNWLKIN--KVCPVCS  324 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCg-----H~FH~~CI~~WL~~k--ksCPvCR  324 (333)
                      |.||+... .+....++||.     |.||..||.+||..+  .+||+|+
T Consensus         2 CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        2 CRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             ccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            99999933 33444578975     889999999999655  4899995

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

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

Probab=98.40  E-value=1.4e-07  Score=96.08  Aligned_cols=44  Identities=23%  Similarity=0.603  Sum_probs=36.7

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-----CCCCCccccccC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAEVST  329 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-----ksCPvCR~~V~~  329 (333)
                      |+|||+....+   ..+.|||+||..||.+++...     +.||+||..|..
T Consensus       189 CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  189 CPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            99999997766   455599999999998887543     589999998865

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

Probab=98.37  E-value=2e-07  Score=72.21  Aligned_cols=46  Identities=26%  Similarity=0.474  Sum_probs=37.5

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~  329 (333)
                      +.|+||.+-+..+   +++||||+|...||.+||+. ..+||+|+..+..
T Consensus         5 f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    5 FLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            5699999999988   78999999999999999998 8899999998864

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=98.36  E-value=1e-07  Score=90.52  Aligned_cols=48  Identities=29%  Similarity=0.740  Sum_probs=41.4

Q ss_pred             CcccccccccCCCC-------eeEEeCCCCcccHHHHHHHHh--cCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGE-------TLTVLSCKHSYHSECINNWLK--INKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd-------~l~~LPCgH~FH~~CI~~WL~--~kksCPvCR~~V~  328 (333)
                      ..|+||-..+....       ++.+|.|+|+||..||+-|-.  ++.+||.||..|.
T Consensus       225 ~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  225 SVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             chhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            45999999887655       778899999999999999974  6679999999875

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

Probab=98.33  E-value=1.3e-07  Score=101.53  Aligned_cols=49  Identities=24%  Similarity=0.736  Sum_probs=36.6

Q ss_pred             CCcccccccccC-CCC--eeEEeC-CCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980          280 GFSCVICRLDYE-DGE--TLTVLS-CKHSYHSECINNWLKIN--KVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~-~gd--~l~~LP-CgH~FH~~CI~~WL~~k--ksCPvCR~~V~  328 (333)
                      ..+|+||+.-+. ...  +-.++| |+|+||..||.+|++.+  .+||+||.+++
T Consensus      1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            345999998766 111  112333 99999999999999865  58999998875

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

Probab=98.32  E-value=2.4e-07  Score=88.91  Aligned_cols=45  Identities=29%  Similarity=0.669  Sum_probs=40.5

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|.||-+.|..+   ..++|||.||.-||...|..+..||+||.+..
T Consensus        26 lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~   70 (391)
T COG5432          26 LRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC   70 (391)
T ss_pred             HHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence            3499999999887   67789999999999999999999999998754

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

Probab=98.29  E-value=2.7e-07  Score=83.42  Aligned_cols=43  Identities=26%  Similarity=0.711  Sum_probs=38.4

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  325 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~  325 (333)
                      ...|+||++.|..+   ++|||+|.||..||..|+.....||.||.
T Consensus        13 ~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   13 ELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             cccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            34599999999988   88999999999999999886678999994

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

Probab=98.23  E-value=9.3e-07  Score=62.36  Aligned_cols=38  Identities=32%  Similarity=0.783  Sum_probs=22.5

Q ss_pred             ccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcC----CCCC
Q 019980          283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKIN----KVCP  321 (333)
Q Consensus       283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~k----ksCP  321 (333)
                      |+||++ |...+ .-++|+|||+|+..||.+|++.+    ..||
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 76533 45779999999999999999854    3677

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

Probab=98.22  E-value=2e-07  Score=72.04  Aligned_cols=49  Identities=33%  Similarity=0.703  Sum_probs=24.5

Q ss_pred             cccccccccCCCCee--EEe---CCCCcccHHHHHHHHhc---C--------CCCCCccccccCC
Q 019980          282 SCVICRLDYEDGETL--TVL---SCKHSYHSECINNWLKI---N--------KVCPVCSAEVSTS  330 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l--~~L---PCgH~FH~~CI~~WL~~---k--------ksCPvCR~~V~~s  330 (333)
                      .|.||+..+.....+  .+.   .|+++||..||..||..   .        ..||.|+++|..+
T Consensus         4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            499999987633222  222   39999999999999963   1        2599999998643

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

Probab=98.11  E-value=2.1e-06  Score=86.35  Aligned_cols=50  Identities=26%  Similarity=0.676  Sum_probs=40.5

Q ss_pred             CCCCcccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          278 CLGFSCVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       278 ~~~~~C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .+...|+|||+-+...- .++...|.|.||..|+.+|  ...+||+||....+
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~p  223 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQSP  223 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcCc
Confidence            45677999999987543 2445569999999999999  67899999987763

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

Probab=98.02  E-value=1.6e-06  Score=83.63  Aligned_cols=50  Identities=32%  Similarity=0.779  Sum_probs=42.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-----------------------CCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-----------------------NKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-----------------------kksCPvCR~~V~~s  330 (333)
                      ..|+|||-.|..+..+++++|-|.||..|+.++|..                       .-.|||||..|...
T Consensus       116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e  188 (368)
T KOG4445|consen  116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE  188 (368)
T ss_pred             CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence            349999999999999999999999999999988721                       23799999988654

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

Probab=97.97  E-value=3.5e-06  Score=83.26  Aligned_cols=49  Identities=31%  Similarity=0.746  Sum_probs=37.7

Q ss_pred             CCcccccccccCCCC----eeEEeC-CCCcccHHHHHHHH--hc-----CCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGE----TLTVLS-CKHSYHSECINNWL--KI-----NKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd----~l~~LP-CgH~FH~~CI~~WL--~~-----kksCPvCR~~V~  328 (333)
                      ...|.||++.+...-    ...+|| |.|.||..||..|-  .+     .+.||.||....
T Consensus       161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            445999999876442    123445 99999999999998  33     578999998765

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

Probab=97.89  E-value=6.8e-06  Score=80.81  Aligned_cols=46  Identities=33%  Similarity=0.733  Sum_probs=39.2

Q ss_pred             CCcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..+|+|||.+...-   .+|||.|. .|..|.+.-.-..+.||+||+.|.
T Consensus       290 gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  290 GKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             CCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            56799999997664   89999994 899999886657889999999885

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

Probab=97.77  E-value=4.9e-06  Score=88.34  Aligned_cols=49  Identities=22%  Similarity=0.490  Sum_probs=43.2

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ...|+||+..|..+......+|+|+||..||..|-+.-.+||+||.++.
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            4559999999988766667789999999999999999999999998764

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

Probab=97.76  E-value=3.5e-06  Score=82.77  Aligned_cols=45  Identities=27%  Similarity=0.629  Sum_probs=36.8

Q ss_pred             ccccccccCCCCeeEEeC-CCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLS-CKHSYHSECINNWLKI-NKVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~-kksCPvCR~~V~~s  330 (333)
                      |+|||.-++..   +..+ |.|.||..||..-|+. .+.||.||+.+.+.
T Consensus        46 c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   46 CPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             cHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            99999998754   4444 9999999999888864 57899999988643

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

Probab=97.66  E-value=9.7e-06  Score=61.84  Aligned_cols=44  Identities=27%  Similarity=0.674  Sum_probs=23.0

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||...++.+  +....|.|+||+.||..-+.  ..||+|+.+.-
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            4599999998866  44456999999999988655  35999998764

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

Probab=97.51  E-value=2.7e-05  Score=82.79  Aligned_cols=48  Identities=23%  Similarity=0.766  Sum_probs=38.8

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTSG  331 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~s~  331 (333)
                      ..|++|-.-++..   +++.|+|.||..||..-+. +.+.||.|.+.+.+..
T Consensus       644 LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  644 LKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             eeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            3499998776654   5566999999999999996 5589999999887653

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

Probab=97.44  E-value=2.5e-05  Score=57.90  Aligned_cols=44  Identities=25%  Similarity=0.645  Sum_probs=33.5

Q ss_pred             cccccccccCCCCeeEEeCCCCc-ccHHH-HHHHHhcCCCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHS-YHSEC-INNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~-FH~~C-I~~WL~~kksCPvCR~~V~  328 (333)
                      +|.||++.-...   ++..|||. .|..| |..|-..+..||+||++|.
T Consensus         9 ECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    9 ECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            399998875433   34569995 78889 5666668889999999874

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

Probab=97.39  E-value=0.00011  Score=82.22  Aligned_cols=72  Identities=21%  Similarity=0.547  Sum_probs=52.0

Q ss_pred             CHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----------CCCCC
Q 019980          253 SADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----------KVCPV  322 (333)
Q Consensus       253 S~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----------ksCPv  322 (333)
                      -+..-..||..............+     .|.||+.+-......+.|.|+|+||..|...-|.++          -+||+
T Consensus      3464 vkNEE~CLPCl~Cdks~tkQD~DD-----mCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPi 3538 (3738)
T KOG1428|consen 3464 VKNEEHCLPCLHCDKSATKQDADD-----MCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPI 3538 (3738)
T ss_pred             ccchhhcccccccChhhhhcccCc-----eEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeeccc
Confidence            344445777766554444333333     499999988877788999999999999997766543          27999


Q ss_pred             ccccccC
Q 019980          323 CSAEVST  329 (333)
Q Consensus       323 CR~~V~~  329 (333)
                      |+.+|..
T Consensus      3539 C~n~InH 3545 (3738)
T KOG1428|consen 3539 CKNKINH 3545 (3738)
T ss_pred             ccchhhh
Confidence            9998753

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

Probab=97.36  E-value=9e-05  Score=74.67  Aligned_cols=46  Identities=30%  Similarity=0.744  Sum_probs=41.4

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      .+.|.||+..+..+   +++||||.||..||.+-|.....||.||..+.
T Consensus        84 ef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   84 EFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             hhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence            45599999999888   77799999999999998888899999999886

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

Probab=97.33  E-value=0.00011  Score=54.83  Aligned_cols=40  Identities=30%  Similarity=0.679  Sum_probs=28.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPV  322 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPv  322 (333)
                      ..|+|.+..|..+  ++...|+|+|-...|.+||+.  ...||+
T Consensus        12 ~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   12 LKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4599999999865  666789999999999999944  457999

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

Probab=97.32  E-value=6.8e-05  Score=74.77  Aligned_cols=49  Identities=31%  Similarity=0.665  Sum_probs=40.1

Q ss_pred             CCcccccccccCC-CCeeEEeCCCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980          280 GFSCVICRLDYED-GETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~-gd~l~~LPCgH~FH~~CI~~WL~~k--ksCPvCR~~V~  328 (333)
                      ..-|..|-+-+-. ++.+-.|||.|+||..|+...|.++  .+||.||+-++
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS  416 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS  416 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence            4569999988864 3467789999999999999999765  58999995444

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

Probab=97.16  E-value=0.00016  Score=72.66  Aligned_cols=48  Identities=27%  Similarity=0.674  Sum_probs=41.1

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ..|+||...+..+  +..+.|+|.||..||..|+..+..||.|+..+..+
T Consensus        22 l~C~~C~~vl~~p--~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   22 LLCPICMSVLRDP--VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             ccCccccccccCC--CCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            4499999999877  22258999999999999999999999999887644

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

Probab=97.10  E-value=0.00017  Score=66.35  Aligned_cols=45  Identities=36%  Similarity=0.701  Sum_probs=39.8

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV  327 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V  327 (333)
                      .+.|.||-.+|..+   +++.|||.||..|...-++....|-+|.+..
T Consensus       196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence            45699999999988   7788999999999888888889999998764

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

Probab=97.08  E-value=0.00013  Score=71.28  Aligned_cols=46  Identities=28%  Similarity=0.717  Sum_probs=38.8

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .|.+|--.|...  .++.-|-|.||..||.+.|..++.||.|...|..
T Consensus        17 tC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~   62 (331)
T KOG2660|consen   17 TCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK   62 (331)
T ss_pred             ehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence            399998888765  3444599999999999999999999999887754

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

Probab=97.07  E-value=0.00023  Score=70.34  Aligned_cols=48  Identities=25%  Similarity=0.396  Sum_probs=40.3

Q ss_pred             CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ++..|+||...   +-..+..||+|.-|+.||.+-|..++.|-.|++.+.+
T Consensus       421 Ed~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  421 EDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             ccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            45569999665   3344678999999999999999999999999998863

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

Probab=97.00  E-value=0.00024  Score=68.62  Aligned_cols=49  Identities=31%  Similarity=0.588  Sum_probs=43.0

Q ss_pred             CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      .++.|-||...|..+   ++..|+|.||..|...-+++...|++|.+.+..+
T Consensus       240 ~Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  240 LPFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS  288 (313)
T ss_pred             CCccccccccccccc---hhhcCCceeehhhhccccccCCcceecccccccc
Confidence            456699999999988   7888999999999988899999999999877543

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

Probab=96.96  E-value=0.00031  Score=70.38  Aligned_cols=46  Identities=24%  Similarity=0.706  Sum_probs=36.8

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPvCR~~V~~  329 (333)
                      ..|-||-+.=+   -+++-||||..|..|+..|-..  ..+||.||.+|..
T Consensus       370 eLCKICaendK---dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDK---DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCC---CcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            34999987633   3567799999999999999743  4689999999864

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

Probab=96.85  E-value=0.00079  Score=63.09  Aligned_cols=49  Identities=31%  Similarity=0.657  Sum_probs=41.3

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--------CCCCCccccccCCCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--------KVCPVCSAEVSTSGH  332 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--------ksCPvCR~~V~~s~~  332 (333)
                      |..|-..+..|+.+ +|-|-|.||..|+..|-..-        -.||.|..+|++..+
T Consensus        53 C~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N  109 (299)
T KOG3970|consen   53 CRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN  109 (299)
T ss_pred             CceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence            99999999988766 56699999999999998432        379999999997643

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

Probab=96.83  E-value=0.00095  Score=64.02  Aligned_cols=47  Identities=23%  Similarity=0.454  Sum_probs=38.0

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPvCR~~V~  328 (333)
                      ..+|++|-+.-..+  .+..+|+|+||.-||..-+..  ..+||.|..++.
T Consensus       239 ~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  239 DTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            45699998875544  566789999999999987763  479999998887

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

Probab=96.50  E-value=0.0015  Score=46.70  Aligned_cols=40  Identities=30%  Similarity=0.850  Sum_probs=27.3

Q ss_pred             ccccccccCCCCeeEEeCCC--C---cccHHHHHHHHh--cCCCCCCc
Q 019980          283 CVICRLDYEDGETLTVLSCK--H---SYHSECINNWLK--INKVCPVC  323 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCg--H---~FH~~CI~~WL~--~kksCPvC  323 (333)
                      |-||++.-.... ..+.||.  =   ..|..||.+|+.  .+.+|++|
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            779999877655 3456763  3   689999999997  44679998

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

Probab=96.45  E-value=0.00096  Score=59.71  Aligned_cols=27  Identities=44%  Similarity=0.817  Sum_probs=25.3

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccH
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHS  307 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~  307 (333)
                      .+|+|||+++..|+++.+|||-.+||+
T Consensus       178 GECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  178 GECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             CcEEEEhhhccCCCceeccceEEEeec
Confidence            459999999999999999999999996

>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=96.37  E-value=0.0014  Score=52.88  Aligned_cols=28  Identities=29%  Similarity=0.781  Sum_probs=24.9

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHH
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECIN  311 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~  311 (333)
                      |+||-..+.. ..+.+.||+|+||..|+.
T Consensus        81 C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   81 CSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             ccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            9999999876 567788999999999985

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 [].

>PHA03096 p28-like protein; Provisional

Probab=96.36  E-value=0.0017  Score=62.96  Aligned_cols=45  Identities=22%  Similarity=0.440  Sum_probs=32.5

Q ss_pred             ccccccccCCC----CeeEEeC-CCCcccHHHHHHHHhcC------CCCCCccccc
Q 019980          283 CVICRLDYEDG----ETLTVLS-CKHSYHSECINNWLKIN------KVCPVCSAEV  327 (333)
Q Consensus       283 C~ICLe~f~~g----d~l~~LP-CgH~FH~~CI~~WL~~k------ksCPvCR~~V  327 (333)
                      |.||++.....    .....|+ |.|.||..||..|...+      +.||.|+..+
T Consensus       181 c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        181 CGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             cccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            99999987643    2445676 99999999999999543      3455555443

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

Probab=96.34  E-value=0.00017  Score=71.90  Aligned_cols=50  Identities=24%  Similarity=0.579  Sum_probs=43.6

Q ss_pred             CcccccccccCCC-CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~g-d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ..|+||.+.++.. +++..+-|+|++|..||.+||..+..||.|+++|...
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            3499999999865 5666778999999999999999999999999998754

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

Probab=96.33  E-value=0.0021  Score=64.70  Aligned_cols=45  Identities=24%  Similarity=0.662  Sum_probs=37.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--------CCCCCCccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--------NKVCPVCSA  325 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--------kksCPvCR~  325 (333)
                      ..|.||++........+.|||+|+||..|+..++..        .-.||-|+.
T Consensus       185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            349999999988789999999999999999999953        237876654

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

Probab=96.16  E-value=0.003  Score=54.85  Aligned_cols=39  Identities=15%  Similarity=0.471  Sum_probs=30.4

Q ss_pred             ccccccccCCCCeeEEeCCC------CcccHHHHHHHHhcCCCCC
Q 019980          283 CVICRLDYEDGETLTVLSCK------HSYHSECINNWLKINKVCP  321 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCg------H~FH~~CI~~WL~~kksCP  321 (333)
                      |.||+..+....-++.++|+      |.||..|+.+|-+.++.=|
T Consensus        29 C~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDP   73 (134)
T PF05883_consen   29 CQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDP   73 (134)
T ss_pred             ehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCC
Confidence            99999999984557777886      8899999999954333333

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.

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.10  E-value=0.0054  Score=58.28  Aligned_cols=51  Identities=20%  Similarity=0.389  Sum_probs=43.6

Q ss_pred             CCCcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          279 LGFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ....|+||...+...-....| ||||+|+..|+.+.++.-..||+|-+++..
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd  271 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD  271 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence            345699999999877666666 799999999999999999999999988764

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

Probab=96.10  E-value=0.0038  Score=45.17  Aligned_cols=45  Identities=18%  Similarity=0.517  Sum_probs=22.8

Q ss_pred             ccccccccCCCC-eeEEeCCCCcccHHHHHHHHh-cCCCCCCccccc
Q 019980          283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLK-INKVCPVCSAEV  327 (333)
Q Consensus       283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V  327 (333)
                      |++|.+.+...+ .+.-.+|++.++..|...-++ ....||-||+..
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            789999984333 233335899999999999886 478999999863

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.06  E-value=0.0029  Score=46.95  Aligned_cols=44  Identities=30%  Similarity=0.635  Sum_probs=34.5

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  331 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~  331 (333)
                      |..|...-..+   +++||+|+.+..|..-|  +-+.||+|.+++...+
T Consensus        10 ~~~~~~~~~~~---~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen   10 CVFCGFVGTKG---TVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             EEEcccccccc---ccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence            77776554444   88999999999998664  6688999999987654

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

Probab=96.00  E-value=0.0022  Score=66.36  Aligned_cols=48  Identities=31%  Similarity=0.635  Sum_probs=38.1

Q ss_pred             CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-----cCCCCCCccccccC
Q 019980          279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-----INKVCPVCSAEVST  329 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-----~kksCPvCR~~V~~  329 (333)
                      ....|.+|-+.-+..   +...|.|+||..||..++.     .+-+||+|...++.
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            345699998876654   6778999999999998884     23589999887763

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

Probab=95.99  E-value=0.005  Score=61.00  Aligned_cols=44  Identities=27%  Similarity=0.581  Sum_probs=34.8

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHH--HHhcCCCCCCccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINN--WLKINKVCPVCSAEV  327 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~--WL~~kksCPvCR~~V  327 (333)
                      .-|.||-..+.-   ..++||+|..|-.|..+  -|=.++.||+||++.
T Consensus        62 ~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          62 MNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             ceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            349999888654   37889999999999654  345778999999874

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

Probab=95.94  E-value=0.005  Score=56.00  Aligned_cols=49  Identities=29%  Similarity=0.720  Sum_probs=34.3

Q ss_pred             cccccccccCCCCe----eEEeCCCCcccHHHHHHHHhcC-----------CCCCCccccccCC
Q 019980          282 SCVICRLDYEDGET----LTVLSCKHSYHSECINNWLKIN-----------KVCPVCSAEVSTS  330 (333)
Q Consensus       282 ~C~ICLe~f~~gd~----l~~LPCgH~FH~~CI~~WL~~k-----------ksCPvCR~~V~~s  330 (333)
                      .|.||+..-..|-.    .--..|+..||.-|+..||+.-           ..||+|..+|...
T Consensus       167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            37788765444421    1123499999999999999521           3799999998743

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

Probab=95.91  E-value=0.0045  Score=66.96  Aligned_cols=46  Identities=28%  Similarity=0.787  Sum_probs=34.9

Q ss_pred             CcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcC-------CCCCCcccc
Q 019980          281 FSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKIN-------KVCPVCSAE  326 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~k-------ksCPvCR~~  326 (333)
                      .+|.||++.+.....+-.. .|-|+||..||..|-+..       -.||.|+..
T Consensus       192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             eEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            3499999999866443332 388999999999998643       269999843

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

Probab=95.86  E-value=0.0039  Score=61.74  Aligned_cols=43  Identities=26%  Similarity=0.518  Sum_probs=32.2

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..-|+||+.....   .+.+||||.-|  |+.-- +...+||+||+.|.
T Consensus       305 p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  305 PDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            3449999999876   48899999866  65443 33445999999875

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

Probab=95.82  E-value=0.0021  Score=62.23  Aligned_cols=41  Identities=27%  Similarity=0.600  Sum_probs=30.4

Q ss_pred             CcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||+..-..   ...|+|||. -|.+|-+..    +.|||||+.|.
T Consensus       301 ~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  301 RLCAICMDAPRD---CVFLECGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHhcCCcc---eEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence            349999877443   478999994 577776543    38999998774

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.76  E-value=0.01  Score=56.52  Aligned_cols=50  Identities=20%  Similarity=0.532  Sum_probs=39.3

Q ss_pred             CCCcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          279 LGFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ..+.|||+...|....+++.| ||||+|...||..- +....||+|-.++..
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            456699999999665555554 89999999999986 345689999988763

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.70  E-value=0.0083  Score=53.53  Aligned_cols=45  Identities=29%  Similarity=0.820  Sum_probs=32.7

Q ss_pred             CCcccccccccCCCCeeEEeCC--CC---cccHHHHHHHHhcC--CCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSC--KH---SYHSECINNWLKIN--KVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPC--gH---~FH~~CI~~WL~~k--ksCPvCR~~V~  328 (333)
                      ...|-||++....    ..-||  +.   ..|..|+.+|+..+  .+||+|+.+..
T Consensus         8 ~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          8 DKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            3459999888532    23465  44   56999999999754  58999998754

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

Probab=95.66  E-value=0.0051  Score=66.59  Aligned_cols=43  Identities=28%  Similarity=0.699  Sum_probs=35.2

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|.+|--.+..+  .+...|+|.||..|+.   .....||.|+.++.
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            3499999988876  5666799999999998   45678999998654

>PHA02862 5L protein; Provisional

Probab=95.57  E-value=0.0096  Score=52.41  Aligned_cols=45  Identities=22%  Similarity=0.639  Sum_probs=31.6

Q ss_pred             cccccccccCCCCeeEEeCC---CCcccHHHHHHHHhc--CCCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSC---KHSYHSECINNWLKI--NKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPC---gH~FH~~CI~~WL~~--kksCPvCR~~V~  328 (333)
                      .|-||+..-...  +.-..|   ....|..|+.+|+..  +..||+|+.+..
T Consensus         4 iCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          4 ICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             EEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            499999985433  211113   246899999999974  458999998754

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

Probab=95.48  E-value=0.011  Score=57.54  Aligned_cols=42  Identities=29%  Similarity=0.674  Sum_probs=33.9

Q ss_pred             CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHh-cCCCCCCccc
Q 019980          281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLK-INKVCPVCSA  325 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~-~kksCPvCR~  325 (333)
                      +.|+.|..-+..+   .++| |+|.||..||..-|. .-+.||.|.+
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            5599998887766   3445 899999999998775 5579999976

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

Probab=95.24  E-value=0.0092  Score=57.61  Aligned_cols=43  Identities=33%  Similarity=0.647  Sum_probs=37.6

Q ss_pred             ccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980          283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSA  325 (333)
Q Consensus       283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~  325 (333)
                      |+||.+.+.... .+..++|+|.-|..|+.......-+||+|.+
T Consensus       161 cPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  161 CPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            999999887654 4567899999999999999888899999998

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

Probab=95.07  E-value=0.011  Score=41.53  Aligned_cols=41  Identities=22%  Similarity=0.711  Sum_probs=23.7

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC--CCCCc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK--VCPVC  323 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk--sCPvC  323 (333)
                      |.+|.+-...|..-....|+-.+|..|+..+++...  .||.|
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            678888877773222223999999999999998665  79998

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.03  E-value=0.0085  Score=43.30  Aligned_cols=43  Identities=23%  Similarity=0.671  Sum_probs=26.4

Q ss_pred             ccccccccCCCCeeEEeCC-CCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSC-KHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPC-gH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      |--|+-..+     ..+.| .|..|..|+...|.++..||+|.+++++.
T Consensus         5 CKsCWf~~k-----~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    5 CKSCWFANK-----GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             --SS-S--S-----SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ChhhhhcCC-----CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            777776543     24557 59999999999999999999999999864

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.

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

Probab=95.01  E-value=0.014  Score=57.01  Aligned_cols=42  Identities=24%  Similarity=0.635  Sum_probs=34.5

Q ss_pred             CCcccccccccCCCCeeEEeCC--CCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSC--KHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPC--gH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ...|+||...+..+    ++.|  ||..|..|-.   +.++.||.||.+|.
T Consensus        48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence            34599999999887    5556  7888888875   47789999999987

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

Probab=94.56  E-value=0.019  Score=62.68  Aligned_cols=31  Identities=23%  Similarity=0.594  Sum_probs=26.6

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHH
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWL  314 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL  314 (333)
                      |.||...+... +..+.||+|.||+.||.+-.
T Consensus       820 C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  820 CDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             hHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            99999988754 67788999999999997665

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

Probab=93.94  E-value=0.041  Score=54.23  Aligned_cols=45  Identities=22%  Similarity=0.389  Sum_probs=36.7

Q ss_pred             CCcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEV  327 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V  327 (333)
                      ...|+||+.....+   .+|. -|-+||..||.+.+...+.|||=..++
T Consensus       300 ~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  300 REVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             cccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            34599999998776   3443 699999999999999999999865554

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

Probab=93.75  E-value=0.026  Score=55.27  Aligned_cols=42  Identities=29%  Similarity=0.716  Sum_probs=30.3

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV  327 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V  327 (333)
                      .|--|=-.+..  .-+.+||+|+||.+|...  ..-|.||.|--.|
T Consensus        92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            47777555442  236679999999999754  3568999997665

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

Probab=93.67  E-value=0.028  Score=60.47  Aligned_cols=43  Identities=23%  Similarity=0.664  Sum_probs=34.7

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--ksCPvCR~~V~  328 (333)
                      .|.||++    .+.....+|+|.||..|+..-+...  ..||+||..+.
T Consensus       456 ~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  456 WCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             ccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence            4999999    3556788899999999999888543  36999997654

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

Probab=92.99  E-value=0.03  Score=63.25  Aligned_cols=44  Identities=30%  Similarity=0.709  Sum_probs=37.4

Q ss_pred             CCcccccccccC-CCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccc
Q 019980          280 GFSCVICRLDYE-DGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE  326 (333)
Q Consensus       280 ~~~C~ICLe~f~-~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~  326 (333)
                      ...|.||+..+. .+   .+..|+|.||..|+..|+..+..||+|+..
T Consensus      1153 ~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence            345999999987 33   456699999999999999999999999843

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

Probab=92.92  E-value=0.15  Score=51.15  Aligned_cols=28  Identities=29%  Similarity=0.899  Sum_probs=22.4

Q ss_pred             CCCcccHHHHHHHHhc-------------CCCCCCcccccc
Q 019980          301 CKHSYHSECINNWLKI-------------NKVCPVCSAEVS  328 (333)
Q Consensus       301 CgH~FH~~CI~~WL~~-------------kksCPvCR~~V~  328 (333)
                      |...+|..|+.+|+..             +-.||+||+...
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            5677899999999943             237999999865

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

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

Probab=92.64  E-value=0.056  Score=50.16  Aligned_cols=41  Identities=27%  Similarity=0.730  Sum_probs=29.7

Q ss_pred             ccccccccCCCCeeEEeCCCC-cccHHHHHHHHhcCCCCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSCKH-SYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH-~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      |-+|.+.   +-.+..|||.| ++|..|=..    .+.||+|+..+...
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~  202 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTSS  202 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhce
Confidence            7777554   45578899987 578888754    45699999877644

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

Probab=92.61  E-value=0.13  Score=51.93  Aligned_cols=49  Identities=24%  Similarity=0.475  Sum_probs=39.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC---CCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k---ksCPvCR~~V~~  329 (333)
                      +.|||=.+.-...+.-..|.|||+....-|.+--+..   ..||+|=.+...
T Consensus       335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~  386 (394)
T KOG2817|consen  335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLA  386 (394)
T ss_pred             eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCH
Confidence            5599988888877788999999999999999976533   479999665543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.50  E-value=0.081  Score=52.56  Aligned_cols=47  Identities=21%  Similarity=0.483  Sum_probs=35.9

Q ss_pred             ccccccccCCCCe-eEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 019980          283 CVICRLDYEDGET-LTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST  329 (333)
Q Consensus       283 C~ICLe~f~~gd~-l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~  329 (333)
                      |+.|++++...++ ..-+|||-..|.-|....-+ -+..||-||+....
T Consensus        17 cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          17 CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            9999999987765 34467999888888766443 35689999987643

>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=91.64  E-value=0.066  Score=50.93  Aligned_cols=49  Identities=18%  Similarity=0.470  Sum_probs=35.7

Q ss_pred             CCcccccccccCC-CCee-EEeC-CCCcccHHHHHHHHhcCC-CCC--Ccccccc
Q 019980          280 GFSCVICRLDYED-GETL-TVLS-CKHSYHSECINNWLKINK-VCP--VCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~-gd~l-~~LP-CgH~FH~~CI~~WL~~kk-sCP--vCR~~V~  328 (333)
                      +..|+||..+... ++.. .+-| |-|..|.+|+.+.|.... .||  -|.+-+.
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR   64 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR   64 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence            3459999987653 4433 2336 999999999999997664 799  7866543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=91.64  E-value=0.18  Score=37.36  Aligned_cols=41  Identities=27%  Similarity=0.801  Sum_probs=31.9

Q ss_pred             cccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCC--cccc
Q 019980          282 SCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPV--CSAE  326 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPv--CR~~  326 (333)
                      .|.+|-..|..++-+++.| |+-.||+.|...    ...|-+  |...
T Consensus         7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~   50 (54)
T PF14446_consen    7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG   50 (54)
T ss_pred             cChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence            4999999999888788887 999999999754    445544  5443

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

Probab=91.60  E-value=0.042  Score=58.83  Aligned_cols=45  Identities=24%  Similarity=0.724  Sum_probs=37.0

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhc---CCCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI---NKVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~---kksCPvCR~~V~~  329 (333)
                      +|+||+..+..+   +.+.|.|.|+..|+..-|..   .+.||+|+..+..
T Consensus        23 Ec~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   23 ECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             cCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            399999999987   77889999999998776644   4589999977653

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

Probab=91.19  E-value=0.48  Score=51.85  Aligned_cols=17  Identities=29%  Similarity=0.612  Sum_probs=11.6

Q ss_pred             CCCCCCHHHHHHhhhhc
Q 019980          229 DPDELSYEELLALGEVV  245 (333)
Q Consensus       229 d~D~msYEeLlaL~e~v  245 (333)
                      +-+.|+-+++.+|...+
T Consensus       725 ~~~~mdDe~m~~lD~~L  741 (784)
T PF04931_consen  725 DDEDMDDEQMMALDEQL  741 (784)
T ss_pred             cccccCHHHHHHHHHHH
Confidence            34567778888876655

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

>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=91.09  E-value=0.25  Score=44.26  Aligned_cols=12  Identities=42%  Similarity=0.985  Sum_probs=10.3

Q ss_pred             CCCCccccccCC
Q 019980          319 VCPVCSAEVSTS  330 (333)
Q Consensus       319 sCPvCR~~V~~s  330 (333)
                      .||+||..|..+
T Consensus        82 ~CPLCRG~V~GW   93 (162)
T PF07800_consen   82 ACPLCRGEVKGW   93 (162)
T ss_pred             cCccccCceece
Confidence            699999999754

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.

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

Probab=90.87  E-value=0.11  Score=49.54  Aligned_cols=48  Identities=25%  Similarity=0.641  Sum_probs=35.4

Q ss_pred             CcccccccccCCCCe-eEEeCCC-----CcccHHHHHHHHh--cCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGET-LTVLSCK-----HSYHSECINNWLK--INKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~-l~~LPCg-----H~FH~~CI~~WL~--~kksCPvCR~~V~  328 (333)
                      ..|-||......... ....||.     +..|..|+.+|+.  .+..|.+|.....
T Consensus        79 ~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   79 PICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI  134 (323)
T ss_pred             CcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence            459999997764322 3566764     5679999999998  4568999987554

>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins

Probab=90.80  E-value=0.2  Score=51.31  Aligned_cols=10  Identities=30%  Similarity=0.371  Sum_probs=4.0

Q ss_pred             hhhhhhcccc
Q 019980          152 EDAFDVHAHE  161 (333)
Q Consensus       152 ed~~~~~~~~  161 (333)
                      |-+|..-..+
T Consensus       106 E~GFAdSDDE  115 (458)
T PF10446_consen  106 EAGFADSDDE  115 (458)
T ss_pred             cccccccccc
Confidence            3344443333

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

Probab=90.37  E-value=0.15  Score=55.22  Aligned_cols=39  Identities=33%  Similarity=0.877  Sum_probs=28.2

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPV  322 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPv  322 (333)
                      |.||...+ .|-..++..|+|+.|..|...|+...-.||.
T Consensus      1031 C~~C~l~V-~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAV-RGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeEeeEe-eccchhhccccccccHHHHHHHHhcCCcCCC
Confidence            44443332 2233445679999999999999999999984

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

Probab=90.19  E-value=0.11  Score=56.33  Aligned_cols=52  Identities=8%  Similarity=0.185  Sum_probs=38.2

Q ss_pred             CCcccccccccCCC-CeeEEeC---CCCcccHHHHHHHHh------cCCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDG-ETLTVLS---CKHSYHSECINNWLK------INKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~g-d~l~~LP---CgH~FH~~CI~~WL~------~kksCPvCR~~V~~s~  331 (333)
                      ...|.||+..+... +....+|   |.|.||..||..|+.      ++-.|++|...|.+++
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs  157 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS  157 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence            34588888887762 2345566   999999999999994      2346899988876553

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

Probab=89.44  E-value=0.12  Score=55.04  Aligned_cols=43  Identities=23%  Similarity=0.470  Sum_probs=31.1

Q ss_pred             cccccccccCCCCee-EEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980          282 SCVICRLDYEDGETL-TVLSCKHSYHSECINNWLKINKVCPVCSAEV  327 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l-~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V  327 (333)
                      .|.||+..|...... +.|-|+|+.|..|+..-  .+.+|| |++.-
T Consensus        13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~De   56 (861)
T KOG3161|consen   13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKRDE   56 (861)
T ss_pred             hchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCccc
Confidence            499998888755322 33459999999999764  566788 76543

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

Probab=89.31  E-value=0.12  Score=54.62  Aligned_cols=42  Identities=26%  Similarity=0.773  Sum_probs=27.1

Q ss_pred             Cccccccc-----ccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980          281 FSCVICRL-----DYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  325 (333)
Q Consensus       281 ~~C~ICLe-----~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~  325 (333)
                      +.|.||..     .|......+...|+++||..|+..   ++..||.|-+
T Consensus       512 fiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  512 FICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             eeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence            45888833     232222333446999999999865   5556999954

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.27  E-value=0.2  Score=48.97  Aligned_cols=28  Identities=18%  Similarity=0.622  Sum_probs=22.7

Q ss_pred             CCCcccHHHHHHHHh-------------cCCCCCCcccccc
Q 019980          301 CKHSYHSECINNWLK-------------INKVCPVCSAEVS  328 (333)
Q Consensus       301 CgH~FH~~CI~~WL~-------------~kksCPvCR~~V~  328 (333)
                      |...+|..|+.+|+.             .+-+||+||+...
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc  365 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC  365 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence            677889999999983             2458999999865

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

Probab=89.06  E-value=0.26  Score=53.72  Aligned_cols=47  Identities=34%  Similarity=0.764  Sum_probs=35.4

Q ss_pred             CcccccccccCCCCeeEEeCCCC-----cccHHHHHHHHhc--CCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKH-----SYHSECINNWLKI--NKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH-----~FH~~CI~~WL~~--kksCPvCR~~V~  328 (333)
                      ..|-||+.+=..++.+ .-||+.     ..|.+|+..|+..  ++.|-+|+.++.
T Consensus        13 ~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          13 RSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             hhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            3499999887666554 346653     4899999999974  468999998753

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

Probab=88.96  E-value=0.33  Score=42.38  Aligned_cols=47  Identities=32%  Similarity=0.726  Sum_probs=34.9

Q ss_pred             cccccccccCCCCeeEEe-C---CCCcccHHHH-HHHHh--cCCCCCCccccccCCC
Q 019980          282 SCVICRLDYEDGETLTVL-S---CKHSYHSECI-NNWLK--INKVCPVCSAEVSTSG  331 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L-P---CgH~FH~~CI-~~WL~--~kksCPvCR~~V~~s~  331 (333)
                      +|-||.+.....   +-| |   ||-..|..|- .-|--  ...+||+|+++..+++
T Consensus        82 eCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   82 ECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             eccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            399999987655   333 3   8999999984 55642  3468999999987665

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.78  E-value=0.24  Score=47.51  Aligned_cols=49  Identities=31%  Similarity=0.662  Sum_probs=34.0

Q ss_pred             CCCcccccccccCCCCee-EEeCC-----CCcccHHHHHHHHhcC--------CCCCCccccc
Q 019980          279 LGFSCVICRLDYEDGETL-TVLSC-----KHSYHSECINNWLKIN--------KVCPVCSAEV  327 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l-~~LPC-----gH~FH~~CI~~WL~~k--------ksCPvCR~~V  327 (333)
                      .+..|-||+..=+..... -+-||     .|=.|..||..|+-.+        -+||-|+++.
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            345699998875544222 23466     3669999999999433        2699999874

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

Probab=86.71  E-value=0.26  Score=49.70  Aligned_cols=37  Identities=22%  Similarity=0.723  Sum_probs=27.9

Q ss_pred             CcccccccccCCC-CeeEEeCCCCcccHHHHHHHHhcC
Q 019980          281 FSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKIN  317 (333)
Q Consensus       281 ~~C~ICLe~f~~g-d~l~~LPCgH~FH~~CI~~WL~~k  317 (333)
                      ..|.||+..+... ....++.|+|.||..|+.+.+..+
T Consensus       147 ~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~  184 (384)
T KOG1812|consen  147 EECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK  184 (384)
T ss_pred             ccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence            3499999444433 455566799999999999988754

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

Probab=86.61  E-value=0.49  Score=51.72  Aligned_cols=20  Identities=25%  Similarity=0.340  Sum_probs=9.1

Q ss_pred             ccCCCCCCC--HHHHHHhhhhc
Q 019980          226 EEVDPDELS--YEELLALGEVV  245 (333)
Q Consensus       226 ~~vd~D~ms--YEeLlaL~e~v  245 (333)
                      ..+|-+.|-  -+.|-++....
T Consensus       727 ~~mdDe~m~~lD~~La~~Fk~r  748 (784)
T PF04931_consen  727 EDMDDEQMMALDEQLAAIFKER  748 (784)
T ss_pred             cccCHHHHHHHHHHHHHHHHHH
Confidence            345444442  24555555443

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

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

Probab=86.20  E-value=0.66  Score=51.42  Aligned_cols=9  Identities=22%  Similarity=0.032  Sum_probs=5.0

Q ss_pred             HHHHHHHhh
Q 019980           80 ERAYMMLRM   88 (333)
Q Consensus        80 e~~y~~~~~   88 (333)
                      ++.-||++|
T Consensus      1380 ~~~~d~dq~ 1388 (1516)
T KOG1832|consen 1380 EDQEDMDQF 1388 (1516)
T ss_pred             cChhhhhhh
Confidence            455566655

>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=84.82  E-value=1  Score=32.59  Aligned_cols=42  Identities=21%  Similarity=0.415  Sum_probs=20.6

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-----CCCCCcccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAE  326 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-----ksCPvCR~~  326 (333)
                      .|+|....+..+  ++...|.|.-+. =+..||...     -.||+|+++
T Consensus         4 ~CPls~~~i~~P--~Rg~~C~H~~CF-Dl~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    4 RCPLSFQRIRIP--VRGKNCKHLQCF-DLESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             B-TTTSSB-SSE--EEETT--SS--E-EHHHHHHHHHHS---B-TTT---
T ss_pred             eCCCCCCEEEeC--ccCCcCcccceE-CHHHHHHHhhccCCeECcCCcCc
Confidence            499998888765  556679997332 155666432     269999864

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.

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

Probab=84.72  E-value=0.45  Score=49.89  Aligned_cols=41  Identities=29%  Similarity=0.899  Sum_probs=35.1

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|.||+...    ..+..+|.   |..|+..|+-.+.+||+|++.+.
T Consensus       480 ~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~  520 (543)
T KOG0802|consen  480 DVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMK  520 (543)
T ss_pred             CcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhh
Confidence            4499999998    34677888   89999999999999999987765

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

Probab=83.77  E-value=0.88  Score=49.42  Aligned_cols=40  Identities=20%  Similarity=0.486  Sum_probs=29.9

Q ss_pred             CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCC
Q 019980          281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPV  322 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPv  322 (333)
                      ..|.+|--.+..  .....+ |+|.-|..|+.+|+...+.||.
T Consensus       780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence            458888665542  223333 9999999999999999988876

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=83.66  E-value=0.71  Score=42.49  Aligned_cols=38  Identities=32%  Similarity=0.808  Sum_probs=26.6

Q ss_pred             ccccccc-----ccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccc
Q 019980          282 SCVICRL-----DYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSA  325 (333)
Q Consensus       282 ~C~ICLe-----~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~  325 (333)
                      .|-||-.     +|... .+++.+ |+.+||..|..     ++.||.|.+
T Consensus       154 iCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~-----~~~CpkC~R  197 (202)
T PF13901_consen  154 ICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR-----KKSCPKCAR  197 (202)
T ss_pred             CCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence            3889975     23332 344444 99999999986     267999965

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

Probab=83.13  E-value=0.6  Score=43.71  Aligned_cols=41  Identities=32%  Similarity=0.842  Sum_probs=33.9

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCS  324 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR  324 (333)
                      .|-+|..-.--+  ++.-.|+-.||..|+...|++...||.|.
T Consensus       183 ~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~  223 (235)
T KOG4718|consen  183 NCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCG  223 (235)
T ss_pred             HHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchh
Confidence            499998876655  33445899999999999999999999993

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.55  E-value=0.73  Score=50.23  Aligned_cols=44  Identities=27%  Similarity=0.527  Sum_probs=33.3

Q ss_pred             cccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCcccc
Q 019980          282 SCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAE  326 (333)
Q Consensus       282 ~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~  326 (333)
                      .|.-|+......    ..++++-|+|.||..|+.--+.+++ |-.|...
T Consensus       786 rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~~  833 (846)
T KOG2066|consen  786 RCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESGK  833 (846)
T ss_pred             hhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhce
Confidence            499999887643    4677889999999999977666555 7666543

>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]

Probab=80.53  E-value=0.85  Score=44.04  Aligned_cols=47  Identities=19%  Similarity=0.534  Sum_probs=33.7

Q ss_pred             CcccccccccCCCCe-eEEeC---CCCcccHHHHHHHHh---------cCCCCCCccccc
Q 019980          281 FSCVICRLDYEDGET-LTVLS---CKHSYHSECINNWLK---------INKVCPVCSAEV  327 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~-l~~LP---CgH~FH~~CI~~WL~---------~kksCPvCR~~V  327 (333)
                      .+|-||...+...+. ....|   |.-++|..|+..-+.         ....||.|++.+
T Consensus       183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~  242 (276)
T KOG3005|consen  183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL  242 (276)
T ss_pred             hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence            359999999943333 33333   999999999998442         235899999855

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

Probab=80.05  E-value=0.99  Score=45.60  Aligned_cols=42  Identities=26%  Similarity=0.592  Sum_probs=31.1

Q ss_pred             ccccccccCC--CCeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980          283 CVICRLDYED--GETLTVLSCKHSYHSECINNWLKINKVCPVCS  324 (333)
Q Consensus       283 C~ICLe~f~~--gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR  324 (333)
                      |++|.-.+..  |-...+..|+|.||..|...|......|..|-
T Consensus       309 CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~  352 (384)
T KOG1812|consen  309 CPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC  352 (384)
T ss_pred             CcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence            8888776653  33444455999999999999988888775543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	333
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		2e-09
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		5e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		6e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		3e-05
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		7e-05
4ayc_B	138	Rnf8 Ring Domain Structure Length = 138		2e-04
4epo_C	149	Crystal Structure Of Rnf8 Bound To The Ubc13MMS2 HE		2e-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 = 2e-09,   Method: Compositional matrix adjust.
 Identities = 21/48 (43%), Positives = 32/48 (66%)
Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
           CV+C  D+E  + L VL C H +H++C++ WLK N+ CP+C A+   S
Sbjct: 26  CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS 73

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/45 (37%), Positives = 30/45 (66%)
Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327
           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: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327
           C IC    E+GE +  L C H +H  C++ WL  NK CP+C  ++
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61

>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 = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           G  C +C+ DY  GE++  L C H +H  CI  WL+ +  CPVC   ++
Sbjct: 15  GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

>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 = 45.8 bits (107), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC 323
           C IC  +Y  G+  T L C H +H  C++ WL+ +  CPVC
Sbjct: 43  CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEV 327
           G  C +C  + EDGE    L  C H +H+EC++ WL  +  CP+C   V
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 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 = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
             C+IC   + +  TL   +C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 54  LQCIICSEYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 103

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
             C+IC   + +  TL   +C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 65  LQCIICSEYFIEAVTL---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 = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
             C+IC   + +  TL   +C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 54  LQCIICSEYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 103

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	333
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	8e-26
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-21
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-17
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	6e-17
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-15
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-14
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-14
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	4e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-13
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-13
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	8e-13
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-12
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	4e-11
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-10
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	6e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	5e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	7e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	6e-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	3e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	9e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	1e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	3e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	6e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	6e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	7e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	7e-04

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

 Score = 97.4 bits (243), Expect = 8e-26
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 6/79 (7%)

Query: 253 SADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINN 312
           S+ +   LP+  +     Q+          CV+C  D+E  + L VL C H +H++C++ 
Sbjct: 2   SSGSSGQLPSYRFNPNNHQSEQTL------CVVCMCDFESRQLLRVLPCNHEFHAKCVDK 55

Query: 313 WLKINKVCPVCSAEVSTSG 331
           WLK N+ CP+C A+   S 
Sbjct: 56  WLKANRTCPICRADSGPSS 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 = 86.6 bits (215), Expect = 1e-21
 Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 5/78 (6%)

Query: 250 RGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSEC 309
              S +++  LP +         G    C      IC  +Y  G+  T L C H +H  C
Sbjct: 15  PPASKESIDALPEILVTEDHGAVGQEMCC-----PICCSEYVKGDVATELPCHHYFHKPC 69

Query: 310 INNWLKINKVCPVCSAEV 327
           ++ WL+ +  CPVC    
Sbjct: 70  VSIWLQKSGTCPVCRCMF 87

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

 Score = 75.6 bits (186), Expect = 1e-17
 Identities = 17/50 (34%), Positives = 30/50 (60%)

Query: 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331
            C +C  D++  + L +  CKH++H +C+  WL++ KVCP+C+  V    
Sbjct: 17  LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 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 = 73.2 bits (180), Expect = 6e-17
 Identities = 18/57 (31%), Positives = 27/57 (47%)

Query: 274 SNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
             +      C IC    E+GE +  L C H +H  C++ WL  NK CP+C  ++   
Sbjct: 8   GTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 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 = 69.8 bits (171), Expect = 1e-15
 Identities = 19/54 (35%), Positives = 29/54 (53%)

Query: 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
           G  C +C+ DY  GE++  L C H +H  CI  WL+ +  CPVC   ++    +
Sbjct: 15  GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTA 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 = 65.8 bits (161), Expect = 2e-14
 Identities = 17/47 (36%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 283 CVICRLDYEDGETL-TVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
           C IC  D      +  VL C H  H  C    LK    CP+CS   S
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54

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

 Score = 65.7 bits (160), Expect = 3e-14
 Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 5/67 (7%)

Query: 267 GGTSQNGSNDSCLG-FSCVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCP 321
           G +  +G+     G  SC IC   Y +    G  +    C H + S+C+ + LK    CP
Sbjct: 1   GSSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 60

Query: 322 VCSAEVS 328
            C  +++
Sbjct: 61  TCRKKIN 67

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

 Score = 64.9 bits (159), Expect = 4e-14
 Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 280 GFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV 327
           G  C +C  + EDGE    L  C H +H+EC++ WL  +  CP+C   V
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>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 = 64.1 bits (156), Expect = 1e-13
 Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 7/67 (10%)

Query: 268 GTSQNGSNDSCLGFSCVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPVC 323
           GT+    + +    SC IC   Y +    G  +    C H + S+C+ + LK    CP C
Sbjct: 1   GTTGLRPSGT---VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 57

Query: 324 SAEVSTS 330
             +++  
Sbjct: 58  RKKINHK 64

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

 Score = 62.9 bits (153), Expect = 3e-13
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 281 FSCVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
            SC IC   Y +    G  +    C H + S+C+ + LK    CP C  +++  
Sbjct: 4   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57

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

 Score = 62.8 bits (153), Expect = 3e-13
 Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 4/54 (7%)

Query: 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
              C IC     DG    +L C HS+  +CI+ W   ++ CP+C  +++ +  S
Sbjct: 15  EEECCICM----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES 64

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

 Score = 61.7 bits (150), Expect = 8e-13
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 2/51 (3%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
           C IC  D  +      L C H++   CI  W++ N  CP+C   V +  H+
Sbjct: 8   CPICLEDPSNYSMA--LPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHT 56

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

 Score = 59.9 bits (145), Expect = 6e-12
 Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 3/61 (4%)

Query: 267 GGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326
              S  GS +  + F C ICR  +++     V  C+H +   C     +    C +C   
Sbjct: 2   SSGSSGGSEEEEIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQP 58

Query: 327 V 327
            
Sbjct: 59  T 59

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

 Score = 57.2 bits (138), Expect = 4e-11
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 7/62 (11%)

Query: 272 NGSNDSC------LGFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCS 324
           +   D+C      +  +C+ C+ + +  + + V   C HS+H+ C++ W+K N  CP+C 
Sbjct: 12  DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

Query: 325 AE 326
            +
Sbjct: 72  QD 73

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

 Score = 54.8 bits (132), Expect = 3e-10
 Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 2/50 (4%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
             C IC+    D    T+  C H++   CI      +  CP C+  V  +
Sbjct: 16  ILCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT 63

>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 = 52.1 bits (125), Expect = 6e-09
 Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 2/50 (4%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
             CV+C   + D    T++ C HS+   CI  +L+ +K CP+C  +V  +
Sbjct: 16  LMCVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT 63

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

 Score = 48.7 bits (116), Expect = 4e-08
 Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 5/63 (7%)

Query: 268 GTSQNGSNDSCLG--FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325
           G+S +  N +       C IC            L CKH +   C+     + K C +C  
Sbjct: 1   GSSGSSGNTAPSLTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQ 57

Query: 326 EVS 328
           E+ 
Sbjct: 58  EIP 60

>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 = 47.6 bits (113), Expect = 1e-07
 Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 4/47 (8%)

Query: 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAE 326
            C IC      G++    +C    H  C+  + +      CP C+  
Sbjct: 17  ICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

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

 Score = 48.6 bits (115), Expect = 2e-07
 Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 4/56 (7%)

Query: 281 FSCVICRLDYEDGETL----TVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGH 332
            SC IC   Y +            C H + S+C+ + LK    CP C  +++   +
Sbjct: 8   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63

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

 Score = 42.5 bits (99), Expect = 2e-05
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 278 CLGFSCVICRLDYED----GETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGH 332
               SC IC   Y +    G  +    C H + S+C+ + LK    CP C  +++   +
Sbjct: 70  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 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 = 47.2 bits (112), Expect = 3e-07
 Identities = 14/51 (27%), Positives = 16/51 (31%), Gaps = 3/51 (5%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVSTS 330
           F C IC     D        C       CI  WL   +  CP C A +   
Sbjct: 23  FRCFICMEKLRDARLCP--HCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

>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 = 46.7 bits (110), Expect = 5e-07
 Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 15/60 (25%)

Query: 282 SCVICRL---------------DYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326
           +C ICR                   +  T+    C H++H  CI+ WLK  +VCP+ + E
Sbjct: 39  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 98

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

 Score = 45.9 bits (109), Expect = 7e-07
 Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 2/50 (4%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
             C IC   +     +    C H+Y S CI  +L     CP C   V+  
Sbjct: 23  LRCGICFEYFNIAMIIP--QCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP 70

>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 = 44.8 bits (105), Expect = 2e-06
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 15/59 (25%)

Query: 283 CVICRL---------------DYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326
           C ICR                   +  T+    C H++H  CI+ WLK  +VCP+ + E
Sbjct: 51  CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 109

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

 Score = 47.5 bits (112), Expect = 3e-06
 Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 4/51 (7%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWL-KINKVCPVCSAEVSTS 330
             C IC    E+ + + +  C H   + C+ +W     + CP C  E+  +
Sbjct: 333 QLCKIC---AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380

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

 Score = 46.8 bits (110), Expect = 6e-06
 Identities = 17/65 (26%), Positives = 23/65 (35%), Gaps = 16/65 (24%)

Query: 282 SCVICRLDYEDGETLTV-----LSCKHSYHSECINNWLK-----------INKVCPVCSA 325
            C IC     DG  + +       C    H+ C+  W K               CP C A
Sbjct: 310 RCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKA 369

Query: 326 EVSTS 330
           ++STS
Sbjct: 370 KLSTS 374

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

 Score = 41.2 bits (97), Expect = 3e-05
 Identities = 12/55 (21%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 281 FSCVICRLDYEDGETLT-VLSCKHSYHSECINNWLKINK---VCPVCSAEVSTSG 331
             C IC   + + +    +L C H+   +C+   L  +     CP CS     + 
Sbjct: 16  LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS 70

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

 Score = 42.3 bits (99), Expect = 3e-05
 Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 3/53 (5%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
             C+IC   + +      L+C HS+ S CIN W+K    CP+C  ++ +  +S
Sbjct: 65  LQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYS 114

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

 Score = 40.2 bits (94), Expect = 3e-05
 Identities = 9/49 (18%), Positives = 14/49 (28%), Gaps = 4/49 (8%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS 328
           + C  C L            C H +   C+   L   +  C  C   + 
Sbjct: 16  YKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIV 61

>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 = 40.6 bits (94), Expect = 9e-05
 Identities = 10/63 (15%), Positives = 16/63 (25%), Gaps = 20/63 (31%)

Query: 283 CVICR---------------LDYEDGETLTVLSCKHSYHSECINNWLK-----INKVCPV 322
           C+IC                          +  C H++H  C+           +  CP 
Sbjct: 28  CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS 87

Query: 323 CSA 325
           C  
Sbjct: 88  CKT 90

>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 = 40.3 bits (94), Expect = 1e-04
 Identities = 16/44 (36%), Positives = 18/44 (40%), Gaps = 4/44 (9%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVC 323
            SC IC     D       SCKH +   CI   LK+    CP C
Sbjct: 24  ISCQICEHILAD---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 = 39.0 bits (91), Expect = 1e-04
 Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 4/50 (8%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWL--KINKVCPVCSAEVS 328
             C+IC+    D   +    C +SY  ECI   L       CP C     
Sbjct: 16  LLCLICKDIMTDAVVIP--CCGNSYCDECIRTALLESDEHTCPTCHQNDV 63

>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 = 40.7 bits (95), Expect = 1e-04
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 3/51 (5%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS 330
             C IC LD     T+T   C H + ++CI   L+  NK CP C  ++ + 
Sbjct: 55  LMCPIC-LDMLK-NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103

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

 Score = 39.2 bits (91), Expect = 3e-04
 Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 6/104 (5%)

Query: 228 VDPDELSYEELLALGEVVGSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICR 287
            +P  L+ ++   + E     +  L  + LA+L      G   Q   +     F C+ C+
Sbjct: 2   SEPYSLTAQQSSLIRE--DKSNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQ 59

Query: 288 LDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS 330
                  T     C+H+   +C++   +     CP C  ++  S
Sbjct: 60  ELVFRPITT---VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRS 100

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

 Score = 38.0 bits (88), Expect = 3e-04
 Identities = 16/66 (24%), Positives = 22/66 (33%), Gaps = 6/66 (9%)

Query: 267 GGTSQNGSNDSCLGFSCVICRLDYEDGETL-TVLSCKHSY---HSECINNWL--KINKVC 320
              S   S        C IC  + +D   L T   C  S    H  C+  W+     + C
Sbjct: 2   SSGSSGTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCC 61

Query: 321 PVCSAE 326
            +C  E
Sbjct: 62  ELCKYE 67

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

 Score = 39.7 bits (92), Expect = 6e-04
 Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAE 326
             C IC      G++    +C    H  C+  + +      CP C+  
Sbjct: 181 KICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCPHCNDY 226

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

 Score = 38.3 bits (89), Expect = 6e-04
 Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 4/44 (9%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVC 323
           + C IC +   +        C H +   CI   ++     CPV 
Sbjct: 19  YECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVD 59

>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 Length = 94

 Score = 37.5 bits (87), Expect = 7e-04
 Identities = 9/52 (17%), Positives = 21/52 (40%), Gaps = 8/52 (15%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWL--KINK------VCPVCS 324
             C +C  +Y   +  T+  C+  + + C+  ++   I +       CP  +
Sbjct: 6   SGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

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

 Score = 36.2 bits (84), Expect = 7e-04
 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328
            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	333
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.74
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.67
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.54
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.54
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.53
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.53
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.46
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.44
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.42
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.42
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.42
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.4
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.38
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.38
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.36
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.36
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.35
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.35
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.35
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.33
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.33
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.3
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.3
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.29
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.27
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.27
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.26
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.25
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.23
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.22
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.21
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.21
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.21
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.21
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.2
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.19
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.18
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.18
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.17
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.15
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.13
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.13
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.1
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.06
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.06
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.04
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.01
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.95
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.94
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.93
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.93
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.93
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.93
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.91
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.87
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.85
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.84
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.8
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.79
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.74
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.7
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.6
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.6
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.57
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.57
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.55
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.51
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.44
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.18
3nw0_A	238	Non-structural maintenance of chromosomes element	98.05
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.58
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.98
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.08
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	92.25
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	90.71
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	90.33
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	89.46
1we9_A	64	PHD finger family protein; structural genomics, PH	88.67
1wem_A	76	Death associated transcription factor 1; structura	87.12
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	86.62
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	85.07
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	83.51
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	82.33
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	82.29
1wew_A	78	DNA-binding family protein; structural genomics, P	81.88
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	81.87
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	81.8
1weu_A	91	Inhibitor of growth family, member 4; structural g	80.9
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	80.79
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	80.34

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

Probab=99.74  E-value=3e-18  Score=135.83  Aligned_cols=80  Identities=26%  Similarity=0.627  Sum_probs=68.1

Q ss_pred             CCCCCCCCHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980          246 GSESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA  325 (333)
Q Consensus       246 g~~s~GlS~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~  325 (333)
                      +...+|++++.|..||...+.........     ...|+||++.|..+..+++|||+|+||..||.+||+.+.+||+||+
T Consensus        11 ~~~~~~~s~~~i~~lp~~~~~~~~~~~~~-----~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   85 (91)
T 2l0b_A           11 MVANPPASKESIDALPEILVTEDHGAVGQ-----EMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRC   85 (91)
T ss_dssp             SSCCCCCCHHHHHTSCEEECCTTCSSSSS-----CSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCC
T ss_pred             CcCCCCCCHHHHHhCCCeeecccccccCC-----CCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCc
Confidence            34568999999999999988765433322     3449999999999999999999999999999999999999999999


Q ss_pred             cccCC
Q 019980          326 EVSTS  330 (333)
Q Consensus       326 ~V~~s  330 (333)
                      .|.+.
T Consensus        86 ~~~~~   90 (91)
T 2l0b_A           86 MFPPP   90 (91)
T ss_dssp             BSSCC
T ss_pred             cCCCC
Confidence            98753

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

Probab=99.67  E-value=1.5e-17  Score=126.46  Aligned_cols=71  Identities=34%  Similarity=0.851  Sum_probs=59.6

Q ss_pred             HHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980          255 DTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  331 (333)
Q Consensus       255 ~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~  331 (333)
                      ..|..||..++.......      ....|+||++.|..+..++.|||+|+||..||.+||+.+.+||+||+.|.+++
T Consensus         4 ~~i~~lp~~~~~~~~~~~------~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNNHQS------EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPSS   74 (75)
T ss_dssp             CCCSSCCCEEBCSSSCSS------SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCCC
T ss_pred             hhHhhCCcEEecCccccC------CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCCC
Confidence            346788888887653321      23459999999999999999999999999999999999999999999998765

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

Probab=99.54  E-value=7.4e-15  Score=110.95  Aligned_cols=51  Identities=33%  Similarity=0.898  Sum_probs=46.7

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ...|+||++.|..+..+++|||+|+||..||.+||+.+++||+||+.|...
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           15 HELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             SCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            345999999999998899999999999999999999999999999998743

>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=99.54  E-value=9.2e-15  Score=109.00  Aligned_cols=51  Identities=35%  Similarity=0.894  Sum_probs=46.6

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ...|+||++.|..+..++++||+|+||..||.+||+.+.+||+||+.|...
T Consensus        14 ~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           14 EEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             CCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            345999999999888889999999999999999999999999999998754

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

Probab=99.53  E-value=3.2e-15  Score=106.65  Aligned_cols=48  Identities=38%  Similarity=1.002  Sum_probs=44.6

Q ss_pred             CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||++.|..+..++.+| |+|+||..||.+|++.+.+||+||+.|.
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            34999999999988889998 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=99.53  E-value=8.1e-15  Score=111.79  Aligned_cols=51  Identities=37%  Similarity=0.995  Sum_probs=46.8

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ...|+||++.|..+..+++|+|+|+||..||.+||+.+.+||+||+.|...
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A           15 GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             SCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             CCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            455999999999988888999999999999999999999999999998754

>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=99.46  E-value=3.5e-14  Score=101.04  Aligned_cols=48  Identities=35%  Similarity=0.661  Sum_probs=42.3

Q ss_pred             CcccccccccCCC-CeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~g-d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||++.|..+ ..+++++|+|+||..||.+||+.+.+||+||+.|.
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            3499999999654 45778899999999999999999999999999885

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

Probab=99.44  E-value=3e-14  Score=110.61  Aligned_cols=47  Identities=34%  Similarity=0.931  Sum_probs=38.9

Q ss_pred             ccccccccC-----------CCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          283 CVICRLDYE-----------DGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       283 C~ICLe~f~-----------~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      |+||++.|.           .++.+++++ |+|+||..||.+||+.+++||+||+.+..
T Consensus        18 C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           18 CAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             BTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            777777664           445566665 99999999999999999999999999863

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

Probab=99.42  E-value=1e-13  Score=102.41  Aligned_cols=50  Identities=28%  Similarity=0.688  Sum_probs=43.2

Q ss_pred             CCcccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ...|+||++.|..+    ..+++++|+|+||..||..||+.+.+||+||+.|..
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           15 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            34599999998753    445788999999999999999999999999999864

>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=99.42  E-value=1.4e-13  Score=112.09  Aligned_cols=49  Identities=20%  Similarity=0.514  Sum_probs=40.5

Q ss_pred             cccccccccCCCC---------------eeEEeCCCCcccHHHHHHHH-----hcCCCCCCccccccCC
Q 019980          282 SCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWL-----KINKVCPVCSAEVSTS  330 (333)
Q Consensus       282 ~C~ICLe~f~~gd---------------~l~~LPCgH~FH~~CI~~WL-----~~kksCPvCR~~V~~s  330 (333)
                      .|+||++.|..+.               .+++++|+|+||..||.+||     +.+.+||+||+.+...
T Consensus        27 ~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             EETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            3999999997653               34478899999999999999     4567999999988643

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

Probab=99.42  E-value=5.6e-14  Score=104.79  Aligned_cols=51  Identities=27%  Similarity=0.675  Sum_probs=44.2

Q ss_pred             CCcccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ...|+||++.|..+    ..++.++|+|+||..||.+||+.+++||+||+.+...
T Consensus        10 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (71)
T 3ng2_A           10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   64 (71)
T ss_dssp             CCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCC
T ss_pred             CCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChh
Confidence            34599999998753    5567889999999999999999999999999998754

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

Probab=99.40  E-value=1e-13  Score=101.02  Aligned_cols=50  Identities=28%  Similarity=0.696  Sum_probs=43.6

Q ss_pred             CcccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ..|+||++.|..+    ..++.++|+|+||..||.+|++.+.+||+||+.+...
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   57 (64)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTT
T ss_pred             CCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCcc
Confidence            4599999998753    4557889999999999999999999999999998754

>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=99.38  E-value=2.6e-13  Score=111.34  Aligned_cols=46  Identities=39%  Similarity=0.802  Sum_probs=40.6

Q ss_pred             ccccccccCCCC---------------eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          283 CVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       283 C~ICLe~f~~gd---------------~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      |+||++.|..+.               .++.++|+|.||..||.+||+.+.+||+||+.+.
T Consensus        40 CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           40 CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            999999998541               3677899999999999999999999999999854

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

Probab=99.38  E-value=2.7e-13  Score=101.94  Aligned_cols=46  Identities=26%  Similarity=0.564  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ...|+||++.|..+   ++++|+|+||..||..||+.++.||+||+.|.
T Consensus        15 ~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           15 VPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             CCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            45699999998765   77899999999999999999999999999986

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

Probab=99.36  E-value=2.8e-13  Score=100.45  Aligned_cols=47  Identities=32%  Similarity=0.772  Sum_probs=41.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ..|+||++.+..+  ++.+||+|.||..||.+|++.+++||+||+.+..
T Consensus         6 ~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            6 ERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            3499999998753  5788999999999999999999999999999864

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

Probab=99.36  E-value=9.1e-13  Score=99.29  Aligned_cols=49  Identities=27%  Similarity=0.590  Sum_probs=41.9

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ...|+||++.|..+  +.+++|+|+||..||..||+.+..||+||+.|...
T Consensus        15 ~~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A           15 YILCSICKGYLIDA--TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             GGSCTTTSSCCSSC--EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             CCCCCCCChHHHCc--CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            45599999999875  33349999999999999999999999999998754

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

Probab=99.35  E-value=8e-13  Score=101.63  Aligned_cols=46  Identities=24%  Similarity=0.725  Sum_probs=41.5

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ...|+||+..|..+   ++++|+|+||..||..|++....||+||+.+.
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           15 PFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            45699999999765   57899999999999999999999999999985

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

Probab=99.35  E-value=3.5e-13  Score=100.63  Aligned_cols=47  Identities=30%  Similarity=0.845  Sum_probs=42.2

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  331 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~  331 (333)
                      ..|+||++.+..    +++||+|.||..||.+|++.+.+||+||+.|....
T Consensus        16 ~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           16 EECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            459999999876    78899999999999999999999999999987543

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

Probab=99.35  E-value=3.7e-13  Score=113.97  Aligned_cols=44  Identities=36%  Similarity=1.004  Sum_probs=40.9

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      |+||++.|..+   +++||||.||..||..|+..+.+||+||+.|..
T Consensus        56 C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           56 CIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             CTTTCSBCSSE---EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             CcccCcccCCc---eECCCCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            99999999865   678999999999999999999999999999864

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

Probab=99.33  E-value=9.6e-13  Score=102.81  Aligned_cols=49  Identities=29%  Similarity=0.758  Sum_probs=42.2

Q ss_pred             CcccccccccCCCCeeEEeCCC-----CcccHHHHHHHHhcC--CCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCK-----HSYHSECINNWLKIN--KVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCg-----H~FH~~CI~~WL~~k--ksCPvCR~~V~~s  330 (333)
                      ..|.||++.|..++.+ ++||+     |.||..||.+||..+  .+||+||+.+...
T Consensus        16 ~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           16 DICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             CCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            3499999999877766 58996     999999999999876  4899999998754

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

Probab=99.33  E-value=2.1e-12  Score=99.85  Aligned_cols=51  Identities=24%  Similarity=0.608  Sum_probs=43.5

Q ss_pred             CCcccccccccCCCCe-eEEeCCCCcccHHHHHHHHhcC---CCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~-l~~LPCgH~FH~~CI~~WL~~k---ksCPvCR~~V~~s  330 (333)
                      ...|+||++.|..... .++++|+|.||..||.+|++.+   ..||+||+.+...
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           15 VLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             CCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            4559999999987553 5778999999999999999876   7999999988643

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

Probab=99.30  E-value=2.3e-12  Score=97.82  Aligned_cols=48  Identities=31%  Similarity=0.703  Sum_probs=41.6

Q ss_pred             CCcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcC--CCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKIN--KVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~k--ksCPvCR~~V~~s  330 (333)
                      ...|+||+..|..+   ++++ |+|+||..||..||+.+  ..||+||+.+...
T Consensus        15 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           15 ELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             GGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            45699999999876   6799 99999999999999866  6899999986543

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

Probab=99.30  E-value=1.6e-12  Score=97.51  Aligned_cols=49  Identities=22%  Similarity=0.504  Sum_probs=41.5

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh---cCCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK---INKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~---~kksCPvCR~~V~~s~  331 (333)
                      ...|+||++.|..+   ++++|+|.||..||..|++   .+..||+||+.+....
T Consensus        20 ~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           20 EVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             CCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            34599999999864   6779999999999999997   4568999999987653

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

Probab=99.29  E-value=1.4e-12  Score=96.49  Aligned_cols=48  Identities=19%  Similarity=0.546  Sum_probs=41.2

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~s  330 (333)
                      ...|+||+..+..+   ++++|+|+||..||.+|++ .+..||+||+.+...
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           15 KYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             CCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            45599999999876   4589999999999999994 567999999998754

>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=99.27  E-value=1.5e-13  Score=114.81  Aligned_cols=47  Identities=38%  Similarity=0.791  Sum_probs=0.0

Q ss_pred             cccccccccCCCC---------------eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          282 SCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd---------------~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      .|+||++.|..+.               .+..++|+|.||..||.+||+.+.+||+||+++.
T Consensus        50 ~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           50 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             --------------------------------------------------------------
T ss_pred             cCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            3999999997532               2334589999999999999999999999999854

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

Probab=99.27  E-value=2.5e-12  Score=97.86  Aligned_cols=48  Identities=25%  Similarity=0.515  Sum_probs=42.0

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~s  330 (333)
                      ...|+||+..|..+   ++++|||+||..||..||.. +.+||+||+.+...
T Consensus         8 ~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            8 YFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             cCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            34599999999876   67899999999999999987 78999999998643

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

Probab=99.26  E-value=4e-12  Score=97.14  Aligned_cols=48  Identities=25%  Similarity=0.549  Sum_probs=41.9

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc------CCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI------NKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~------kksCPvCR~~V~~s  330 (333)
                      ...|+||+..|..+   ++++|+|.||..||..|+..      ...||+||+.+...
T Consensus        19 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           19 EVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             CCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            34599999999876   57899999999999999987      67999999998753

>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=99.25  E-value=2.4e-12  Score=103.33  Aligned_cols=46  Identities=28%  Similarity=0.650  Sum_probs=40.0

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-ksCPvCR~~V~~  329 (333)
                      .|+||+..|..+  +..++|+|.||..||.+|++.+ ..||+||+.+..
T Consensus        24 ~C~IC~~~~~~p--~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           24 RCFICMEKLRDA--RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             BCTTTCSBCSSE--EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCccCCccccCc--cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            499999999864  3338999999999999999988 699999999864

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

Probab=99.23  E-value=4.1e-12  Score=101.15  Aligned_cols=45  Identities=31%  Similarity=0.783  Sum_probs=40.0

Q ss_pred             cccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .|+||+..|..+   +++ +|||.||..||..|+..+..||+||+.+..
T Consensus        24 ~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           24 RCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             BCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            499999999865   455 899999999999999999999999998864

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

Probab=99.22  E-value=4.7e-12  Score=96.71  Aligned_cols=47  Identities=28%  Similarity=0.600  Sum_probs=41.3

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc------CCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI------NKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~------kksCPvCR~~V~~s  330 (333)
                      ..|+||+..|..+   ++++|+|+||..||..|+..      ...||+||+.+...
T Consensus        20 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecv_A           20 VTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE   72 (85)
T ss_dssp             CCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSS
T ss_pred             CCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHH
Confidence            4599999999876   56799999999999999987      78999999998743

>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=99.21  E-value=5.8e-12  Score=104.32  Aligned_cols=45  Identities=18%  Similarity=0.584  Sum_probs=40.0

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~V~~  329 (333)
                      .|+||+..|..+   +++||||.||..||..|+..+. .||+||+.+..
T Consensus        54 ~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           54 QCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             BCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            499999999866   6789999999999999998554 99999999975

>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=99.21  E-value=6.6e-12  Score=101.63  Aligned_cols=48  Identities=33%  Similarity=0.861  Sum_probs=41.2

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ..|+||+..|..+  +++++|||+||..||..|+..+..||+||+.+...
T Consensus        16 ~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           16 LMCVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             TBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CCCccCChHHhCc--CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            4499999999864  33349999999999999999999999999998753

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

Probab=99.21  E-value=2.1e-12  Score=98.07  Aligned_cols=47  Identities=32%  Similarity=0.553  Sum_probs=41.1

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-------CCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-------NKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-------kksCPvCR~~V~~  329 (333)
                      ...|+||++.|..+   ++|+|+|.||..||..|+..       ...||+||+.+..
T Consensus        12 ~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           12 EVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             CCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            35599999999876   56899999999999999987       6789999999864

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

Probab=99.21  E-value=5.2e-12  Score=103.84  Aligned_cols=50  Identities=28%  Similarity=0.696  Sum_probs=43.7

Q ss_pred             CcccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ..|+||++.|..+    ..++.++|||+||..||.+||+.+++||+||+.+...
T Consensus         8 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            4599999999754    4558899999999999999999999999999998753

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

Probab=99.20  E-value=1.3e-11  Score=90.42  Aligned_cols=41  Identities=24%  Similarity=0.556  Sum_probs=35.9

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh---cCCCCCCc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK---INKVCPVC  323 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~---~kksCPvC  323 (333)
                      ...|+||++.|..+   ++++|+|+||..||.+|++   .+..||+|
T Consensus        20 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           20 EVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34599999999876   6779999999999999998   45689998

>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=1.1e-11  Score=107.47  Aligned_cols=47  Identities=30%  Similarity=0.697  Sum_probs=40.2

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~  329 (333)
                      ..|+||+..|..+  +++++|+|.||..||..||.. +..||+||+.+..
T Consensus        55 ~~C~IC~~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           55 LMCPICLDMLKNT--MTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HBCTTTSSBCSSE--EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCcccChHhhCc--CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            4599999999864  444599999999999999997 7889999999853

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

Probab=99.18  E-value=2.5e-11  Score=95.12  Aligned_cols=46  Identities=33%  Similarity=0.720  Sum_probs=40.4

Q ss_pred             CCcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKIN--KVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~k--ksCPvCR~~V~  328 (333)
                      ...|+||+..|..+   +++| |+|.||..||..|+..+  ..||+||+.+.
T Consensus        13 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           13 ELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             TTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            45699999999877   7889 99999999999999754  58999999974

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

Probab=99.18  E-value=1.3e-11  Score=91.02  Aligned_cols=50  Identities=24%  Similarity=0.577  Sum_probs=40.5

Q ss_pred             Cccccccc-ccCCCCe-eEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 019980          281 FSCVICRL-DYEDGET-LTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe-~f~~gd~-l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~s  330 (333)
                      ..|+||++ .|..+.. ...++|||+||..||.+|+.. +..||+||+.+...
T Consensus         4 ~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   56 (65)
T 1g25_A            4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccc
Confidence            45999999 7766543 345799999999999999765 46899999998754

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

Probab=99.17  E-value=1.2e-11  Score=99.86  Aligned_cols=45  Identities=24%  Similarity=0.650  Sum_probs=39.7

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC---CCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk---sCPvCR~~V~~s  330 (333)
                      |+||+..|..+   ++++|+|.||..||..|+..+.   .||+||..+...
T Consensus        24 C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           24 CPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             CSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            99999999876   5689999999999999998764   899999998753

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

Probab=99.15  E-value=2.9e-11  Score=86.51  Aligned_cols=41  Identities=29%  Similarity=0.859  Sum_probs=35.4

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHH---hcCCCCCCc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWL---KINKVCPVC  323 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL---~~kksCPvC  323 (333)
                      ...|+||++.|..+   ++|+|+|+||..||.+|+   +.+..||+|
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           15 EASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             CCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34599999999876   568999999999999995   456799998

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

Probab=99.13  E-value=6e-11  Score=91.63  Aligned_cols=48  Identities=23%  Similarity=0.521  Sum_probs=40.5

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--CCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--ksCPvCR~~V~~  329 (333)
                      ...|+||+..|..+.  +...|+|.||..||.+||+++  .+||+||+.+..
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            345999999998763  223799999999999999987  899999998763

>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=99.13  E-value=2.6e-11  Score=104.62  Aligned_cols=46  Identities=22%  Similarity=0.569  Sum_probs=40.7

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCccccccCC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVSTS  330 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~V~~s  330 (333)
                      .|+||+..|..+   +++||+|.||..||..|+.... .||+||..+...
T Consensus        80 ~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           80 MCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             BCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             EeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            499999999876   6689999999999999998765 899999998754

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

Probab=99.10  E-value=2.8e-11  Score=99.48  Aligned_cols=50  Identities=28%  Similarity=0.696  Sum_probs=43.1

Q ss_pred             CcccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      ..|+||++.|..+    ...+.++|+|+||..||.+||+.+++||+||+.|...
T Consensus        73 ~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            4599999998753    3457889999999999999999999999999998753

>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=99.10  E-value=1.5e-11  Score=100.50  Aligned_cols=46  Identities=26%  Similarity=0.594  Sum_probs=40.5

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~  328 (333)
                      ...|+||+..|..+   ++|+|+|.||..||..|+.. +..||+||+.+.
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            34599999999876   67899999999999999976 678999999875

>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=99.07  E-value=4.2e-11  Score=98.55  Aligned_cols=46  Identities=22%  Similarity=0.566  Sum_probs=40.8

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~V~~  329 (333)
                      ..|+||+..|..+   ++++|+|+||..||..|++.+. +||+||+.+..
T Consensus        19 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           19 YECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             GBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            4599999999876   6789999999999999998765 99999999865

>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=99.06  E-value=6.4e-11  Score=96.79  Aligned_cols=46  Identities=35%  Similarity=0.656  Sum_probs=40.5

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~  329 (333)
                      ..|+||+..|..+   +.++|||+||..||..|+.. ...||+||+.+..
T Consensus        24 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           24 ISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             TBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            3499999999865   56899999999999999987 6799999999864

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

Probab=99.06  E-value=8.4e-11  Score=92.14  Aligned_cols=47  Identities=13%  Similarity=0.022  Sum_probs=42.8

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .+.|+||+..|..+   ++++|||+|+..||.+||..+.+||+||..+..
T Consensus        14 ~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           14 EFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             heECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            45699999999988   788999999999999999988999999998864

>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=99.04  E-value=1e-10  Score=94.61  Aligned_cols=48  Identities=15%  Similarity=0.044  Sum_probs=43.5

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      .+.|+||+..|..+   +++||||+|+..||.+||..+.+||+||..+...
T Consensus        29 ~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           29 EFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             TTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             hhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            45699999999988   7889999999999999999889999999998753

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

Probab=99.01  E-value=1.8e-10  Score=92.79  Aligned_cols=48  Identities=17%  Similarity=0.115  Sum_probs=43.3

Q ss_pred             CCcccccccccCCCCeeEEeCCC-CcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCK-HSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCg-H~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      .+.|+||++.|..+   ++++|| |+|+..||.+||..+.+||+||..+...
T Consensus        22 ~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           22 EFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             hcCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            45699999999988   788999 9999999999999889999999998643

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

Probab=98.95  E-value=3.2e-10  Score=111.90  Aligned_cols=46  Identities=26%  Similarity=0.700  Sum_probs=40.8

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~  329 (333)
                      ..|+||++.+..+   +.+||||.||..||..|+. .+..||+||+.+..
T Consensus       333 ~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          333 QLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            4599999998654   7899999999999999998 78899999998863

>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=98.94  E-value=1.4e-10  Score=95.37  Aligned_cols=43  Identities=26%  Similarity=0.664  Sum_probs=38.3

Q ss_pred             cccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .|+||+..|..+   +++ +|||+||..||..|+.  ..||+||+.+..
T Consensus        24 ~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           24 RCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             SCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            399999999876   566 9999999999999988  889999999854

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

Probab=98.93  E-value=4.6e-10  Score=87.03  Aligned_cols=51  Identities=18%  Similarity=0.349  Sum_probs=38.9

Q ss_pred             CCcccccccccCCCCee-EEeCCCCcccHHHHHHHHh-cCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETL-TVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l-~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~s  330 (333)
                      ...|+||++.+...+.. ..++|||.||..||..|+. ....||+||+.+...
T Consensus        11 ~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A           11 PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             CCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            34599999988643322 2235999999999999874 457899999998754

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

Probab=98.93  E-value=1.7e-10  Score=98.55  Aligned_cols=45  Identities=27%  Similarity=0.526  Sum_probs=39.7

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~V~  328 (333)
                      ..|+||+..|..+   ++++|||+||..||.+|++..+ .||+||+.+.
T Consensus        32 ~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           32 YLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             cCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4599999999877   6689999999999999998665 8999999764

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

Probab=98.93  E-value=1.6e-10  Score=83.38  Aligned_cols=46  Identities=24%  Similarity=0.573  Sum_probs=39.3

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~  331 (333)
                      ...|+||+..|..+   ++|||+|.||..||..|   +..||+||+.+....
T Consensus         6 ~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            6 FLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            45599999999876   77899999999999884   678999999987543

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

Probab=98.93  E-value=3.6e-10  Score=103.63  Aligned_cols=47  Identities=13%  Similarity=0.107  Sum_probs=41.3

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-ksCPvCR~~V~~  329 (333)
                      ...|+||++.|..+   +++||||+||..||.+||..+ .+||+||..+..
T Consensus       208 ~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          208 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             TTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             ccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            45699999999988   789999999999999999864 459999999864

>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=98.91  E-value=4.6e-10  Score=83.42  Aligned_cols=44  Identities=32%  Similarity=0.658  Sum_probs=38.3

Q ss_pred             cccccccccCCCCeeEEe--CCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVL--SCKHS-YHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L--PCgH~-FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      .|+||++.+...   +.+  ||||. |+..|+..|++.++.||+||+.|.
T Consensus        10 ~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A           10 PCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             CCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            499999987654   444  99999 899999999999999999999885

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

Probab=98.87  E-value=5.6e-10  Score=84.96  Aligned_cols=41  Identities=22%  Similarity=0.508  Sum_probs=36.2

Q ss_pred             cccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .|+||++.+...   +.+||+|. ||..||..|    +.||+||+.|..
T Consensus        26 ~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           26 LCKICMDRNIAI---VFVPCGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             BCTTTSSSBCCE---EEETTCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCE---EEcCCCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            399999988764   77899999 999999999    889999998863

>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=98.85  E-value=1e-09  Score=81.28  Aligned_cols=45  Identities=24%  Similarity=0.605  Sum_probs=38.4

Q ss_pred             CcccccccccCCCCeeEEe--CCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVL--SCKHS-YHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~L--PCgH~-FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||++.+...   ..+  ||||. |+..|+..|.+.++.||+||+.|.
T Consensus         8 ~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            8 KPCSLCEKRPRDG---NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             SBCTTTSSSBSCE---EEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CCCcccCCcCCCe---EEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            3499999986543   344  99998 999999999988899999999985

>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=98.84  E-value=1.2e-09  Score=86.80  Aligned_cols=44  Identities=27%  Similarity=0.668  Sum_probs=38.0

Q ss_pred             CCcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcC------CCCCC--cccc
Q 019980          280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKIN------KVCPV--CSAE  326 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~k------ksCPv--CR~~  326 (333)
                      .+.|+||+..|..+   ++++ |||+|+..||.+||..+      .+||+  |++.
T Consensus         7 ~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            7 GFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             EeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            45599999999987   6776 99999999999999764      48999  9866

>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=98.80  E-value=1.7e-09  Score=93.84  Aligned_cols=47  Identities=21%  Similarity=0.546  Sum_probs=40.8

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~V~~  329 (333)
                      ...|+||+..|..+   ++++|||+||..||.+||..++ +||+||..|..
T Consensus        18 ~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           18 KYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            34599999999876   6689999999999999998654 99999999864

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

Probab=98.79  E-value=1.3e-09  Score=105.88  Aligned_cols=51  Identities=33%  Similarity=0.707  Sum_probs=39.9

Q ss_pred             CCcccccccccCCCCeeE-----EeCCCCcccHHHHHHHHhcC-----------CCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLT-----VLSCKHSYHSECINNWLKIN-----------KVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~-----~LPCgH~FH~~CI~~WL~~k-----------ksCPvCR~~V~~s  330 (333)
                      ...|+||++.+..+..+.     ..+|+|.||..||.+||+..           +.||+||++|+.+
T Consensus       308 ~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             CccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            445999999998733332     23599999999999999753           4799999998754

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

Probab=98.74  E-value=4.7e-09  Score=93.54  Aligned_cols=47  Identities=13%  Similarity=0.097  Sum_probs=40.9

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-ksCPvCR~~V~~  329 (333)
                      .+.|+||+..|..+   +++||||+|+..||..||..+ .+||+||..+..
T Consensus       106 ~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          106 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             hhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            34599999999987   778999999999999999874 469999998864

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

Probab=98.70  E-value=5e-09  Score=79.66  Aligned_cols=41  Identities=22%  Similarity=0.529  Sum_probs=34.9

Q ss_pred             ccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      |+||+..+...   +.+||+|. ||..|+..    .+.||+||+.|...
T Consensus        28 C~IC~~~~~~~---~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           28 CKICMDRNIAI---VFVPCGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             CSSSCSSCCCB---CCSSSCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCcCCCCCCCE---EEecCCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            99999998764   67899999 99999964    37899999998653

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

Probab=98.60  E-value=2.6e-08  Score=73.50  Aligned_cols=47  Identities=28%  Similarity=0.687  Sum_probs=36.5

Q ss_pred             CCcccccccccCCCCeeEEeCCC--C---cccHHHHHHHHhc--CCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCK--H---SYHSECINNWLKI--NKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCg--H---~FH~~CI~~WL~~--kksCPvCR~~V~~  329 (333)
                      ...|.||+....  +.+ ++||.  |   .||..||.+||..  +.+||+||..+..
T Consensus         6 ~~~CrIC~~~~~--~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            6 VPVCWICNEELG--NER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CCEETTTTEECS--CCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCEeEEeecCCC--Cce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            345999999843  334 68854  4   8999999999975  5789999998753

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

Probab=98.60  E-value=3.5e-08  Score=74.21  Aligned_cols=43  Identities=26%  Similarity=0.713  Sum_probs=35.9

Q ss_pred             CCcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ...|+||++.+..   ++.+||+|. ||..|+..    .+.||+||+.|..
T Consensus        15 ~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           15 SKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             SSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            4559999998765   478899999 99999983    4789999998864

>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=98.57  E-value=1.3e-08  Score=80.29  Aligned_cols=46  Identities=20%  Similarity=0.632  Sum_probs=38.1

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--------CCCCC--cccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--------KVCPV--CSAE  326 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--------ksCPv--CR~~  326 (333)
                      ..|+||++.+..+..+..++|+|.||..||..++..+        ..||.  |+..
T Consensus         6 ~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            6 SGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             cCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3499999999877655556899999999999999642        37999  9988

>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=98.57  E-value=1.5e-08  Score=78.34  Aligned_cols=39  Identities=28%  Similarity=0.773  Sum_probs=34.3

Q ss_pred             ccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980          283 CVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      |+||++.+...   +.+||||. ||..|+..|    ..||+||+.|.
T Consensus        21 C~IC~~~~~~~---v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           21 CMVCCEEEINS---TFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             CTTTSSSBCCE---EEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             eEEeCcccCcE---EEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            99999987654   78899999 999999887    48999999875

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

Probab=98.55  E-value=2.8e-08  Score=73.53  Aligned_cols=46  Identities=11%  Similarity=0.198  Sum_probs=40.8

Q ss_pred             CcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ..|+||++.+..+   +++ +|||+|.+.||.+||+.+++||+++..+..
T Consensus         4 ~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            4 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             EEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            3499999999976   566 899999999999999988899999998864

>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=98.51  E-value=3.4e-08  Score=92.84  Aligned_cols=49  Identities=33%  Similarity=0.633  Sum_probs=41.0

Q ss_pred             CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--CCCCC--ccccccC
Q 019980          279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPV--CSAEVST  329 (333)
Q Consensus       279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--ksCPv--CR~~V~~  329 (333)
                      ....|+||+..|..+  ++.+.|||+|+..||..|+..+  ..||+  ||+.+..
T Consensus       180 ~el~CPIcl~~f~DP--Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             eeeECcCccCcccCC--eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            467799999999876  4445899999999999999764  47999  9998753

>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=98.44  E-value=3.2e-08  Score=96.25  Aligned_cols=43  Identities=21%  Similarity=0.564  Sum_probs=37.3

Q ss_pred             CCcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      ...|+||++.+...   +.+||||. ||..||..|    ..||+||..|..
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            34599999998765   77899999 999999988    789999998863

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

Probab=98.18  E-value=1.1e-06  Score=71.26  Aligned_cols=45  Identities=31%  Similarity=0.589  Sum_probs=38.3

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~  328 (333)
                      .|.+|--+|..  ..+.+||+|+||..|+..|.++ .++||+|+..|.
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            38999888763  4688999999999999999854 589999999875

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

Probab=98.05  E-value=2.5e-06  Score=78.84  Aligned_cols=46  Identities=24%  Similarity=0.538  Sum_probs=38.9

Q ss_pred             CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCC--CCCCccccccC
Q 019980          281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINK--VCPVCSAEVST  329 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kk--sCPvCR~~V~~  329 (333)
                      ..|.||..-+..|   .+.+ |+|.||..|+.+|++.+.  .||.|+...+.
T Consensus       181 ~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          181 KICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            3499999999987   4444 999999999999998754  99999998764

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

Probab=94.98  E-value=0.022  Score=42.44  Aligned_cols=45  Identities=22%  Similarity=0.472  Sum_probs=32.5

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC----CCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk----sCPvCR~~V~  328 (333)
                      ..|.||..   .++.+..-.|...||..|+.+.|....    .||.|+....
T Consensus        13 ~~C~vC~~---~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~   61 (66)
T 2lri_C           13 ARCGVCGD---GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVT   61 (66)
T ss_dssp             CCCTTTSC---CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCC
T ss_pred             CCcCCCCC---CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCc
Confidence            34999974   343333334999999999999886542    7999987654

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

Probab=94.08  E-value=0.022  Score=44.62  Aligned_cols=34  Identities=26%  Similarity=0.590  Sum_probs=25.8

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHH-HH
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINN-WL  314 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~-WL  314 (333)
                      ..|.||+..|...-....++|+|.||..||.. |.
T Consensus         4 ~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            4 VLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            45999998754433344589999999999998 53

>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=92.25  E-value=0.079  Score=41.69  Aligned_cols=31  Identities=16%  Similarity=0.602  Sum_probs=21.7

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHH
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNW  313 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~W  313 (333)
                      .|.||- .|.....+..--|+-+||..|+.+-
T Consensus        17 ~C~VC~-~~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           17 MCDVCE-VWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCTTTC-CCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             ccCccc-cccccceeccccccccccHhhcccc
Confidence            399994 3444433333348999999999996

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

Probab=90.71  E-value=0.097  Score=36.38  Aligned_cols=43  Identities=28%  Similarity=0.635  Sum_probs=29.4

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCccc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSA  325 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvCR~  325 (333)
                      |.||...-..+..+..-.|...||..|+.+=|...    -.||.|+.
T Consensus         3 C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            99998764433333333599999999997655432    26999975

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

Probab=90.33  E-value=0.11  Score=37.77  Aligned_cols=43  Identities=28%  Similarity=0.690  Sum_probs=30.0

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCcccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAE  326 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvCR~~  326 (333)
                      ..|.||...   ++.+..-.|...||..||.+-|...    -.||.|++.
T Consensus        12 ~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A           12 DYCEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCccCCCC---CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            349999863   3333333599999999999865432    379999864

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

Probab=89.46  E-value=0.12  Score=38.79  Aligned_cols=49  Identities=20%  Similarity=0.537  Sum_probs=34.2

Q ss_pred             CcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhc----CCCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKI----NKVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~----kksCPvCR~~V~~s  330 (333)
                      ..|.||..... +...+.. .|..-||..||..-+..    .-.||.|+..+...
T Consensus        19 ~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~k~   72 (75)
T 2k16_A           19 WICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKKD   72 (75)
T ss_dssp             ECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHCSC
T ss_pred             cCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchhhc
Confidence            34999988764 3333333 49999999999765532    34799999887644

>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=88.67  E-value=0.083  Score=38.41  Aligned_cols=50  Identities=22%  Similarity=0.462  Sum_probs=33.9

Q ss_pred             CCcccccccccCCCC-eeEEeCCCCcccHHHHHHHHh-----cCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGE-TLTVLSCKHSYHSECINNWLK-----INKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~-----~kksCPvCR~~V~~  329 (333)
                      ...|+||...+..+. .+..-.|..=||..|+.--..     ..-.||.|+..-..
T Consensus         6 ~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k~~~   61 (64)
T 1we9_A            6 SGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGP   61 (64)
T ss_dssp             CCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTCS
T ss_pred             CCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCcCCC
Confidence            344999999986443 333335999999999854322     34589999865443

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=87.12  E-value=0.37  Score=36.19  Aligned_cols=50  Identities=22%  Similarity=0.540  Sum_probs=34.2

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHH---------hcCCCCCCccccccCCC
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWL---------KINKVCPVCSAEVSTSG  331 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL---------~~kksCPvCR~~V~~s~  331 (333)
                      ..| ||...+..+..+..-.|..=||..|+.--.         .....||.|+..-.+++
T Consensus        17 ~~C-~C~~~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~~p~~   75 (76)
T 1wem_A           17 LYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGPSS   75 (76)
T ss_dssp             CCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCSSC
T ss_pred             CEE-ECCCccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCccCcCC
Confidence            447 899887654444444599999999984211         24678999987765543

>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=86.62  E-value=0.44  Score=51.87  Aligned_cols=47  Identities=13%  Similarity=0.095  Sum_probs=41.7

Q ss_pred             CCcccccccccCCCCeeEEeCCC-CcccHHHHHHHHhcCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCK-HSYHSECINNWLKINKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCg-H~FH~~CI~~WL~~kksCPvCR~~V~~  329 (333)
                      .+.|+|-++-+..+   +++|.| ++|-+.+|.+||..+.+||+=|.++..
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            46699999999988   789997 689999999999999999999988763

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=85.07  E-value=0.13  Score=37.40  Aligned_cols=45  Identities=33%  Similarity=0.651  Sum_probs=30.6

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvCR~~V~  328 (333)
                      ..|.||..   .++.+..-.|...||..||.+-|...    -.||.|+....
T Consensus        10 ~~C~vC~~---~g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   58 (61)
T 1mm2_A           10 EFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CcCCCCCC---CCCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCchh
Confidence            34999975   23333333499999999998755432    26999987654

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=83.51  E-value=0.22  Score=39.57  Aligned_cols=45  Identities=22%  Similarity=0.513  Sum_probs=30.9

Q ss_pred             CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc---CCCCCCcccc
Q 019980          281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI---NKVCPVCSAE  326 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~---kksCPvCR~~  326 (333)
                      ..| ||......+..+..-.|..-||..|+..=+..   .-.||.|+..
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            347 89887766644433359999999999763322   2489999743

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=82.33  E-value=0.2  Score=40.35  Aligned_cols=48  Identities=23%  Similarity=0.484  Sum_probs=33.7

Q ss_pred             cccccccccCCCCeeEEe--CCCCcccHHHHHHHH----h------cCCCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVL--SCKHSYHSECINNWL----K------INKVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L--PCgH~FH~~CI~~WL----~------~kksCPvCR~~V~~  329 (333)
                      .|.||...|......+..  .|..=||..|+.--.    .      .+-.||.|+.....
T Consensus         5 ~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~~~   64 (105)
T 2xb1_A            5 PCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKEG   64 (105)
T ss_dssp             BCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTTTT
T ss_pred             CCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcCCC
Confidence            499999998665444444  489999999974211    0      34589999876554

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=82.29  E-value=0.31  Score=39.38  Aligned_cols=43  Identities=26%  Similarity=0.662  Sum_probs=29.1

Q ss_pred             ccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcC----CCCCCccc
Q 019980          283 CVICRLDYEDGETLTVL-SCKHSYHSECINNWLKIN----KVCPVCSA  325 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~k----ksCPvCR~  325 (333)
                      |.||...-.....+... .|...||..|+.+-|...    =.||.|+.
T Consensus        64 C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           64 CSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             BTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             cccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            88887653232333333 499999999998766433    27999985

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

Probab=81.88  E-value=0.7  Score=35.01  Aligned_cols=51  Identities=18%  Similarity=0.348  Sum_probs=34.4

Q ss_pred             CCcccccccccCCCCeeEEe--CCCCcccHHHHHHHH---------hcCCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDGETLTVL--SCKHSYHSECINNWL---------KINKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~L--PCgH~FH~~CI~~WL---------~~kksCPvCR~~V~~s~  331 (333)
                      ...| ||......+..+..=  .|..=||..|+.---         ..+-.||.|+..-...+
T Consensus        16 ~~~C-iC~~~~~~g~MI~CD~~~C~~W~H~~CVgi~~~~~~~~~~~~~~~~C~~C~~~~~~~s   77 (78)
T 1wew_A           16 KVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSGPSS   77 (78)
T ss_dssp             CCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCSCCC
T ss_pred             CEEe-ECCCcCCCCCEEEECCccCCccccCEEEccccccccccccCCCCEECCCCCcccCCCC
Confidence            3448 798886566555444  599999999985321         13458999987665443

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=81.87  E-value=1  Score=44.07  Aligned_cols=48  Identities=19%  Similarity=0.371  Sum_probs=31.7

Q ss_pred             CCcccccccccCCCCeeEEeCCCCc--ccHHHHHHHHhcC--CCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHS--YHSECINNWLKIN--KVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~--FH~~CI~~WL~~k--ksCPvCR~~V~~  329 (333)
                      .+.|+|-+..+..+  ++-..|.|.  |-..-+.....++  -.||+|.+.+..
T Consensus       249 SL~CPlS~~ri~~P--vRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~  300 (371)
T 3i2d_A          249 SLQCPISYTRMKYP--SKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIAL  300 (371)
T ss_dssp             ESBCTTTSSBCSSE--EEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCG
T ss_pred             eecCCCcccccccc--CcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCH
Confidence            46699988887765  667789998  4333333332222  479999988753

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.80  E-value=0.14  Score=36.44  Aligned_cols=41  Identities=34%  Similarity=0.824  Sum_probs=28.2

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSA  325 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvCR~  325 (333)
                      .|.||...   +..+..-.|...||..|+.+-|...    -.||.|+.
T Consensus        11 ~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A           11 FCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            49999864   3333333499999999998765432    25888864

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=80.90  E-value=0.89  Score=35.90  Aligned_cols=46  Identities=28%  Similarity=0.626  Sum_probs=29.4

Q ss_pred             CCcccccccccCCCCeeEEeC--CC-CcccHHHHHHHHhc----CCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLS--CK-HSYHSECINNWLKI----NKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LP--Cg-H~FH~~CI~~WL~~----kksCPvCR~~V~~  329 (333)
                      ...| ||..... +..+..=.  |. .-||..||.  |..    +-.||.|+.....
T Consensus        36 ~~yC-iC~~~~~-g~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~~k   88 (91)
T 1weu_A           36 PTYC-LCHQVSY-GEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQESGP   88 (91)
T ss_dssp             CBCS-TTCCBCC-SCCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCCSS
T ss_pred             CcEE-ECCCCCC-CCEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcCCc
Confidence            3447 9988753 43332223  55 579999997  433    2479999876543

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=80.79  E-value=0.099  Score=37.73  Aligned_cols=44  Identities=32%  Similarity=0.777  Sum_probs=30.5

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvCR~~V~  328 (333)
                      .|.||...   +..+..-.|...||..|+.+-|...    -.||.|+....
T Consensus         7 ~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~   54 (60)
T 2puy_A            7 FCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQML   54 (60)
T ss_dssp             SCTTTCCC---SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHH
T ss_pred             CCcCCCCC---CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhh
Confidence            49999864   4333333599999999998755432    26999976654

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=80.34  E-value=1.3  Score=43.24  Aligned_cols=48  Identities=15%  Similarity=0.422  Sum_probs=32.3

Q ss_pred             CCcccccccccCCCCeeEEeCCCCc--ccHHHHHHHHhcC--CCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHS--YHSECINNWLKIN--KVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~--FH~~CI~~WL~~k--ksCPvCR~~V~~  329 (333)
                      .+.|+|-+..+..+  ++-..|.|.  |-..-+.....++  -.||+|.+.+..
T Consensus       215 SL~CPlS~~ri~~P--~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~  266 (360)
T 4fo9_A          215 SLMCPLGKMRLTIP--CRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAY  266 (360)
T ss_dssp             ESBCTTTCSBCSSE--EEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCG
T ss_pred             eeeCCCccceeccC--CcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCH
Confidence            45699988888765  666779998  5443333333333  479999998753

---

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	333
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	8e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	3e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	9e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	6e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	8e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	8e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	4e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 64.9 bits (158), Expect = 2e-14
 Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 280 GFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV 327
           G  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 = 57.6 bits (139), Expect = 8e-12
 Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 277 SCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333
           + +   C IC  D  +      L C H++   CI  W++ N  CP+C   V +  H+
Sbjct: 2   ATVAERCPICLEDPSNYSM--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 = 54.4 bits (130), Expect = 2e-10
 Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 15/60 (25%)

Query: 282 SCVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326
           +C ICR    D                 T+    C H++H  CI+ WLK  +VCP+ + E
Sbjct: 23  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 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 = 51.5 bits (123), Expect = 2e-09
 Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVSTS 330
           C IC    E+ + + +  C H   + C+ +W +   + CP C  E+  +
Sbjct: 26  CKIC---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 = 47.2 bits (112), Expect = 4e-08
 Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 6/48 (12%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
           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 = 44.7 bits (105), Expect = 3e-07
 Identities = 9/49 (18%), Positives = 15/49 (30%), Gaps = 2/49 (4%)

Query: 282 SCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVS 328
            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 = 43.6 bits (102), Expect = 9e-07
 Identities = 9/50 (18%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 282 SCVICRLDYEDGETLTVL--SCKHSYHSECINNWLKINK-VCPVCSAEVS 328
            C  C+       +L ++   C H+    C++         CP C   + 
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 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 = 41.0 bits (95), Expect = 6e-06
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 4/51 (7%)

Query: 283 CVICRLDYEDGETL--TVLSCKHSYHSECINNWLKIN--KVCPVCSAEVST 329
           C IC  +  +             + H  C++ WL I+    C +C    +T
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT 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 = 41.4 bits (97), Expect = 8e-06
 Identities = 16/51 (31%), Positives = 19/51 (37%), Gaps = 4/51 (7%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS 330
            SC IC     D       SCKH +   CI   LK+    CP C      +
Sbjct: 24  ISCQICEHILADP---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 = 41.6 bits (97), Expect = 1e-05
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 6/51 (11%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEVS 328
             C IC    ++        C H +   C+   L   K    CP+C  +++
Sbjct: 22  LECPICLELIKEP---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 = 38.9 bits (90), Expect = 8e-05
 Identities = 11/60 (18%), Positives = 25/60 (41%), Gaps = 11/60 (18%)

Query: 273 GSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--------NKVCPVCS 324
           GS+ S     C +C  +Y   +  T+  C+  + + C+  ++++           CP  +
Sbjct: 1   GSSGS---SGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 37.7 bits (86), Expect = 3e-04
 Identities = 9/56 (16%), Positives = 16/56 (28%), Gaps = 5/56 (8%)

Query: 277 SCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-----INKVCPVCSAEV 327
              G+S +             +  C H++H  C+           +  CP C    
Sbjct: 37  VASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY 92

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.9 bits (82), Expect = 4e-04
 Identities = 5/48 (10%), Positives = 13/48 (27%), Gaps = 2/48 (4%)

Query: 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
           C I                +  +    +  ++K     P+ +  +S  
Sbjct: 3   CAISGKVPRRPVLSPK--SRTIFEKSLLEQYVKDTGNDPITNEPLSIE 48

>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 = 34.8 bits (79), Expect = 0.002
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 4/50 (8%)

Query: 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330
             C  C     +   L    C+H + S C+++ +     CPVC       
Sbjct: 23  LRCSRCTNILREPVCLG--GCEHIFCSNCVSDCIGTG--CPVCYTPAWIQ 68

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	333
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.63
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.48
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.44
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.41
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.4
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.39
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.36
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.28
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.25
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.19
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.19
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.05
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.02
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.02
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.01
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.85
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.49
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.57
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	93.01
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	91.66
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	91.2
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	89.23
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	88.1
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	87.56
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	86.28
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	85.95
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	84.81
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	80.54
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	80.45

>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=99.63  E-value=4.7e-17  Score=117.12  Aligned_cols=48  Identities=38%  Similarity=1.002  Sum_probs=44.5

Q ss_pred             CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      ..|+||++.|..++.++++| |+|+||..||.+||+++++||+||+.|.
T Consensus         6 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            34999999999999998886 9999999999999999999999999874

>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=99.48  E-value=5.5e-15  Score=109.91  Aligned_cols=45  Identities=33%  Similarity=0.824  Sum_probs=40.7

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      .|+||++.|..+  ++.+||+|+||..||.+||+.+++||+||++|.
T Consensus         7 ~C~IC~~~~~~~--~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           7 RCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCccCCcCccCC--cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            399999999753  567899999999999999999999999999885

>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=99.44  E-value=2.6e-14  Score=115.41  Aligned_cols=48  Identities=21%  Similarity=0.493  Sum_probs=39.1

Q ss_pred             ccccccccCCC---------------CeeEEeCCCCcccHHHHHHHHhcC-----CCCCCccccccCC
Q 019980          283 CVICRLDYEDG---------------ETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~g---------------d~l~~LPCgH~FH~~CI~~WL~~k-----ksCPvCR~~V~~s  330 (333)
                      |+||++.|...               ..+.+++|+|+||..||..||+.+     .+||+||+.+...
T Consensus        28 C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          28 CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             ETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             ccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            99999988532               245677899999999999999754     3799999988654

>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=99.41  E-value=6.6e-14  Score=108.92  Aligned_cols=46  Identities=39%  Similarity=0.802  Sum_probs=39.8

Q ss_pred             ccccccccCCCC---------------eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980          283 CVICRLDYEDGE---------------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS  328 (333)
Q Consensus       283 C~ICLe~f~~gd---------------~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~  328 (333)
                      |+||++.+....               .+++++|+|+||..||.+||+.+++||+||++..
T Consensus        24 C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          24 CAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             CSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            999998886432               3567899999999999999999999999999864

>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=99.40  E-value=3.8e-14  Score=100.32  Aligned_cols=48  Identities=17%  Similarity=0.350  Sum_probs=40.4

Q ss_pred             cccccccccCCCCee-EEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 019980          282 SCVICRLDYEDGETL-TVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l-~~LPCgH~FH~~CI~~WL~~k-ksCPvCR~~V~~  329 (333)
                      +|+||++.|..++.. +.++|+|.||..||.+|++.. ++||+||+++..
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            499999999876554 456899999999999999864 579999998864

>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=99.39  E-value=1.1e-13  Score=102.14  Aligned_cols=52  Identities=21%  Similarity=0.459  Sum_probs=40.8

Q ss_pred             CCcccccccccCCC--CeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDG--ETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~g--d~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~s~  331 (333)
                      ...|+||++.+..+  ..+.+++|+|+||..||.+||+. +++||+||+.|...+
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            34599999986433  23456789999999999999965 468999999986543

>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=99.36  E-value=1.9e-13  Score=104.44  Aligned_cols=45  Identities=27%  Similarity=0.768  Sum_probs=39.7

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~s  330 (333)
                      |+||++.+...   +++||||+||..||..||.. +++||+||+.|...
T Consensus        26 C~IC~~~~~~~---~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          26 CKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             CTTTSSSBCCE---ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CccCCCcCCCe---EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            99999988754   78899999999999999974 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=99.28  E-value=4.1e-13  Score=96.18  Aligned_cols=46  Identities=11%  Similarity=0.188  Sum_probs=40.6

Q ss_pred             cccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      .|+||++.+..+   +++ .|||+||..||.+||+++++||+||+.+...
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            499999999866   555 4999999999999999999999999998643

>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=99.25  E-value=1.3e-12  Score=103.92  Aligned_cols=45  Identities=24%  Similarity=0.650  Sum_probs=39.5

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC---CCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK---VCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk---sCPvCR~~V~~s  330 (333)
                      |+||+..|..+   ++++|||+||..||..|++.++   .||+||+.+...
T Consensus        24 CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          24 CPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             CSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            99999999876   5689999999999999997654   899999998643

>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=99.19  E-value=3.3e-12  Score=99.45  Aligned_cols=45  Identities=36%  Similarity=0.644  Sum_probs=39.5

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-CCCCCccccccC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVST  329 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-ksCPvCR~~V~~  329 (333)
                      .|+||++.|..+   ++++|||+||..||.+|++.+ ++||+||.++..
T Consensus        25 ~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          25 SCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             BCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            399999999876   788999999999999999754 689999998764

>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=99.19  E-value=1.1e-12  Score=94.24  Aligned_cols=46  Identities=24%  Similarity=0.573  Sum_probs=39.4

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG  331 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~  331 (333)
                      ...|+||++.|..+   ++|||+|+||..||.+|   +.+||+||+.|+...
T Consensus         6 ~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           6 FLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             CCCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCcCCCCcccCCC
Confidence            34699999999876   67899999999999876   678999999998653

>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=99.05  E-value=1.4e-11  Score=96.71  Aligned_cols=44  Identities=23%  Similarity=0.612  Sum_probs=37.0

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      |+||++.|..+  +...+|||.||..||.+|+.  +.||+||..+...
T Consensus        25 C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          25 CSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (97)
T ss_dssp             CSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             CccCCchhhcC--ceeCCCCCchhHHHHHHHHh--ccccccCCcCchh
Confidence            99999999876  33457999999999999985  4599999987643

>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=99.02  E-value=1.2e-10  Score=87.89  Aligned_cols=48  Identities=25%  Similarity=0.510  Sum_probs=41.8

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-CCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-KVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-ksCPvCR~~V~~s  330 (333)
                      .+.|+||++.|..+   ++++|||.||..||.+|+..+ ..||+|+..+...
T Consensus         8 ~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           8 YFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             cCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            45699999999887   678999999999999999765 5799999998754

>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=99.02  E-value=5.8e-11  Score=85.53  Aligned_cols=47  Identities=23%  Similarity=0.564  Sum_probs=36.5

Q ss_pred             CCcccccccccCCCCeeEEeC-----CCCcccHHHHHHHHh--cCCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLS-----CKHSYHSECINNWLK--INKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LP-----CgH~FH~~CI~~WL~--~kksCPvCR~~V~~  329 (333)
                      ...|.||++.+...   .+.|     |+|.||..||.+||.  .+.+||+||+.+..
T Consensus         6 ~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           6 VPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            34599999988754   2334     459999999999995  45689999998753

>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=99.01  E-value=6.9e-11  Score=89.69  Aligned_cols=47  Identities=13%  Similarity=0.126  Sum_probs=41.0

Q ss_pred             CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST  329 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~  329 (333)
                      .+.|+||++.|..+   ++++|||+|+..||.+||.. +.+||+||..|..
T Consensus         7 ~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           7 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             TTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            45699999999987   67899999999999999975 4579999998864

>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=98.85  E-value=7.9e-10  Score=87.28  Aligned_cols=48  Identities=17%  Similarity=0.115  Sum_probs=42.3

Q ss_pred             CCcccccccccCCCCeeEEeCCC-CcccHHHHHHHHhcCCCCCCccccccCC
Q 019980          280 GFSCVICRLDYEDGETLTVLSCK-HSYHSECINNWLKINKVCPVCSAEVSTS  330 (333)
Q Consensus       280 ~~~C~ICLe~f~~gd~l~~LPCg-H~FH~~CI~~WL~~kksCPvCR~~V~~s  330 (333)
                      .+.|+||+.-|..+   +++||+ |.|+..||.+||+.+.+||+||+.|...
T Consensus        22 ~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          22 EFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            46699999999988   788865 5899999999999999999999998753

>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=98.49  E-value=1.3e-08  Score=78.55  Aligned_cols=44  Identities=18%  Similarity=0.598  Sum_probs=35.9

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--------CCCCCccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--------KVCPVCSA  325 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--------ksCPvCR~  325 (333)
                      .|+||++.+...+.++.++|+|.||..||..||+.+        -+||.|+.
T Consensus         7 ~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           7 GCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             cCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            399999999877777777899999999999999532        25998653

>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=94.57  E-value=0.0059  Score=41.08  Aligned_cols=42  Identities=31%  Similarity=0.724  Sum_probs=30.4

Q ss_pred             ccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCC----CCCCccc
Q 019980          283 CVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINK----VCPVCSA  325 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kk----sCPvCR~  325 (333)
                      |.||...-..+ .++.- .|...||..|+.+-+....    .||.||.
T Consensus         3 C~vC~~~~~~~-~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           3 CKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CcCcCCCCCCC-CEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            99998765443 33333 4999999999998775432    6999975

>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=93.01  E-value=0.0094  Score=41.85  Aligned_cols=50  Identities=24%  Similarity=0.523  Sum_probs=35.8

Q ss_pred             cccccccccCCCCeeEEe-CCCCcccHHHHHHHH---h--cCCCCCCccccccCCC
Q 019980          282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWL---K--INKVCPVCSAEVSTSG  331 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL---~--~kksCPvCR~~V~~s~  331 (333)
                      .|.||...+..+...+.- .|+.-||..|+..-.   .  ..-.||.|+..-.+++
T Consensus         8 ~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~ps~   63 (64)
T d1we9a_           8 QCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGPSS   63 (64)
T ss_dssp             CCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTCSSC
T ss_pred             cCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCCCCC
Confidence            399999988776554444 499999999985321   1  2358999998766554

>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=91.66  E-value=0.025  Score=40.51  Aligned_cols=43  Identities=21%  Similarity=0.602  Sum_probs=29.1

Q ss_pred             ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC----CCCCcccccc
Q 019980          283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSAEVS  328 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk----sCPvCR~~V~  328 (333)
                      |.||.   ..++.+.-=.|...||..|+.+.|....    .||.|+..-.
T Consensus        10 C~~C~---~~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1          10 CRVCQ---KPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             CSSSC---SSSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCC---CcCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            66664   3444332224999999999998875432    6999976554

>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=91.20  E-value=0.048  Score=39.63  Aligned_cols=50  Identities=18%  Similarity=0.385  Sum_probs=33.1

Q ss_pred             CcccccccccCCCCeeEEe--CCCCcccHHHHHH----HHh-----cCCCCCCccccccCCC
Q 019980          281 FSCVICRLDYEDGETLTVL--SCKHSYHSECINN----WLK-----INKVCPVCSAEVSTSG  331 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~L--PCgH~FH~~CI~~----WL~-----~kksCPvCR~~V~~s~  331 (333)
                      ..| ||......+..+..-  .|..=||..|+.-    +..     ..-.||.|+..-.+++
T Consensus        17 ~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~pss   77 (78)
T d1wewa_          17 VRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSGPSS   77 (78)
T ss_dssp             CCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCSCCC
T ss_pred             cEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCCCCC
Confidence            447 899887655444332  3999999999831    111     1358999988776654

>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=89.23  E-value=0.25  Score=34.97  Aligned_cols=49  Identities=24%  Similarity=0.600  Sum_probs=31.8

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHH----HH--H---hcCCCCCCccccccCCC
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECIN----NW--L---KINKVCPVCSAEVSTSG  331 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~----~W--L---~~kksCPvCR~~V~~s~  331 (333)
                      .| ||......+..+..-.|.--||..|+.    ..  +   ...-.||.|+....+++
T Consensus        18 ~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~~pss   75 (76)
T d1wema_          18 YC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGPSS   75 (76)
T ss_dssp             CS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCSSC
T ss_pred             EE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcCCCCC
Confidence            37 888776554333333599999999982    11  1   23468999987665554

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.10  E-value=0.21  Score=37.23  Aligned_cols=31  Identities=16%  Similarity=0.567  Sum_probs=22.8

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHH
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNW  313 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~W  313 (333)
                      .|.|| ..|.....+..--|+.+||..|+.+-
T Consensus        17 mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          17 MCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             ccccc-CcccccceecceeecchhhHHHHHHh
Confidence            39999 66766533322238999999999987

>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=87.56  E-value=0.031  Score=41.36  Aligned_cols=49  Identities=24%  Similarity=0.608  Sum_probs=31.7

Q ss_pred             CCcccccccccCCC-CeeEEe-CCCCcccHHHHHHHH-----hc---CCCCCCcccccc
Q 019980          280 GFSCVICRLDYEDG-ETLTVL-SCKHSYHSECINNWL-----KI---NKVCPVCSAEVS  328 (333)
Q Consensus       280 ~~~C~ICLe~f~~g-d~l~~L-PCgH~FH~~CI~~WL-----~~---kksCPvCR~~V~  328 (333)
                      ...|.||....... ..++.. -|...||..||.+.+     ..   .-.||.|+....
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            34599998755432 233333 499999999987543     22   247999986543

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.28  E-value=0.29  Score=35.00  Aligned_cols=46  Identities=26%  Similarity=0.602  Sum_probs=27.4

Q ss_pred             CcccccccccCCCCeeEEe--CCCC-cccHHHHHHHHhcC----CCCCCccccccCC
Q 019980          281 FSCVICRLDYEDGETLTVL--SCKH-SYHSECINNWLKIN----KVCPVCSAEVSTS  330 (333)
Q Consensus       281 ~~C~ICLe~f~~gd~l~~L--PCgH-~FH~~CI~~WL~~k----ksCPvCR~~V~~s  330 (333)
                      .-| ||..... +..+...  .|.+ -||..||.  |...    -.||.|+..-.+.
T Consensus        17 ~~C-iC~~~~~-~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~~gp~   69 (71)
T d1wesa_          17 TYC-LCNQVSY-GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGDSGPS   69 (71)
T ss_dssp             CCS-TTCCCCC-SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSCCSCS
T ss_pred             CEE-EeCCCCC-CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccccCcC
Confidence            336 9987643 3333332  2444 59999984  4332    3799998765443

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.95  E-value=0.81  Score=32.80  Aligned_cols=46  Identities=22%  Similarity=0.466  Sum_probs=30.8

Q ss_pred             ccccccccCCCCeeEEe-CCCCcccHHHHH--HHH-h--cCCCCCCcccccc
Q 019980          283 CVICRLDYEDGETLTVL-SCKHSYHSECIN--NWL-K--INKVCPVCSAEVS  328 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~--~WL-~--~kksCPvCR~~V~  328 (333)
                      |.||...+......+.. .|.--||..|+.  ... .  .+-.||.|+....
T Consensus        14 ~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~g   65 (79)
T d1wepa_          14 YCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             EeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcC
Confidence            44999877655433334 499999999984  222 1  2358999987554

>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=84.81  E-value=0.053  Score=37.59  Aligned_cols=44  Identities=34%  Similarity=0.696  Sum_probs=29.8

Q ss_pred             cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCcccccc
Q 019980          282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVCSAEVS  328 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvCR~~V~  328 (333)
                      .|.||..   .+..+.-=.|.-.||..||...+...    -.||.|+....
T Consensus        11 ~C~~C~~---~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_          11 FCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCcCCCC---CCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            3999974   34333223499999999998766432    37999976543

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {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 At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=80.54  E-value=0.091  Score=37.33  Aligned_cols=49  Identities=24%  Similarity=0.435  Sum_probs=32.7

Q ss_pred             cccccccccCCCCeeEEe-CCCCcccHHHHHHHHh----cCCCCCCccccccCCC
Q 019980          282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWLK----INKVCPVCSAEVSTSG  331 (333)
Q Consensus       282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~----~kksCPvCR~~V~~s~  331 (333)
                      .| ||......+..++.. .|..-||..|+..-..    ..-.||.|+..-.+++
T Consensus        18 ~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~~~p~s   71 (72)
T d1weea_          18 DC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELSGPSS   71 (72)
T ss_dssp             CC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHHCSSCC
T ss_pred             Ee-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCcCCcCC
Confidence            37 788776666544444 4999999999854221    2357999988765543

>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=80.45  E-value=0.046  Score=37.08  Aligned_cols=45  Identities=16%  Similarity=0.442  Sum_probs=31.0

Q ss_pred             ccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980          283 CVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV  327 (333)
Q Consensus       283 C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V  327 (333)
                      |.+|...|..-..-..- -||.+|+..|.....+..+.|..|.+..
T Consensus         3 C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~~r   48 (51)
T d1y02a2           3 CKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQRFR   48 (51)
T ss_dssp             CTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHHHH
T ss_pred             ccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhhHh
Confidence            99999999755432333 4999999999877666667898886544