Citrus Sinensis ID: 039031

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450--
Protein Sequence
MGLGSNDDDDLVVDDGDGDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGHGARAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPSSLRRRHGSERT
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccEEcEEEccccccEEEEEcccEEEEEccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccEEEEcccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEccccccccccccccccccccccEEEcccEccccccEEEEEEccccHcHHHHHHHHHcccccccccccEcccccEEEccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccc
Coil and Loop (DISEMBL)
mglgsnddddlvvddgdgdvgdcdsrgksfrtVSCSICLELvtdngdrswaklqcghqfhldcigsafnskgamqcpncrkiekgqwlysngcrsfpefsmddwthdedlydlsysemsfgvhwcpfgsltrlpssfEEEISSLQKTEVrigktesplnqnvknggmgyhdlLGQHAifaehtavssathpcpyiayfgpihpsssntggsvsdnsnfnnpwngpsihsemptsytfpamdlhyhswdqhsssfptssnriassdqtsiphvtqrssrtssdvprsgsimhpflighgaragssvassmippylgsntrARDRVQALQAYYQqqqpgnspamraplipsarrpgshrvisqvgpvasssdqnggfyffppgtsgrnfqeaenppssrfhtwerdhlppfshsqvdrdsssswgafhlhqvasgsdpglrpsslrrrhgsert
Flexible Loop (DISEMBL)
mglgsnddddlvvddgdgdvgdcdsrgksfrtvsCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEEEISSLQKtevrigktesplnqnvkNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRiassdqtsiphvtqrssrtssdvprsGSIMHPFLIGHGARAGSSVASSMIPPYLGSNTRARDRVQALQAYYqqqqpgnspaMRAPLIPSARRPGSHRVISQVgpvasssdqnGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHqvasgsdpglrpsslrrrhgsert
Low Complexity Region (SEG)
MGLGSNddddlvvddgdgdvgdcdSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGHGARAGSSVASSMIPPYLGSNTRARDRVqalqayyqqqqPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFshsqvdrdssssWGAFHLHQVASGSDPGLRPSSLRRRHGSERT
Disordered region (IsUnstruct)
***************************KSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRL******************************NGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPI**********************************TFPAMDLHYH***********************************************FLIG******************************************************************************FYFF**************************************************************************
Disordered Region (DISOPRED)
******************************RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPS*******************************MGYHDLLG*******************YIA************************************************************************************************************************************************************************************************************WERDHLPPFSHSQV**************************************
Disordered Region (DISEMBL)
********DDLVVDDGDGDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWD*************************************SGSIMHPFLIGHGARAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSGRN**********RFHTWERDHLPPF**********SSWGAFHLHQVASGSDPGLRPS***********
Disordered Region (DISPRO)
*******************************TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHP*********************PSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPT*********QTSI*****************GSIMHP*L*****RAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGN*P****P*I*****PGSHRVISQVGPVASSSDQNGGFYFFPPGT********ENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGA****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGLGSNDDDDLVVDDGDGDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGHGARAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPSSLRRRHGSERT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

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	452
147855943	439	hypothetical protein VITISV_040485 [Viti	0.946	0.974	0.722	1e-165
225450795	423	PREDICTED: uncharacterized protein LOC10	0.911	0.973	0.715	1e-164
356576801	439	PREDICTED: uncharacterized protein LOC10	0.891	0.917	0.671	1e-161
356535061	431	PREDICTED: uncharacterized protein LOC10	0.873	0.916	0.676	1e-158
224123624	431	predicted protein [Populus trichocarpa]	0.929	0.974	0.706	1e-154
356572976	417	PREDICTED: uncharacterized protein LOC10	0.873	0.947	0.665	1e-154
357441747	428	hypothetical protein MTR_1g083390 [Medic	0.887	0.936	0.647	1e-154
255542750	430	DNA binding protein, putative [Ricinus c	0.871	0.916	0.724	1e-152
356505819	417	PREDICTED: uncharacterized protein LOC10	0.873	0.947	0.660	1e-151
224125150	403	predicted protein [Populus trichocarpa]	0.838	0.940	0.693	1e-148

>gi|147855943|emb|CAN80748.1| hypothetical protein VITISV_040485 [Vitis vinifera]

 Score =  587 bits (1513), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 330/457 (72%), Positives = 365/457 (79%), Gaps = 29/457 (6%)

Query: 1   MGLGSNDDDDLVVDDGDGDVGDCDSRGKSFR--TVSCSICLELVTDNGDRSWAKLQCGHQ 58
           MGL   D    + DDGDG+       GK+F   +VSCSICLE+VTDNGDR+WAKLQCGHQ
Sbjct: 1   MGLDGAD----LSDDGDGE-------GKAFAASSVSCSICLEIVTDNGDRAWAKLQCGHQ 49

Query: 59  FHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEM 118
           FHLDCIGSAFN KGAMQCPNCRKIEKGQWLY+NGCR+FPEF+MDD THDEDLYD SYSEM
Sbjct: 50  FHLDCIGSAFNIKGAMQCPNCRKIEKGQWLYANGCRTFPEFNMDDLTHDEDLYD-SYSEM 108

Query: 119 SFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGY-HDLLGQHA 177
           SFGVHWCPF  LTRLPSSFE         + R G T     + V+  G G  +DLLGQHA
Sbjct: 109 SFGVHWCPFSGLTRLPSSFE-------TLDNRDGSTGHIDKKYVEGSGHGDDNDLLGQHA 161

Query: 178 IFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTF 237
           IFAEHTAVSSATHPCPYIAYFGPIHPSSSN+ GSVSD SNFNN WNGPS+ SE+PTSY F
Sbjct: 162 IFAEHTAVSSATHPCPYIAYFGPIHPSSSNSSGSVSDGSNFNNHWNGPSVPSEIPTSYAF 221

Query: 238 PAMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH 297
           P MD HYHSW+ HS  F T+S+RI + DQ SIP VTQR +R +SD+PRSGS MHPFL+GH
Sbjct: 222 PTMDFHYHSWEHHSPPFSTNSSRIGA-DQPSIPPVTQRPARANSDIPRSGSFMHPFLVGH 280

Query: 298 --GARAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGS 355
             GARAGSSVASSMIPPY GSN RARDRVQALQAYYQQQQP NSPAMR P+I   RR GS
Sbjct: 281 SSGARAGSSVASSMIPPYPGSNARARDRVQALQAYYQQQQPSNSPAMRTPMISGTRRSGS 340

Query: 356 HRVISQVGPVASSSDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVD 415
           HR ++QVGPVASSSDQ+ GFYFFP GTSGRNFQEAENP  +RFH WER+HLP F  +QV+
Sbjct: 341 HRGLAQVGPVASSSDQSSGFYFFPSGTSGRNFQEAENPLPTRFHGWEREHLPSFPLTQVE 400

Query: 416 RDSSSSWGAFHLHQVASGSDPGLRPSSLRRRHGSERT 452
           RD  S WGAF  HQ  SGSD G+RPSS R+RHGS+RT
Sbjct: 401 RD--SGWGAF--HQAGSGSDSGIRPSSFRQRHGSDRT 433

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450795|ref|XP_002279542.1| PREDICTED: uncharacterized protein LOC100251003 [Vitis vinifera]

 Score =  583 bits (1502), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 327/457 (71%), Positives = 361/457 (78%), Gaps = 45/457 (9%)

Query: 1   MGLGSNDDDDLVVDDGDGDVGDCDSRGKSFR--TVSCSICLELVTDNGDRSWAKLQCGHQ 58
           MGL   D    + DDGDG+       GK+F   +VSCSICLE+VTDNGDR+WAKLQCGHQ
Sbjct: 1   MGLDGAD----LSDDGDGE-------GKAFAASSVSCSICLEIVTDNGDRAWAKLQCGHQ 49

Query: 59  FHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEM 118
           FHLDCIGSAFN KGAMQCPNCRKIEKGQWLY+NGCR+FPEF+MDD THDEDLYD SYSEM
Sbjct: 50  FHLDCIGSAFNIKGAMQCPNCRKIEKGQWLYANGCRTFPEFNMDDLTHDEDLYD-SYSEM 108

Query: 119 SFGVHWCPFGSLTRLPSSFEE-EISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHA 177
           SFGVHWCPF  LTRLPSSF+E + SS                         Y+DLLGQHA
Sbjct: 109 SFGVHWCPFSGLTRLPSSFDEGDFSSTS-----------------------YNDLLGQHA 145

Query: 178 IFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTF 237
           IFAEHTAVSSATHPCPYIAYFGPIHPSSSN+ GSVSD SNFNN WNGPS+ SE+PTSY F
Sbjct: 146 IFAEHTAVSSATHPCPYIAYFGPIHPSSSNSSGSVSDGSNFNNHWNGPSVPSEIPTSYAF 205

Query: 238 PAMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH 297
           P MD HYHSW+ HS  F T+S+RI + DQ SIP VTQR +R +SD+PRSGS MHPFL+GH
Sbjct: 206 PTMDFHYHSWEHHSPPFSTNSSRIGA-DQPSIPPVTQRPARANSDIPRSGSFMHPFLVGH 264

Query: 298 --GARAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGS 355
             GARAGSSVASSMIPPY GSN RARDRVQALQAYYQQQQP NSPAMR P+I   RR GS
Sbjct: 265 SSGARAGSSVASSMIPPYPGSNARARDRVQALQAYYQQQQPSNSPAMRTPMISGTRRSGS 324

Query: 356 HRVISQVGPVASSSDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVD 415
           HR ++QVGPVASSSDQ+ GFYFFP GTSGRNFQEAENP  +RFH WER+HLP F  +QV+
Sbjct: 325 HRGLAQVGPVASSSDQSSGFYFFPSGTSGRNFQEAENPLPTRFHGWEREHLPSFPLTQVE 384

Query: 416 RDSSSSWGAFHLHQVASGSDPGLRPSSLRRRHGSERT 452
           RD  S WGAF  HQ  SGSD G+RPSS R+RHGS+RT
Sbjct: 385 RD--SGWGAF--HQAGSGSDSGIRPSSFRQRHGSDRT 417

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576801|ref|XP_003556518.1| PREDICTED: uncharacterized protein LOC100789014 [Glycine max]

 Score =  573 bits (1478), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 294/438 (67%), Positives = 331/438 (75%), Gaps = 35/438 (7%)

Query: 18  GDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCP 77
           GD G     GKSF +VSCSICLE+V DNGDRSW+KLQCGHQFHLDCIGSAFN KGAMQCP
Sbjct: 29  GDAGG----GKSFGSVSCSICLEVVADNGDRSWSKLQCGHQFHLDCIGSAFNIKGAMQCP 84

Query: 78  NCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSF 137
           NCRKIEKGQWLY+NGCRS+PEFSMD+WTHDEDLYDLSYSEMSFGVHWCPFG+L RLPSSF
Sbjct: 85  NCRKIEKGQWLYANGCRSYPEFSMDEWTHDEDLYDLSYSEMSFGVHWCPFGNLARLPSSF 144

Query: 138 EE-EISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIA 196
           EE E SS                         YHD+LGQHAIFAEHTAVSSA+HPCPYIA
Sbjct: 145 EEGEFSS-----------------------SAYHDVLGQHAIFAEHTAVSSASHPCPYIA 181

Query: 197 YFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPT 256
           YFGPIHPSSSN+GG+VS+ SNFN+ WNG S+ S+MPTSYTFPA+DLHYHSW+ HS  F T
Sbjct: 182 YFGPIHPSSSNSGGTVSEASNFNH-WNGSSVPSDMPTSYTFPAVDLHYHSWEHHSPPFST 240

Query: 257 SSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH--GARAGSSVASSMIPPYL 314
           +S+R+ ++DQ S+   +QR +R  SDVPRSGS MHPFL+GH   AR GSSVASSMIPPY 
Sbjct: 241 ASSRLVAADQPSVSPGSQRPARGGSDVPRSGSFMHPFLVGHSSAARVGSSVASSMIPPYP 300

Query: 315 GSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGG 374
           GSN R RDRVQALQAYYQ QQP NS  MR P+    RR  SH    Q+ P+ +SSDQ+GG
Sbjct: 301 GSNARTRDRVQALQAYYQPQQPPNSTTMRTPIASGTRRSSSHNGSPQLAPITTSSDQSGG 360

Query: 375 FYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGS 434
           F+  P  +SG NFQE  +   + FH WERDHLP  S S VDRD  S W A+  HQ  S S
Sbjct: 361 FFLIPSSSSGHNFQEENHHLPNHFHAWERDHLPSLSLSHVDRD--SGWRAY--HQATSRS 416

Query: 435 DPGLRPSSLRRRHGSERT 452
           DPG R SS R RHGS+RT
Sbjct: 417 DPGTRSSSFRLRHGSDRT 434

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356535061|ref|XP_003536067.1| PREDICTED: uncharacterized protein LOC100798107 [Glycine max]

 Score =  566 bits (1458), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 288/426 (67%), Positives = 326/426 (76%), Gaps = 31/426 (7%)

Query: 29  SFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWL 88
           SF +VSCSICLE+V DNGDRSW+KLQCGHQFHLDCIGSAFN KGAMQCPNCRKIEKGQWL
Sbjct: 28  SFGSVSCSICLEVVADNGDRSWSKLQCGHQFHLDCIGSAFNIKGAMQCPNCRKIEKGQWL 87

Query: 89  YSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEE-EISSLQKT 147
           Y+NGCRS+PEFSMD+WTHDEDLYDLSYSEMSFGVHWCPFG+L RLPSSFEE E SS    
Sbjct: 88  YANGCRSYPEFSMDEWTHDEDLYDLSYSEMSFGVHWCPFGNLARLPSSFEEGEFSS---- 143

Query: 148 EVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSSN 207
                                YHD+LGQHAIFAEHTAVSSA+HPCPYIAYFGPIHPSSSN
Sbjct: 144 -------------------SAYHDVLGQHAIFAEHTAVSSASHPCPYIAYFGPIHPSSSN 184

Query: 208 TGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSDQT 267
           +GG+VS+ SNFN+ WNG S+ S+MPTSYTFPA+DLHY SW+ HS  F T+S+R+ ++DQ 
Sbjct: 185 SGGTVSEASNFNH-WNGSSVPSDMPTSYTFPAVDLHYRSWEHHSPPFSTASSRLVAADQP 243

Query: 268 SIPHVTQRSSRTSSDVPRSGSIMHPFLIGH--GARAGSSVASSMIPPYLGSNTRARDRVQ 325
           S+   +QR +R  SDVPRSGS MHPFL+GH   ARAGSSVASSMIPPY GSN RARDRVQ
Sbjct: 244 SVSPGSQRPARGGSDVPRSGSFMHPFLVGHSSAARAGSSVASSMIPPYPGSNARARDRVQ 303

Query: 326 ALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSGR 385
           ALQAYYQ QQP NS  MR P+    RR  SH   +Q+ P+A+S DQ GGF+  P  +SGR
Sbjct: 304 ALQAYYQPQQPPNSTTMRTPIASGTRRSSSHNGPAQLAPMATSPDQGGGFFLIPSSSSGR 363

Query: 386 NFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPSSLRR 445
           NFQE  +   + FH WERDHLP  S + VDRD  S W A+  HQ  S SDP  R SS R 
Sbjct: 364 NFQEENHHLPNHFHAWERDHLPSLSLNHVDRD--SGWRAY--HQATSRSDPATRSSSFRL 419

Query: 446 RHGSER 451
           RHGS+R
Sbjct: 420 RHGSDR 425

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123624|ref|XP_002330167.1| predicted protein [Populus trichocarpa] gi|222871623|gb|EEF08754.1| predicted protein [Populus trichocarpa]

 Score =  553 bits (1424), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 322/456 (70%), Positives = 353/456 (77%), Gaps = 36/456 (7%)

Query: 1   MGLGSNDDDDLVVDDGDGDVGDCDSRGKSFR-TVSCSICLELVTDNGDRSWAKLQCGHQF 59
           MGLG N  +D++VDDG G  G     GKSF  +VSCSICLE+VTDNGDRSWAKLQCGHQF
Sbjct: 1   MGLG-NSGNDVIVDDGGGGGGG-GLNGKSFGGSVSCSICLEVVTDNGDRSWAKLQCGHQF 58

Query: 60  HLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMS 119
           HLDCIGSAFN KGAMQCPNCRKIEKGQWLY+NGCRS PEF+MDDW HDEDLYDLSYSEMS
Sbjct: 59  HLDCIGSAFNVKGAMQCPNCRKIEKGQWLYANGCRSLPEFTMDDWAHDEDLYDLSYSEMS 118

Query: 120 FGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIF 179
           FGVHWCPFGSL RLPSSFEE               E P N         YHDLLG HAIF
Sbjct: 119 FGVHWCPFGSLARLPSSFEE--------------GEFPSN--------AYHDLLG-HAIF 155

Query: 180 AEHT-AVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFP 238
           AEHT AVSSATH CPYIAYFGPIHPSSSN   SVSD S+FNN WNGPS+ SE+P+SY FP
Sbjct: 156 AEHTAAVSSATHQCPYIAYFGPIHPSSSNASVSVSDGSSFNNHWNGPSVPSEIPSSYAFP 215

Query: 239 AMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDV-PRSGSIMHPFLIGH 297
           AMD+HYHSW+ HS  F T+ NRI ++DQ S+P VTQRS+RTSSD+ PRSGS+MHPFL+GH
Sbjct: 216 AMDIHYHSWEHHSPPFSTTGNRIGNADQPSVPPVTQRSARTSSDLPPRSGSLMHPFLVGH 275

Query: 298 --GARAGSSVASSMIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGS 355
              ARAGSSVASSMIPPY GSN RARDRVQALQAYYQQQQPGNSP +  P++  +RR  S
Sbjct: 276 SSSARAGSSVASSMIPPYQGSNARARDRVQALQAYYQQQQPGNSPPIHTPVVSGSRRSSS 335

Query: 356 HRVISQVGPVASSSDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVD 415
           HR + QVG VAS+SDQ  GFYF P G S RNFQEAENPP +RF +WE  HLPPFS SQVD
Sbjct: 336 HRGLPQVGTVASTSDQT-GFYFIPSGASSRNFQEAENPPPTRFRSWE-SHLPPFSVSQVD 393

Query: 416 RDSSSSWGAFHLHQVASGSDPGLRPSSLRRRHGSER 451
           RDS    G    HQ   GSDP +R  S R+RHGSER
Sbjct: 394 RDS----GRSTFHQAGGGSDPSIRSGSFRQRHGSER 425

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572976|ref|XP_003554641.1| PREDICTED: uncharacterized protein LOC100815923 [Glycine max]

 Score =  551 bits (1421), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 284/427 (66%), Positives = 331/427 (77%), Gaps = 32/427 (7%)

Query: 28  KSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQW 87
           KSF +V CSICLE VTDNGDRSWAKLQCGHQFHLDCIGSAFN KGAMQCPNCRK+EKGQW
Sbjct: 14  KSFGSVCCSICLEAVTDNGDRSWAKLQCGHQFHLDCIGSAFNIKGAMQCPNCRKVEKGQW 73

Query: 88  LYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEE-EISSLQK 146
           LY+NGCRS+PEFSMD+WTHDEDLYDLSYSEMSFGVHWCPFG+LTRLPSSFEE + SS   
Sbjct: 74  LYANGCRSYPEFSMDEWTHDEDLYDLSYSEMSFGVHWCPFGNLTRLPSSFEEGDFSS--- 130

Query: 147 TEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSS 206
                                 YHD+LGQHAIFAEHTAVSSA+HPCPYIAYFGPIHPS+S
Sbjct: 131 --------------------TAYHDVLGQHAIFAEHTAVSSASHPCPYIAYFGPIHPSTS 170

Query: 207 NTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSDQ 266
           N+GG+VS+ SNFN+ WNGP +  +MPTSYTFPA+DLHYHSW+ +SS F ++++R+ +++Q
Sbjct: 171 NSGGTVSEASNFNH-WNGPPVPGDMPTSYTFPAVDLHYHSWEHNSSHFSSANSRLGTAEQ 229

Query: 267 TSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH--GARAGSSVASSMIPPYLGSNTRARDRV 324
            S+   +QR +R  S+VPRSGS MHPFL+GH   ARAG+SVASSMIPPY GSN RARDRV
Sbjct: 230 ASVSPGSQRPARVGSEVPRSGSFMHPFLVGHSSAARAGNSVASSMIPPYPGSNARARDRV 289

Query: 325 QALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSG 384
           QALQAYYQ QQP NS  +R P+  S RR  SH    Q+ PVAS  DQ+ GF + P G+SG
Sbjct: 290 QALQAYYQPQQPHNSTTIRTPVASSTRRSSSHSGPVQLAPVASPPDQSAGFVYIPSGSSG 349

Query: 385 RNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPSSLR 444
           RNFQE  + P SRFH WER+HLP  + + V R+  SSW A+  HQ AS SDP +R SS R
Sbjct: 350 RNFQEETHLP-SRFHAWEREHLPSLALNNVGRE--SSWRAY--HQTASVSDPSIRSSSFR 404

Query: 445 RRHGSER 451
            RH S+R
Sbjct: 405 LRHESDR 411

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357441747|ref|XP_003591151.1| hypothetical protein MTR_1g083390 [Medicago truncatula] gi|355480199|gb|AES61402.1| hypothetical protein MTR_1g083390 [Medicago truncatula]

 Score =  550 bits (1416), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 287/443 (64%), Positives = 329/443 (74%), Gaps = 42/443 (9%)

Query: 12  VVDDGDGDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK 71
           VVD+G+          KS  +VSCSICLE+VTDNGDRS+AKL CGHQFHLDCIGSAFN K
Sbjct: 19  VVDEGN----------KSLGSVSCSICLEVVTDNGDRSFAKLLCGHQFHLDCIGSAFNIK 68

Query: 72  GAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLT 131
           GAMQCPNCRKIEKGQWLY+NG RS+PEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFG++ 
Sbjct: 69  GAMQCPNCRKIEKGQWLYANGSRSYPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGNMA 128

Query: 132 RLPSSFEE-EISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATH 190
           RLPSSFEE E SS+                        Y D++GQHA FAEHTAVSSA+H
Sbjct: 129 RLPSSFEEGEFSSI-----------------------AYPDIIGQHAAFAEHTAVSSASH 165

Query: 191 PCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQH 250
           PCPY+AYFGPIHPSSSN+GG+VS+  NFN+ WNG S+ SEMP SYTFPA+DLHYHSW+ H
Sbjct: 166 PCPYVAYFGPIHPSSSNSGGAVSEAPNFNH-WNGSSVPSEMPASYTFPAVDLHYHSWEHH 224

Query: 251 SSSFPTSSNRIASSDQTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH--GARAGSSVASS 308
           +  F T+S+R+  +DQ S+   +QR  R  SDVPRSGS MHPFL+GH   ARAGSS+ SS
Sbjct: 225 TPPFSTASSRLVGADQPSVSPASQRPVRGGSDVPRSGSFMHPFLVGHSSAARAGSSMGSS 284

Query: 309 MIPPYLGSNTRARDRVQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASS 368
           MIPPY GSN RARDRVQALQAYYQ QQ  NS  MRAP+    RR  SH   +Q+ PVA+S
Sbjct: 285 MIPPYPGSNARARDRVQALQAYYQPQQHPNSTTMRAPVSSVPRRASSHSGSTQLAPVATS 344

Query: 369 SDQNGGFYFFPPGTSGRNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLH 428
            DQ+GGF+  P  +SGRNFQE EN   SRFH WERDHLP  S SQ DRD  S W  +  H
Sbjct: 345 PDQSGGFFLIPSSSSGRNFQE-ENHLPSRFHAWERDHLPSLSLSQGDRD--SGWRPY--H 399

Query: 429 QVASGSDPGLRPSSLRRRHGSER 451
           Q A+ SDP  R ++ R RHGS+R
Sbjct: 400 QSANRSDPSTRSNNFRLRHGSDR 422

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542750|ref|XP_002512438.1| DNA binding protein, putative [Ricinus communis] gi|223548399|gb|EEF49890.1| DNA binding protein, putative [Ricinus communis]

 Score =  545 bits (1403), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 310/428 (72%), Positives = 342/428 (79%), Gaps = 34/428 (7%)

Query: 28  KSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQW 87
           KSF +VSCSICL++VTDNGDRSWAKLQCGHQFHLDCIGSAFN KGAMQCPNCRKIEKGQW
Sbjct: 26  KSFGSVSCSICLDVVTDNGDRSWAKLQCGHQFHLDCIGSAFNIKGAMQCPNCRKIEKGQW 85

Query: 88  LYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEE-EISSLQK 146
           LY+NGCRS PEFSMDDW HDEDLYDLSYSEMSFGVHWCPFGSL RLPSSFEE E SS   
Sbjct: 86  LYANGCRSLPEFSMDDWAHDEDLYDLSYSEMSFGVHWCPFGSLARLPSSFEEGEFSS--- 142

Query: 147 TEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHT-AVSSATHPCPYIAYFGPIHPSS 205
                                 YHDLLG HAIFAEHT AVSSATHPCPYIAYFGP+HPSS
Sbjct: 143 --------------------NAYHDLLGHHAIFAEHTAAVSSATHPCPYIAYFGPVHPSS 182

Query: 206 SNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSD 265
           SN+ GSVSD SNFNN W+GPS+  E+P+SY FPA+DLHYH W+ HS  F TSS+RI S+D
Sbjct: 183 SNSSGSVSDGSNFNNHWSGPSVPGELPSSYAFPAIDLHYHGWEHHSPPFSTSSSRIGSTD 242

Query: 266 QTSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH--GARAGSSVASSMIPPYLGSNTRARDR 323
           Q SI  V+QR +R+SSD+ RSGS MHPFL+GH   ARAGSSV+S+MIPPY GSN RARDR
Sbjct: 243 QPSIQPVSQRPARSSSDLSRSGSFMHPFLVGHSSSARAGSSVSSTMIPPYQGSNARARDR 302

Query: 324 VQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTS 383
           VQALQA Y QQQPG+SPA+ AP+I   RR  ++R +SQVGPVASSSDQ  GFYF PPGTS
Sbjct: 303 VQALQA-YYQQQPGSSPAIHAPIISGTRRSSNYRGLSQVGPVASSSDQT-GFYFVPPGTS 360

Query: 384 GRNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPSSL 443
           GRNFQEA+N P  RF  WERDHL PFS SQVDR+SS     +  HQ ASGSDPGLR SS 
Sbjct: 361 GRNFQEADNSPPIRFRAWERDHLQPFSLSQVDRESS-----WLFHQTASGSDPGLRSSSF 415

Query: 444 RRRHGSER 451
           R+RHG+ER
Sbjct: 416 RQRHGTER 423

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505819|ref|XP_003521687.1| PREDICTED: uncharacterized protein LOC100807331 [Glycine max]

 Score =  539 bits (1389), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 282/427 (66%), Positives = 328/427 (76%), Gaps = 32/427 (7%)

Query: 28  KSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQW 87
           KSF +V CSICLE VTDNGDRSWAKLQCGHQFHLDCIGSAFN KGAMQCPNCRKIEKGQW
Sbjct: 14  KSFGSVPCSICLEAVTDNGDRSWAKLQCGHQFHLDCIGSAFNIKGAMQCPNCRKIEKGQW 73

Query: 88  LYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEE-EISSLQK 146
           LY+NGCRS+PEFSMD+WTHDEDLYD+SYSEMSFGVHWCPFG+LTRLPSSFEE + SS+  
Sbjct: 74  LYANGCRSYPEFSMDEWTHDEDLYDVSYSEMSFGVHWCPFGNLTRLPSSFEEGDFSSI-- 131

Query: 147 TEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHTAVSSATHPCPYIAYFGPIHPSSS 206
                                 YHD+LGQ AIFAEHTAVSSA+HPCPYIAYFGPIHPS+S
Sbjct: 132 ---------------------AYHDMLGQQAIFAEHTAVSSASHPCPYIAYFGPIHPSTS 170

Query: 207 NTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIASSDQ 266
           N+G +VS+ SNFN+ WNGP +  +MPTSYTFPA+DLHYHSW+ +SS F ++++R+ +S+Q
Sbjct: 171 NSGLTVSEASNFNH-WNGPPVPGDMPTSYTFPAVDLHYHSWEHNSSHFSSANSRLGTSEQ 229

Query: 267 TSIPHVTQRSSRTSSDVPRSGSIMHPFLIGH--GARAGSSVASSMIPPYLGSNTRARDRV 324
           TS+   +QR +R  SDVPRSGS MHPFL+GH   ARAG+SVASSMIPPY GSN RARDRV
Sbjct: 230 TSVSPGSQRPARGGSDVPRSGSFMHPFLVGHSSAARAGNSVASSMIPPYPGSNARARDRV 289

Query: 325 QALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGTSG 384
           QALQAYYQ Q P NS  +R P+  S RR  SH    Q+ PVASS D++ GF + P G+SG
Sbjct: 290 QALQAYYQPQLPHNSATIRTPVASSTRRSSSHSGSVQLAPVASSPDRSAGFVYIPSGSSG 349

Query: 385 RNFQEAENPPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPSSLR 444
            NFQE  + P SRFH  ER+HLP    + V R+  SSW A+  HQ AS SDP +R SS R
Sbjct: 350 HNFQEETHLP-SRFHAREREHLPSLPLNHVGRE--SSWRAY--HQTASVSDPSIRSSSFR 404

Query: 445 RRHGSER 451
            RH S+R
Sbjct: 405 LRHESDR 411

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125150|ref|XP_002319512.1| predicted protein [Populus trichocarpa] gi|222857888|gb|EEE95435.1| predicted protein [Populus trichocarpa]

 Score =  532 bits (1371), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 298/430 (69%), Positives = 327/430 (76%), Gaps = 51/430 (11%)

Query: 27  GKSFR-TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG 85
           GKSF  +VSCSICLE+V DNGDRSWAKLQCGHQFHLDCIGSAFN KGAMQCPNCRKIEKG
Sbjct: 14  GKSFGGSVSCSICLEVVADNGDRSWAKLQCGHQFHLDCIGSAFNVKGAMQCPNCRKIEKG 73

Query: 86  QWLYSNGCRSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEE-EISSL 144
           QWLY+NGCRS PEFSMDDW HDEDLYDLSYSEMSFGVHWCPFGSL RLPSSFEE E SS 
Sbjct: 74  QWLYANGCRSLPEFSMDDWAHDEDLYDLSYSEMSFGVHWCPFGSLARLPSSFEEGEFSS- 132

Query: 145 QKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHAIFAEHT-AVSSATHPCPYIAYFGPIHP 203
                                   YHDLLGQH IF EHT AVSSATHPCPYIAYFGPIHP
Sbjct: 133 ----------------------NAYHDLLGQHPIFGEHTAAVSSATHPCPYIAYFGPIHP 170

Query: 204 SSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTFPAMDLHYHSWDQHSSSFPTSSNRIAS 263
           SSSN+ GSVSD S+FN+ WNGPS+ SE+P+SY FPAMD+HYHSW+ HS  F T+ NRI +
Sbjct: 171 SSSNSSGSVSDVSSFNSHWNGPSVPSEIPSSYAFPAMDVHYHSWEHHSPPFSTTGNRIGN 230

Query: 264 SDQTSIPHVTQRSSRTSSDV-PRSGSIMHPFLIGHGARAGSSVASSMIPPYLGSNTRARD 322
           +DQ S+P VTQRS+RTSSD+ PRSGS +HPFL+GHG                GSN RARD
Sbjct: 231 ADQPSVPPVTQRSARTSSDLPPRSGSFIHPFLVGHG---------------YGSNARARD 275

Query: 323 RVQALQAYYQQQQPGNSPAMRAPLIPSARRPGSHRVISQVGPVASSSDQNGGFYFFPPGT 382
           RVQALQAYYQQ QPGNSP +R P++  +RR  SHR +SQVG VASSSDQ  GFYF P G 
Sbjct: 276 RVQALQAYYQQLQPGNSPPIRTPVVSGSRRSSSHRGMSQVGAVASSSDQT-GFYFIPSGA 334

Query: 383 SGRNFQEAEN-PPSSRFHTWERDHLPPFSHSQVDRDSSSSWGAFHLHQVASGSDPGLRPS 441
           SGRNFQEAEN PP +RF +WERDHLP FS +QVDRD  S W  F  HQ   G DPG+R  
Sbjct: 335 SGRNFQEAENPPPPTRFRSWERDHLPSFSLNQVDRD--SGWSTF--HQAGGGPDPGIR-- 388

Query: 442 SLRRRHGSER 451
             R+RHGSER
Sbjct: 389 -FRQRHGSER 397

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	452
TAIR|locus:1005716577	425	AT3G05545 "AT3G05545" [Arabido	0.794	0.844	0.406	6.2e-62
TAIR|locus:2043438	358	RFI2 "RED AND FAR-RED INSENSIT	0.236	0.298	0.75	4.5e-58
TAIR|locus:2049083	362	AT2G15260 [Arabidopsis thalian	0.221	0.276	0.461	4.4e-16
TAIR|locus:2140857	226	AT4G13490 [Arabidopsis thalian	0.148	0.296	0.5	2.5e-15
UNIPROTKB|E7EVC4	99	TRAIP "TRAF-interacting protei	0.108	0.494	0.384	0.00032
TAIR|locus:2195871	132	AT1G51930 [Arabidopsis thalian	0.103	0.356	0.446	0.00042

TAIR|locus:1005716577 AT3G05545 "AT3G05545" [Arabidopsis thaliana (taxid:3702)]

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 159/391 (40%), Positives = 201/391 (51%)

Query:     1 MGLGS--NXXXXXXXXXXXXXXXXXXSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQ 58
             MGLG+  N                    G  F +V+CSICLE V  NGDR+WA LQC HQ
Sbjct:     1 MGLGNKGNKFNFGDNDLADEASGADGDEGDGFGSVACSICLETVVKNGDRAWANLQCDHQ 60

Query:    59 FHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGCRSFPEFSMDDWTHDEDLYDL-SYSE 117
             FHLDCIGSAFN+KG MQCPNCRK+EKGQWLY+NGCRS+PEF+++DW H+ED+YD+ +YSE
Sbjct:    61 FHLDCIGSAFNAKGVMQCPNCRKVEKGQWLYANGCRSYPEFNVEDWVHEEDIYDIGAYSE 120

Query:   118 MSFGVHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGMGYHDLLGQHA 177
             MSFGVHWCPFGS  RLPS  + E S     ++ +G+            G   H       
Sbjct:   121 MSFGVHWCPFGSSARLPSFEDGEFSPSSYHDL-LGQQGYYTEPAAPTAG---HPC-PYVT 175

Query:   178 IFAEHTAVSSATHPCPYIAYFGPIHPSSSNTGGSVSDNSNFNNPWNGPSIHSEMPTSYTF 237
              F    + SS++     ++       S  NTG SVS       P+         P    +
Sbjct:   176 YFGPVHSPSSSSGGAAGVSDSSSFS-SHWNTGSSVS--GEVPTPYG-------FPVDPHY 225

Query:   238 PAMDLHYHSWDQHSSSFPTSSNRIASSDQTSIPHVTQRSSRTS-SDV--PRSGSIMHPFL 294
                D H          F  S   + S  Q + P    R+SR + SD+  PR      PF 
Sbjct:   226 HGWDYHPPP-PPPPQHFSASGAHVGSPTQPTPPPAAARTSRANGSDMIRPRPPHFTRPFH 284

Query:   295 IGHGA--RAGSSVAS-SMIPPYLGSNTRARDRVXXXXX----XXXXXXPGNSPAM-RAPL 346
              GH +  RAGSSVAS    PP+ GSN R RDR+                 +SP + R P+
Sbjct:   285 -GHSSSGRAGSSVASVPRTPPFPGSNARTRDRMQALQAYYQQSSAQSHQPDSPIVSRGPV 343

Query:   347 IPSARRPGSHRVISQVGPVASSSDQNGGFYF 377
              PS RRP +  + S +G  +SSSDQ GG  F
Sbjct:   344 FPSGRRP-ARGIASGMGSTSSSSDQAGGSGF 373

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

TAIR|locus:2043438 RFI2 "RED AND FAR-RED INSENSITIVE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 457 (165.9 bits), Expect = 4.5e-58, Sum P(3) = 4.5e-58
 Identities = 81/108 (75%), Positives = 90/108 (83%)

Query:    33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNG 92
             VSCSICLE V D+G RS AKLQCGHQFHLDCIGSAFN KGAMQCPNCR +EKGQWLY+NG
Sbjct:    36 VSCSICLESVLDDGTRSKAKLQCGHQFHLDCIGSAFNMKGAMQCPNCRNVEKGQWLYANG 95

Query:    93 C-RSFPEFSMDDWTHDEDLYDLSYSEMSFGVHWCPFGSLTRLPSSFEE 139
               R FPEFSM+DW  +EDLY LSY EM + VHWCPFG L++  +SFEE
Sbjct:    96 STRPFPEFSMEDWIPEEDLYGLSYPEMQYRVHWCPFGELSQAAASFEE 143

GO:0005737 "cytoplasm" evidence=ISM

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

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

TAIR|locus:2049083 AT2G15260 [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 4.4e-16, P = 4.4e-16
 Identities = 48/104 (46%), Positives = 63/104 (60%)

Query:    35 CSICL-ELVTDNG-DRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNG 92
             CSIC   LV +N   R+   L+C H+FHLDCIGSA+N+KG M+CPNCR IE G W +S+G
Sbjct:   123 CSICRGALVNENDVQRTLVTLKCVHKFHLDCIGSAYNAKGFMECPNCRNIEPGHWQFSDG 182

Query:    93 CRSFPEFSMDDWTHDEDLYDL-SYSEMSFGVHWCPFGSL-TRLP 134
                 P   + +   +E+  D  S+S+M      CPFG L  R P
Sbjct:   183 THFNPNGMIANNEEEEEDNDPGSFSQMIVKSEVCPFGCLGQRYP 226

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

TAIR|locus:2140857 AT4G13490 [Arabidopsis thaliana (taxid:3702)]

 Score = 199 (75.1 bits), Expect = 2.5e-15, P = 2.5e-15
 Identities = 34/68 (50%), Positives = 47/68 (69%)

Query:    35 CSICLE-LVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGC 93
             C++CLE L  D  +R+  KL+C H+FHLDC+GS+FN K  M+CP CR+IEKG+WL++   
Sbjct:    22 CAVCLEPLANDADERTVVKLRCSHKFHLDCVGSSFNIKNKMECPCCRQIEKGKWLFAEPV 81

Query:    94 RSFPEFSM 101
                 E  M
Sbjct:    82 DQLEEDDM 89

GO:0005634 "nucleus" evidence=ISM

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

UNIPROTKB|E7EVC4 TRAIP "TRAF-interacting protein" [Homo sapiens (taxid:9606)]

 Score = 97 (39.2 bits), Expect = 0.00032, P = 0.00032
 Identities = 20/52 (38%), Positives = 29/52 (55%)

Query:    35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ 86
             C+IC +   D+  R  A + CGH FHL C+   F +  +  CP CR I+ G+
Sbjct:     7 CTICSDFF-DHS-RDVAAIHCGHTFHLQCLIQWFETAPSRTCPQCR-IQVGK 55

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2195871 AT1G51930 [Arabidopsis thaliana (taxid:3702)]

 Score = 96 (38.9 bits), Expect = 0.00042, P = 0.00042
 Identities = 25/56 (44%), Positives = 29/56 (51%)

Query:    27 GKSFRTVSCSICLELVTDNGDRSWAKLQ-CGHQFHLDCIGSAFNSKGAMQCPNCRK 81
             GK F    C ICLE   D  D    +L+ CGH FHL CI S    K    CP+CR+
Sbjct:    76 GKRF----CPICLEEYED--DHQIRRLRNCGHVFHLLCIDSWLTQK--QNCPSCRR 123


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.316   0.131   0.418    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      452       411   0.00080  118 3  11 22  0.43    34
                                                     34  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  6
  No. of states in DFA:  621 (66 KB)
  Total size of DFA:  299 KB (2153 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  38.85u 0.13s 38.98t   Elapsed:  00:00:02
  Total cpu time:  38.85u 0.13s 38.98t   Elapsed:  00:00:02
  Start:  Fri May 10 06:00:12 2013   End:  Fri May 10 06:00:14 2013

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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_1330018 hypothetical protein (432 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	452
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-08
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-06
smart00184	40	smart00184, RING, Ring finger	5e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-05
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	0.002

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

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C ICL+            L CGH FH +C+     S     CP CR 
Sbjct: 2  ECPICLDEFEP--GEEVVVLPCGHVFHKECLDKWLRSSN--TCPLCRA 45

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 = 45.9 bits (109), Expect = 5e-07
 Identities = 18/47 (38%), Positives = 19/47 (40%), Gaps = 5/47 (10%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C ICLE   +        L CGH F   CI     S G   CP CR 
Sbjct: 2  CPICLEEFREP----VVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRT 43

Length = 45

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

 Score = 44.4 bits (105), Expect = 2e-06
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 6/49 (12%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          + C ICL+L+ D          CGH F  +CI      K   +CP CR 
Sbjct: 3  LECPICLDLLRD----PVVLTPCGHVFCRECILRYLKKKS--KCPICRT 45

Length = 45

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

 Score = 42.9 bits (101), Expect = 5e-06
 Identities = 16/45 (35%), Positives = 17/45 (37%), Gaps = 5/45 (11%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNC 79
          C ICLE    +       L CGH F   CI     S     CP C
Sbjct: 1  CPICLEEYLKD----PVILPCGHTFCRSCIRKWLESGNN-TCPIC 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|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 40.1 bits (94), Expect = 5e-05
 Identities = 19/45 (42%), Positives = 20/45 (44%), Gaps = 5/45 (11%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNC 79
          C ICLE   D        L CGH F   CI S   S G + CP C
Sbjct: 1  CPICLEEPKDPVT----ILPCGHLFCSKCILSWLES-GNVTCPLC 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|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 36.6 bits (85), Expect = 0.002
 Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 10/54 (18%)

Query: 35 CSICLELVTD--------NGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCR 80
          C+IC                D      +CGH FHL CI     ++    CP CR
Sbjct: 22 CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNT--CPLCR 73

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	452
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.04
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.92
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.81
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.79
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.7
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.68
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.67
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.61
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.6
PHA02929	238	N1R/p28-like protein; Provisional	98.6
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.54
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.52
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.48
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.45
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.45
PHA02926	242	zinc finger-like protein; Provisional	98.41
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.33
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.33
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.31
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.3
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.28
PF14634	44	zf-RING_5: zinc-RING finger domain	98.24
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.23
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.17
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.15
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.07
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.0
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.99
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.92
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.86
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.78
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.75
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.58
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.55
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.43
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.31
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.18
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.17
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.09
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.02
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.01
KOG2660	331	consensus Locus-specific chromosome binding protei	97.0
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
COG5152	259	Uncharacterized conserved protein, contains RING a	96.93
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	96.9
COG5219	1525	Uncharacterized conserved protein, contains RING Z	96.9
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	96.89
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.85
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.84
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	96.76
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.67
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.64
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	96.58
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.24
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.91
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	95.89
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.88
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.87
KOG3002	299	consensus Zn finger protein [General function pred	95.74
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.21
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.06
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.58
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	94.53
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.5
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.48
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	94.14
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	93.98
KOG4739	233	consensus Uncharacterized protein involved in syna	93.73
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	93.59
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.52
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.06
PF04641	260	Rtf2: Rtf2 RING-finger	93.01
KOG4367	699	consensus Predicted Zn-finger protein [Function un	92.65
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	92.42
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	92.38
PHA03096	284	p28-like protein; Provisional	92.33
KOG4445	368	consensus Uncharacterized conserved protein, conta	91.82
KOG3039	303	consensus Uncharacterized conserved protein [Funct	91.4
KOG1940	276	consensus Zn-finger protein [General function pred	91.23
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	90.77
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.43
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	90.33
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	90.28
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	89.9
PHA02825	162	LAP/PHD finger-like protein; Provisional	89.87
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.68
COG5175	480	MOT2 Transcriptional repressor [Transcription]	89.6
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	89.6
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	89.2
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	87.83
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	87.21
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	87.13
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	86.31
KOG0825	1134	consensus PHD Zn-finger protein [General function	86.29
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	85.16
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	84.94
PHA02862	156	5L protein; Provisional	84.69
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	83.03
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	82.6
PLN02638	1079	cellulose synthase A (UDP-forming), catalytic subu	82.12
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	82.04
KOG0298	1394	consensus DEAD box-containing helicase-like transc	81.85
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	81.45

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.04  E-value=2.2e-10  Score=108.95  Aligned_cols=50  Identities=30%  Similarity=0.641  Sum_probs=42.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc--------------CCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS--------------KGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s--------------kg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +++.|||.||..||..|+..              ++...||+||..+..
T Consensus        17 ~~~~CpICld~~~dP-----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         17 GDFDCNICLDQVRDP-----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CccCCccCCCcCCCc-----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            368999999999999     88999999999999999852              234689999998754

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

Probab=98.92  E-value=7.3e-10  Score=81.29  Aligned_cols=40  Identities=38%  Similarity=1.038  Sum_probs=31.9

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcCCC--CCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGA--MQCPNC   79 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~--~~CPlC   79 (452)
                      |+||+++|.+|     +.++|||.||..||.+|++....  +.||.|
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            89999999999     99999999999999999986533  589988

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

Probab=98.81  E-value=1.8e-09  Score=78.90  Aligned_cols=43  Identities=44%  Similarity=0.964  Sum_probs=35.8

Q ss_pred             ccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCR   80 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCR   80 (452)
                      .|+||++.+...  ..++.++|||.||.+||.+|++.+.  .||+||
T Consensus         2 ~C~IC~~~~~~~--~~~~~l~C~H~fh~~Ci~~~~~~~~--~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDG--EKVVKLPCGHVFHRSCIKEWLKRNN--SCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTT--SCEEEETTSEEEEHHHHHHHHHHSS--B-TTTH
T ss_pred             CCcCCChhhcCC--CeEEEccCCCeeCHHHHHHHHHhCC--cCCccC
Confidence            699999999753  2357888999999999999998764  999997

...

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

Probab=98.79  E-value=4.2e-09  Score=102.32  Aligned_cols=50  Identities=28%  Similarity=0.651  Sum_probs=44.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCC-CCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKG-AMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg-~~~CPlCRk~~k~   85 (452)
                      ..+.|.||++..++|     +++.|||.||..||.+|+.... ...||+||..+..
T Consensus        46 ~~FdCNICLd~akdP-----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   46 GFFDCNICLDLAKDP-----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CceeeeeeccccCCC-----EEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            578999999999999     9999999999999999998753 3578999997654

>smart00504 Ubox Modified RING finger domain

Probab=98.70  E-value=1.6e-08  Score=77.85  Aligned_cols=47  Identities=21%  Similarity=0.253  Sum_probs=41.8

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++.|+||++.+.+|     +.++|||.||..||..|+..+  ..||.|++.+..
T Consensus         1 ~~~Cpi~~~~~~~P-----v~~~~G~v~~~~~i~~~~~~~--~~cP~~~~~~~~   47 (63)
T smart00504        1 EFLCPISLEVMKDP-----VILPSGQTYERRAIEKWLLSH--GTDPVTGQPLTH   47 (63)
T ss_pred             CcCCcCCCCcCCCC-----EECCCCCEEeHHHHHHHHHHC--CCCCCCcCCCCh
Confidence            46899999999999     999999999999999999863  489999998643

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

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

Probab=98.68  E-value=9.9e-09  Score=102.46  Aligned_cols=49  Identities=35%  Similarity=0.689  Sum_probs=44.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      ....|.||++...+|     ..++|||.||..||.+|...+.  .||+||..++.+
T Consensus       238 a~~kC~LCLe~~~~p-----SaTpCGHiFCWsCI~~w~~ek~--eCPlCR~~~~ps  286 (293)
T KOG0317|consen  238 ATRKCSLCLENRSNP-----SATPCGHIFCWSCILEWCSEKA--ECPLCREKFQPS  286 (293)
T ss_pred             CCCceEEEecCCCCC-----CcCcCcchHHHHHHHHHHcccc--CCCcccccCCCc
Confidence            468999999999999     8999999999999999999775  699999987764

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.67  E-value=8.9e-09  Score=107.46  Aligned_cols=61  Identities=28%  Similarity=0.662  Sum_probs=51.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSFPE   98 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~k~   98 (452)
                      ..+.|+||++.|.+|     ++++|||.||..||..|+...  ..||+|+..+..     |..+.++++.++.
T Consensus        25 ~~l~C~IC~d~~~~P-----vitpCgH~FCs~CI~~~l~~~--~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~~   90 (397)
T TIGR00599        25 TSLRCHICKDFFDVP-----VLTSCSHTFCSLCIRRCLSNQ--PKCPLCRAEDQESKLRSNWLVSEIVESFKN   90 (397)
T ss_pred             cccCCCcCchhhhCc-----cCCCCCCchhHHHHHHHHhCC--CCCCCCCCccccccCccchHHHHHHHHHHH
Confidence            678999999999999     889999999999999999864  389999997643     6777777776553

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

>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=98.61  E-value=2.3e-08  Score=71.51  Aligned_cols=41  Identities=41%  Similarity=0.970  Sum_probs=36.2

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNC   79 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlC   79 (452)
                      |+||++.+.++    ..+++|||.||..||..|++..+...||+|
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            89999999988    139999999999999999996556789988

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 ....

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

Probab=98.60  E-value=2.5e-08  Score=74.81  Aligned_cols=47  Identities=34%  Similarity=0.733  Sum_probs=38.8

Q ss_pred             CccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|.||++...+.     +.++|||. ||..|+.+|++..  ..||+||+.++
T Consensus         1 ~~~~C~iC~~~~~~~-----~~~pCgH~~~C~~C~~~~~~~~--~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPRDV-----VLLPCGHLCFCEECAERLLKRK--KKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBSSE-----EEETTCEEEEEHHHHHHHHHTT--SBBTTTTBB-S
T ss_pred             CcCCCccCCccCCce-----EEeCCCChHHHHHHhHHhcccC--CCCCcCChhhc
Confidence            357899999987776     99999999 9999999999844  59999999764

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.60  E-value=2.8e-08  Score=97.60  Aligned_cols=52  Identities=31%  Similarity=0.540  Sum_probs=40.7

Q ss_pred             CccccccccccccccCC---CcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGD---RSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~---~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.+.++..   ...+++.|+|.||..||..|+..+  .+||+||..+.
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~--~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK--NTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC--CCCCCCCCEee
Confidence            35799999998765421   123567899999999999999865  49999999754

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

Probab=98.59  E-value=4.4e-08  Score=92.18  Aligned_cols=50  Identities=36%  Similarity=0.788  Sum_probs=41.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ..+.|+|||+.+.+-   ..+.++|||.||..||+..++...  .||+|++.++.
T Consensus       130 ~~~~CPiCl~~~sek---~~vsTkCGHvFC~~Cik~alk~~~--~CP~C~kkIt~  179 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEK---VPVSTKCGHVFCSQCIKDALKNTN--KCPTCRKKITH  179 (187)
T ss_pred             cccCCCceecchhhc---cccccccchhHHHHHHHHHHHhCC--CCCCcccccch
Confidence            568899999988654   336789999999999999998664  89999986543

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

Probab=98.54  E-value=2.1e-08  Score=102.07  Aligned_cols=61  Identities=25%  Similarity=0.459  Sum_probs=52.2

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSFPE   98 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~k~   98 (452)
                      ..++|.||.++|..|     ++++|+|+||.-||..++..+  .+||.|+..+..     |..+.++++.+..
T Consensus        22 ~lLRC~IC~eyf~ip-----~itpCsHtfCSlCIR~~L~~~--p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~   87 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIP-----MITPCSHTFCSLCIRKFLSYK--PQCPTCCVTVTESDLRNNRILDEIVKSLNF   87 (442)
T ss_pred             HHHHHhHHHHHhcCc-----eeccccchHHHHHHHHHhccC--CCCCceecccchhhhhhhhHHHHHHHHHHH
Confidence            568999999999999     999999999999999999876  499999998764     6777777765543

>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=98.52  E-value=5.2e-08  Score=69.69  Aligned_cols=39  Identities=36%  Similarity=0.901  Sum_probs=33.0

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNC   79 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlC   79 (452)
                      |+||++.+.+|    ++.++|||.||..||..|++.+  ..||+|
T Consensus         1 C~iC~~~~~~~----~~~~~CGH~fC~~C~~~~~~~~--~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP----VVVTPCGHSFCKECIEKYLEKN--PKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE----EEECTTSEEEEHHHHHHHHHCT--SB-TTT
T ss_pred             CCCCCCcccCc----CEECCCCCchhHHHHHHHHHCc--CCCcCC
Confidence            89999999887    4689999999999999999863  699988

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

Probab=98.48  E-value=1e-07  Score=77.44  Aligned_cols=46  Identities=35%  Similarity=0.786  Sum_probs=36.2

Q ss_pred             ccccccccccccc--------CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCc
Q 039031           33 VSCSICLELVTDN--------GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCR   80 (452)
Q Consensus        33 l~CpICLe~f~dP--------~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCR   80 (452)
                      ..|+||++.|.++        .+..++...|||.||..||.+|++.+.  +||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~--~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN--TCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS--B-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC--cCCCCC
Confidence            3599999999544        134557779999999999999998665  999997

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 ....

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

Probab=98.45  E-value=6.9e-08  Score=99.20  Aligned_cols=47  Identities=32%  Similarity=0.784  Sum_probs=40.0

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      ..|+||+|.|++.+ + +.+|+|+|.||..||+.|+...+ ..||+||..
T Consensus       230 ~~CaIClEdY~~Gd-k-lRiLPC~H~FH~~CIDpWL~~~r-~~CPvCK~d  276 (348)
T KOG4628|consen  230 DTCAICLEDYEKGD-K-LRILPCSHKFHVNCIDPWLTQTR-TFCPVCKRD  276 (348)
T ss_pred             ceEEEeecccccCC-e-eeEecCCCchhhccchhhHhhcC-ccCCCCCCc
Confidence            49999999998763 3 36699999999999999998764 479999884

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

Probab=98.45  E-value=1.7e-07  Score=65.83  Aligned_cols=44  Identities=41%  Similarity=0.839  Sum_probs=35.7

Q ss_pred             ccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      .|+||++.+.++    ..+++|||.||..|+..|+.. +...||.|++.
T Consensus         1 ~C~iC~~~~~~~----~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREP----VVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCc----eEecCCCChhcHHHHHHHHHh-CcCCCCCCCCc
Confidence            599999998555    355569999999999999985 33589999875

>PHA02926 zinc finger-like protein; Provisional

Probab=98.41  E-value=1.6e-07  Score=91.41  Aligned_cols=54  Identities=28%  Similarity=0.579  Sum_probs=40.8

Q ss_pred             Ccccccccccccccc---CC-CcceecccCCcchHhHHHHHHhcC----CCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDN---GD-RSWAKLQCGHQFHLDCIGSAFNSK----GAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP---~~-~~ivlL~CGH~FC~~CI~swl~sk----g~~~CPlCRk~~k   84 (452)
                      ++..|+||++.+.++   .+ +-.++..|+|.||..||..|.+.+    ....||+||..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            578999999976432   12 123677999999999999999753    1357999999754

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

Probab=98.33  E-value=2.9e-07  Score=74.52  Aligned_cols=58  Identities=19%  Similarity=0.232  Sum_probs=43.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCR   94 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve   94 (452)
                      +.+.|+||.+.+.+|     ++++|||+|+..||..|+... ...||.|+..+..     |..+.+.++
T Consensus         3 ~~f~CpIt~~lM~dP-----Vi~~~G~tyer~~I~~~l~~~-~~~~P~t~~~l~~~~l~pn~~Lk~~I~   65 (73)
T PF04564_consen    3 DEFLCPITGELMRDP-----VILPSGHTYERSAIERWLEQN-GGTDPFTRQPLSESDLIPNRALKSAIE   65 (73)
T ss_dssp             GGGB-TTTSSB-SSE-----EEETTSEEEEHHHHHHHHCTT-SSB-TTT-SB-SGGGSEE-HHHHHHHH
T ss_pred             cccCCcCcCcHhhCc-----eeCCcCCEEcHHHHHHHHHcC-CCCCCCCCCcCCcccceECHHHHHHHH
Confidence            468999999999999     999999999999999999962 3599999988654     555555554

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

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

Probab=98.33  E-value=1.9e-07  Score=86.48  Aligned_cols=63  Identities=29%  Similarity=0.710  Sum_probs=50.2

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc---cccchhhhhhhccCCCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI---EKGQWLYSNGCRSFPEFS  100 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~---~k~N~~L~nlve~~k~~~  100 (452)
                      +.+.|+||++.|..|     .+++|||.||..||..++.  ....||.||..   +..|..+.+++..+....
T Consensus        12 ~~~~C~iC~~~~~~p-----~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~~   77 (386)
T KOG2177|consen   12 EELTCPICLEYFREP-----VLLPCGHNFCRACLTRSWE--GPLSCPVCRPPSRNLRPNVLLANLVERLRQLR   77 (386)
T ss_pred             ccccChhhHHHhhcC-----ccccccchHhHHHHHHhcC--CCcCCcccCCchhccCccHHHHHHHHHHHhcC
Confidence            679999999999999     8999999999999999888  45799999941   123566666666555443

>smart00184 RING Ring finger

Probab=98.31  E-value=5.2e-07  Score=61.13  Aligned_cols=39  Identities=44%  Similarity=0.974  Sum_probs=33.3

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNC   79 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlC   79 (452)
                      |+||++....+     +.++|||.||..|+..|+. .+...||.|
T Consensus         1 C~iC~~~~~~~-----~~~~C~H~~c~~C~~~~~~-~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDP-----VVLPCGHTFCRSCIRKWLK-SGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCc-----EEecCCChHHHHHHHHHHH-hCcCCCCCC
Confidence            88999986666     8899999999999999998 333589987

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

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

Probab=98.30  E-value=3.2e-07  Score=97.59  Aligned_cols=49  Identities=35%  Similarity=0.689  Sum_probs=42.4

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcC---CCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK---GAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk---g~~~CPlCRk~~k~   85 (452)
                      +..|+||++....|     +++.|||.||..||..+|...   +-..||+|+..+..
T Consensus       186 ~~~CPICL~~~~~p-----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP-----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcc-----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            78999999998888     788899999999999999763   34789999997654

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

Probab=98.28  E-value=4e-07  Score=67.53  Aligned_cols=41  Identities=32%  Similarity=0.768  Sum_probs=23.4

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcC--CCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK--GAMQCP   77 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk--g~~~CP   77 (452)
                      |+||.+ +.+. +..-+.|+|||+||.+||..+++..  +.+.||
T Consensus         1 CpIc~e-~~~~-~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTE-ENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TT-SS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCC-CCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 7772 2223889999999999999999854  457787

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.24  E-value=9.1e-07  Score=65.00  Aligned_cols=44  Identities=34%  Similarity=0.780  Sum_probs=35.2

Q ss_pred             ccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK   81 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk   81 (452)
                      .|.||++.+. + +....++.|||+||..||..+.  .....||+|++
T Consensus         1 ~C~~C~~~~~-~-~~~~~l~~CgH~~C~~C~~~~~--~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYS-E-ERRPRLTSCGHIFCEKCLKKLK--GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCcccc-C-CCCeEEcccCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence            4899999982 1 2346899999999999999887  33469999985

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

Probab=98.23  E-value=5.8e-07  Score=92.69  Aligned_cols=51  Identities=29%  Similarity=0.746  Sum_probs=41.8

Q ss_pred             CccccccccccccccC--------CCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNG--------DRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~--------~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ++..|.||++.+..++        +.....++|||.+|..|++.|+++++  +||+||.++
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ--TCPICr~p~  344 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ--TCPICRRPV  344 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc--CCCcccCcc
Confidence            5789999999855442        22346799999999999999999875  999999984

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

Probab=98.17  E-value=7.4e-07  Score=89.57  Aligned_cols=47  Identities=28%  Similarity=0.598  Sum_probs=42.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .-+.|-||.+.+..|     +++.|||+||.-||..++..+.  .||+||....
T Consensus        24 s~lrC~IC~~~i~ip-----~~TtCgHtFCslCIR~hL~~qp--~CP~Cr~~~~   70 (391)
T COG5432          24 SMLRCRICDCRISIP-----CETTCGHTFCSLCIRRHLGTQP--FCPVCREDPC   70 (391)
T ss_pred             hHHHhhhhhheeecc-----eecccccchhHHHHHHHhcCCC--CCccccccHH
Confidence            357899999999999     9999999999999999998764  8999999754

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

Probab=98.15  E-value=1.2e-06  Score=86.80  Aligned_cols=51  Identities=29%  Similarity=0.552  Sum_probs=41.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      .+..|.||++...+|     ..++|||.||..||...|..+..-.||+||+.+..+
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            588999999999999     999999999999999944333333599999976543

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

Probab=98.07  E-value=1.8e-06  Score=87.29  Aligned_cols=51  Identities=33%  Similarity=0.780  Sum_probs=41.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ....|+||++.|.+. ++ .+.++|.|.||..|+..|+... ..+||+||..+.
T Consensus       322 ~GveCaICms~fiK~-d~-~~vlPC~H~FH~~Cv~kW~~~y-~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKN-DR-LRVLPCDHRFHVGCVDKWLLGY-SNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhccc-ce-EEEeccCceechhHHHHHHhhh-cccCCccCCCCC
Confidence            357899999998765 33 6889999999999999999833 249999998653

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

Probab=98.00  E-value=5.5e-06  Score=69.92  Aligned_cols=36  Identities=33%  Similarity=0.665  Sum_probs=30.0

Q ss_pred             cceecccCCcchHhHHHHHHhcC-CCCCCCCCccccc
Q 039031           49 SWAKLQCGHQFHLDCIGSAFNSK-GAMQCPNCRKIEK   84 (452)
Q Consensus        49 ~ivlL~CGH~FC~~CI~swl~sk-g~~~CPlCRk~~k   84 (452)
                      .++.-.|+|.||..||.+|++.. ...+||+||+.++
T Consensus        46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            45677899999999999999864 3469999999754

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

Probab=97.99  E-value=2.9e-06  Score=91.77  Aligned_cols=50  Identities=36%  Similarity=0.800  Sum_probs=42.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      .+..|+||.+.+....+....+++|+|.||..|+.+|++.+.  +||.||..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q--tCP~CR~~  339 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ--TCPTCRTV  339 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC--cCCcchhh
Confidence            578999999999884333448999999999999999999865  99999994

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.92  E-value=8.8e-06  Score=82.75  Aligned_cols=52  Identities=21%  Similarity=0.528  Sum_probs=39.1

Q ss_pred             cccccccccc-ccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLEL-VTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~-f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +..||||... +..|..+..+. .|||.||..||...|.. +...||.|++++..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~-~~~~CP~C~~~lrk   55 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVR-GSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcC-CCCCCCCCCCccch
Confidence            4689999995 45663332333 89999999999998764 44699999998654

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

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

Probab=97.86  E-value=2.1e-06  Score=88.05  Aligned_cols=49  Identities=39%  Similarity=0.773  Sum_probs=42.0

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .++.|+||++.++..    +....|.|.||.+||...+...+ ..||.||+.+.
T Consensus        42 ~~v~c~icl~llk~t----mttkeClhrfc~~ci~~a~r~gn-~ecptcRk~l~   90 (381)
T KOG0311|consen   42 IQVICPICLSLLKKT----MTTKECLHRFCFDCIWKALRSGN-NECPTCRKKLV   90 (381)
T ss_pred             hhhccHHHHHHHHhh----cccHHHHHHHHHHHHHHHHHhcC-CCCchHHhhcc
Confidence            689999999999876    46779999999999999888655 49999999753

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

Probab=97.78  E-value=6.5e-06  Score=66.18  Aligned_cols=54  Identities=22%  Similarity=0.504  Sum_probs=27.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc-----cchhhhhh
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK-----GQWLYSNG   92 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k-----~N~~L~nl   92 (452)
                      +.+.|++|.+.+..|    +.+..|.|.||..||...+.    ..||+|+.+..     .|+.+.+|
T Consensus         6 ~lLrCs~C~~~l~~p----v~l~~CeH~fCs~Ci~~~~~----~~CPvC~~Paw~qD~~~NrqLd~~   64 (65)
T PF14835_consen    6 ELLRCSICFDILKEP----VCLGGCEHIFCSSCIRDCIG----SECPVCHTPAWIQDIQINRQLDSM   64 (65)
T ss_dssp             HTTS-SSS-S--SS-----B---SSS--B-TTTGGGGTT----TB-SSS--B-S-SS----HHHHHH
T ss_pred             HhcCCcHHHHHhcCC----ceeccCccHHHHHHhHHhcC----CCCCCcCChHHHHHHHhhhhhhcc
Confidence            468899999999999    23579999999999976443    36999998742     25555544

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

Probab=97.75  E-value=1e-05  Score=80.72  Aligned_cols=63  Identities=24%  Similarity=0.420  Sum_probs=48.9

Q ss_pred             CCcCCccCccccccccccccccCC-----CcceecccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           24 DSRGKSFRTVSCSICLELVTDNGD-----RSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        24 sse~e~ledl~CpICLe~f~dP~~-----~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      +...+++++..|+||...+....+     .....|.|+|.||..||.-|.--.++.+||.|++.+...
T Consensus       216 glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  216 GLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            455667788999999997764421     134778999999999999998766667999999976543

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

Probab=97.58  E-value=5.5e-05  Score=79.49  Aligned_cols=123  Identities=20%  Similarity=0.334  Sum_probs=75.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc----------chhhhhhhccCCCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG----------QWLYSNGCRSFPEFS  100 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~----------N~~L~nlve~~k~~~  100 (452)
                      .++.|.||+..+..|     +.++|||.||..||.+.+...  ..||.||..+..          ++....++..+....
T Consensus        83 sef~c~vc~~~l~~p-----v~tpcghs~c~~Cl~r~ld~~--~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~~  155 (398)
T KOG4159|consen   83 SEFECCVCSRALYPP-----VVTPCGHSFCLECLDRSLDQE--TECPLCRDELVELPALEQALSLNRLLCKLITKFLEGS  155 (398)
T ss_pred             chhhhhhhHhhcCCC-----ccccccccccHHHHHHHhccC--CCCcccccccccchHHHHHHHHHHHHHHHHHHhhhhh
Confidence            579999999999999     888999999999999977633  599999998652          222233333332221


Q ss_pred             CC-cccccc---cccccccCccCcc--------cccCCCCCCCCCCCChhhhhhhhhchhhhccccCCCcccccCCCCc
Q 039031          101 MD-DWTHDE---DLYDLSYSEMSFG--------VHWCPFGSLTRLPSSFEEEISSLQKTEVRIGKTESPLNQNVKNGGM  167 (452)
Q Consensus       101 ~~-e~~~eE---d~~d~e~sE~p~~--------~~~CPFg~lt~lpS~Fee~Es~lq~tevr~gK~e~~~~~~~~~~~~  167 (452)
                      .. .+...+   ..+.....+.|+-        .-.||.       ++||.....+..+.++-|..+|..+..-...+.
T Consensus       156 ~~~s~~~~~~~~~e~~~~e~~~p~f~v~~~~~p~v~cpl-------~vfe~~y~lm~~r~~~~~~~rf~i~~sd~~~~~  227 (398)
T KOG4159|consen  156 SSFSPKASEKSKEEESSRECESPLFPVCTLAFPEVPCPL-------QVFEPRYRLMIRRLLETGDKRFGICLSDSSKGS  227 (398)
T ss_pred             hccchhhhhhhccccccccccCCcccccccccccccCcH-------HHccchHHHHHHHHHhhcceeeeeecccccCCc
Confidence            11 111111   1111122333332        122332       578888887878888887777775554444443

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

Probab=97.55  E-value=3.8e-05  Score=79.35  Aligned_cols=54  Identities=28%  Similarity=0.625  Sum_probs=40.3

Q ss_pred             CccccccccccccccC--C-CcceecccCCcchHhHHHHHHhcCC-----CCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNG--D-RSWAKLQCGHQFHLDCIGSAFNSKG-----AMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~--~-~~ivlL~CGH~FC~~CI~swl~skg-----~~~CPlCRk~~k   84 (452)
                      .+..|.||++.+.+..  + +..++.+|.|.||..||..|-..+.     ...||.||....
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            4789999999766541  1 1224467999999999999985443     479999999754

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

Probab=97.55  E-value=2.1e-05  Score=82.19  Aligned_cols=52  Identities=38%  Similarity=0.785  Sum_probs=46.6

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .+|+||++.+..+.+.-++.+.|||.|-.+||..|+.++.+++||.|.....
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat   56 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT   56 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence            5899999999988888899999999999999999998666789999987643

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

Probab=97.43  E-value=4.5e-05  Score=84.57  Aligned_cols=50  Identities=24%  Similarity=0.684  Sum_probs=43.0

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      +-+.|++|.....+.     +++.|||.||..||...+.... ..||.|.+.|-.|
T Consensus       642 ~~LkCs~Cn~R~Kd~-----vI~kC~H~FC~~Cvq~r~etRq-RKCP~Cn~aFgan  691 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA-----VITKCGHVFCEECVQTRYETRQ-RKCPKCNAAFGAN  691 (698)
T ss_pred             hceeCCCccCchhhH-----HHHhcchHHHHHHHHHHHHHhc-CCCCCCCCCCCcc
Confidence            568999999887777     9999999999999999988654 4999999987654

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.00012  Score=74.11  Aligned_cols=48  Identities=25%  Similarity=0.516  Sum_probs=40.7

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ...|+||+....-|     +.|.|+|.||+-||+-.... ++..|++||.++..
T Consensus         7 ~~eC~IC~nt~n~P-----v~l~C~HkFCyiCiKGsy~n-dk~~CavCR~pids   54 (324)
T KOG0824|consen    7 KKECLICYNTGNCP-----VNLYCFHKFCYICIKGSYKN-DKKTCAVCRFPIDS   54 (324)
T ss_pred             CCcceeeeccCCcC-----ccccccchhhhhhhcchhhc-CCCCCceecCCCCc
Confidence            46899999998888     99999999999999876553 33589999999765

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

Probab=97.18  E-value=0.00032  Score=58.83  Aligned_cols=49  Identities=29%  Similarity=0.453  Sum_probs=34.9

Q ss_pred             ccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .|+-|.......++-.++.-.|.|.||..||.+|+..++  .||+||+.+.
T Consensus        33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~--~CPld~q~w~   81 (88)
T COG5194          33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKG--VCPLDRQTWV   81 (88)
T ss_pred             cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCC--CCCCCCceeE
Confidence            344444433222233556668999999999999999876  9999999753

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

Probab=97.17  E-value=0.00018  Score=56.43  Aligned_cols=43  Identities=28%  Similarity=0.618  Sum_probs=31.5

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCC
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPN   78 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPl   78 (452)
                      .+.|+|.+..|.+|    +....|||.|....|.+|++.++...||+
T Consensus        11 ~~~CPiT~~~~~~P----V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP----VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE----EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC----cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            58999999999999    34469999999999999996666689998

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

Probab=97.09  E-value=0.00017  Score=58.42  Aligned_cols=53  Identities=30%  Similarity=0.641  Sum_probs=24.5

Q ss_pred             ccccccccccccccCCCc-cee--cccCCcchHhHHHHHHhcC--C-------CCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRS-WAK--LQCGHQFHLDCIGSAFNSK--G-------AMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~-ivl--L~CGH~FC~~CI~swl~sk--g-------~~~CPlCRk~~k   84 (452)
                      +..|.||+..+.+.+... .+.  ..|+..||..||.+||...  .       ...||.|+++++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            578999999865222221 122  3899999999999999742  1       036999999764

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

Probab=97.02  E-value=0.0004  Score=69.74  Aligned_cols=49  Identities=24%  Similarity=0.496  Sum_probs=40.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      .+.+|++|.+.-..|    -+..+|||.||..||...+...-.++||.|...+
T Consensus       238 ~~~~C~~Cg~~PtiP----~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  238 SDTECPVCGEPPTIP----HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             CCceeeccCCCCCCC----eeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            578999999988888    2566799999999999877755568999998754

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

Probab=97.01  E-value=0.00044  Score=72.51  Aligned_cols=48  Identities=27%  Similarity=0.775  Sum_probs=41.7

Q ss_pred             CccccccccccccccCCCccee-cccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAK-LQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivl-L~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||...+.+|     +. +.|||.||..|+..|+..  ...||.|+.....
T Consensus        20 ~~l~C~~C~~vl~~p-----~~~~~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   20 ENLLCPICMSVLRDP-----VQTTTCGHRFCAGCLLESLSN--HQKCPVCRQELTQ   68 (391)
T ss_pred             ccccCccccccccCC-----CCCCCCCCcccccccchhhcc--CcCCcccccccch
Confidence            569999999999999     66 599999999999999987  3599999887543

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

Probab=97.00  E-value=0.0002  Score=73.28  Aligned_cols=48  Identities=23%  Similarity=0.569  Sum_probs=41.8

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ....|.+|..+|.++    ..+..|-|+||..||..++...  ..||.|...+.
T Consensus        14 ~~itC~LC~GYliDA----TTI~eCLHTFCkSCivk~l~~~--~~CP~C~i~ih   61 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDA----TTITECLHTFCKSCIVKYLEES--KYCPTCDIVIH   61 (331)
T ss_pred             cceehhhccceeecc----hhHHHHHHHHHHHHHHHHHHHh--ccCCccceecc
Confidence            568999999999998    3677999999999999999874  49999988764

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

Probab=96.94  E-value=0.00072  Score=69.86  Aligned_cols=46  Identities=30%  Similarity=0.594  Sum_probs=37.1

Q ss_pred             ccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ..+|.||+...++-     ++|+|-|. .|..|.+...-..+  .||+||+.+.
T Consensus       290 gkeCVIClse~rdt-----~vLPCRHLCLCs~Ca~~Lr~q~n--~CPICRqpi~  336 (349)
T KOG4265|consen  290 GKECVICLSESRDT-----VVLPCRHLCLCSGCAKSLRYQTN--NCPICRQPIE  336 (349)
T ss_pred             CCeeEEEecCCcce-----EEecchhhehhHhHHHHHHHhhc--CCCccccchH
Confidence            45899999987776     99999996 49999987653333  7999999764

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

Probab=96.93  E-value=0.0003  Score=67.95  Aligned_cols=47  Identities=26%  Similarity=0.538  Sum_probs=40.1

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      .+.|.||.+.|..|     +.+.|||.||..|...-++..  -.|-+|.+....
T Consensus       196 PF~C~iCKkdy~sp-----vvt~CGH~FC~~Cai~~y~kg--~~C~~Cgk~t~G  242 (259)
T COG5152         196 PFLCGICKKDYESP-----VVTECGHSFCSLCAIRKYQKG--DECGVCGKATYG  242 (259)
T ss_pred             ceeehhchhhccch-----hhhhcchhHHHHHHHHHhccC--Ccceecchhhcc
Confidence            47899999999999     999999999999998876643  489999886554

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

Probab=96.90  E-value=0.00049  Score=73.68  Aligned_cols=53  Identities=30%  Similarity=0.643  Sum_probs=39.1

Q ss_pred             CccccccccccccccC---C---------CcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNG---D---------RSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~---~---------~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ....|+||+..+.--.   +         +.-+.++|.|.||..|+..|++.- +..||.||.++.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y-kl~CPvCR~pLP  634 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY-KLICPVCRCPLP  634 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh-cccCCccCCCCC
Confidence            4578999998754211   0         113456999999999999999843 369999999753

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

Probab=96.90  E-value=0.00037  Score=79.03  Aligned_cols=50  Identities=26%  Similarity=0.579  Sum_probs=41.0

Q ss_pred             Ccccccccccccc-----ccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVT-----DNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~-----dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      +..+|+||...+.     -|++   ....|.|.||..|+..|++..+..+||+||..+
T Consensus      1468 G~eECaICYsvL~~vdr~lPsk---rC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSK---RCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCcc---ccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            5678999998765     2211   567899999999999999988888999999754

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

Probab=96.89  E-value=0.00026  Score=55.60  Aligned_cols=47  Identities=30%  Similarity=0.506  Sum_probs=38.4

Q ss_pred             cccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      .+|.||.+.-.+.     ++..|||. .|.+|-.+.++. ....||+||++++.
T Consensus         8 dECTICye~pvds-----VlYtCGHMCmCy~Cg~rl~~~-~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPVDS-----VLYTCGHMCMCYACGLRLKKA-LHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcchH-----HHHHcchHHhHHHHHHHHHHc-cCCcCcchhhHHHH
Confidence            5899999987777     88999995 699999887774 33599999997653

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

Probab=96.85  E-value=0.00066  Score=75.84  Aligned_cols=50  Identities=24%  Similarity=0.375  Sum_probs=39.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ....|++|+..+.+.  .......|+|.||..||..|-+...  +||+||..|.
T Consensus       122 ~~~~CP~Ci~s~~Dq--L~~~~k~c~H~FC~~Ci~sWsR~aq--TCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQ--LEESEKHTAHYFCEECVGSWSRCAQ--TCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHHHHHHH--hhccccccccccHHHHhhhhhhhcc--cCchhhhhhh
Confidence            345688888877654  2335678999999999999987654  9999999864

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

Probab=96.84  E-value=0.0006  Score=72.27  Aligned_cols=49  Identities=27%  Similarity=0.720  Sum_probs=40.2

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +.-+|+||++.+... -..++.+.|.|.|+..|+..|+.    ..||+||....
T Consensus       174 ELPTCpVCLERMD~s-~~gi~t~~c~Hsfh~~cl~~w~~----~scpvcR~~q~  222 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSS-TTGILTILCNHSFHCSCLMKWWD----SSCPVCRYCQS  222 (493)
T ss_pred             cCCCcchhHhhcCcc-ccceeeeecccccchHHHhhccc----CcChhhhhhcC
Confidence            778999999998643 34457789999999999999976    48999998543

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

Probab=96.76  E-value=0.0013  Score=49.98  Aligned_cols=44  Identities=27%  Similarity=0.637  Sum_probs=33.6

Q ss_pred             ccccccccccccCCCcceecccC-----CcchHhHHHHHHhcCCCCCCCCCc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCG-----HQFHLDCIGSAFNSKGAMQCPNCR   80 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CG-----H~FC~~CI~swl~skg~~~CPlCR   80 (452)
                      .|-||++ ..++.  .....+|.     +.+|..|+.+|+..++...||+|+
T Consensus         1 ~CrIC~~-~~~~~--~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEG--DPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCC--CeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 22221  22677885     789999999999887777999995

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

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

Probab=96.67  E-value=0.0009  Score=69.97  Aligned_cols=47  Identities=28%  Similarity=0.694  Sum_probs=34.1

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCC-CCCCCCc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGA-MQCPNCR   80 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~-~~CPlCR   80 (452)
                      ..|.||.+.+... ..+..+-.|||+||..|+..|+..... ..||+|+
T Consensus         5 A~C~Ic~d~~p~~-~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHICIDGRPND-HELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEeccCCccc-cccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            5799995443332 223344569999999999999986532 5899998

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

Probab=96.64  E-value=0.00077  Score=70.72  Aligned_cols=47  Identities=34%  Similarity=0.622  Sum_probs=38.6

Q ss_pred             ccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      .|.||-+.=++     +.+-+|||..|..|+..|........||.||..++.
T Consensus       371 LCKICaendKd-----vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAENDKD-----VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhccCCC-----cccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            59999985333     378899999999999999866544699999998876

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

Probab=96.58  E-value=0.00069  Score=56.48  Aligned_cols=36  Identities=33%  Similarity=0.544  Sum_probs=29.1

Q ss_pred             cceecccCCcchHhHHHHHHhcCC-CCCCCCCccccc
Q 039031           49 SWAKLQCGHQFHLDCIGSAFNSKG-AMQCPNCRKIEK   84 (452)
Q Consensus        49 ~ivlL~CGH~FC~~CI~swl~skg-~~~CPlCRk~~k   84 (452)
                      +++.-.|.|.|+..||.+|+.... ..+||+||+.++
T Consensus        45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            445568999999999999998643 368999999753

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

Probab=96.24  E-value=0.0021  Score=69.55  Aligned_cols=50  Identities=26%  Similarity=0.530  Sum_probs=42.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc---CCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS---KGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s---kg~~~CPlCRk~~k~   85 (452)
                      +...|.+|.+..+++     +...|-|.||..||.++...   ....+||.|-..+..
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            568999999999998     89999999999999888764   234799999887643

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

Probab=95.91  E-value=0.0023  Score=64.94  Aligned_cols=47  Identities=23%  Similarity=0.545  Sum_probs=40.3

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      .+.|-||..+|..|     +...|+|.||..|...-++..  ..|.+|.+....
T Consensus       241 Pf~c~icr~~f~~p-----Vvt~c~h~fc~~ca~~~~qk~--~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP-----VVTKCGHYFCEVCALKPYQKG--EKCYVCSQQTHG  287 (313)
T ss_pred             Cccccccccccccc-----hhhcCCceeehhhhccccccC--Ccceeccccccc
Confidence            45699999999999     999999999999998877643  389999987654

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

Probab=95.89  E-value=0.0033  Score=55.17  Aligned_cols=48  Identities=29%  Similarity=0.580  Sum_probs=35.1

Q ss_pred             ccccccccccccc------------CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           33 VSCSICLELVTDN------------GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        33 l~CpICLe~f~dP------------~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      -.|+||...+-+.            .+-.+.--.|.|.||..||.+|+++++  .||+|.+.
T Consensus        47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~--vCPLdn~e  106 (114)
T KOG2930|consen   47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRN--VCPLDNKE  106 (114)
T ss_pred             chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcC--cCCCcCcc
Confidence            4699988654321            112233447999999999999999776  89999875

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

Probab=95.88  E-value=0.0043  Score=63.29  Aligned_cols=44  Identities=36%  Similarity=0.940  Sum_probs=36.9

Q ss_pred             ccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCcc
Q 039031           32 TVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRK   81 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk   81 (452)
                      .+.|+.|...+.+|     +.+ -|+|.||..||...+... .+.||+|..
T Consensus       274 ~LkCplc~~Llrnp-----~kT~cC~~~fc~eci~~al~ds-Df~CpnC~r  318 (427)
T COG5222         274 SLKCPLCHCLLRNP-----MKTPCCGHTFCDECIGTALLDS-DFKCPNCSR  318 (427)
T ss_pred             cccCcchhhhhhCc-----ccCccccchHHHHHHhhhhhhc-cccCCCccc
Confidence            38899999999999     555 789999999999877643 379999966

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

Probab=95.87  E-value=0.0032  Score=66.09  Aligned_cols=50  Identities=34%  Similarity=0.850  Sum_probs=40.6

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      ++.|..|.+.+-.. ......++|.|+||..|+.+++.+++...||.||+.
T Consensus       365 ~L~Cg~CGe~~Glk-~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  365 ELYCGLCGESIGLK-NERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             hhhhhhhhhhhcCC-cccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            57899999976422 123477899999999999999988777899999963

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

Probab=95.74  E-value=0.0087  Score=61.08  Aligned_cols=53  Identities=21%  Similarity=0.473  Sum_probs=41.0

Q ss_pred             CccccccccccccccCCCcceeccc--CCcchHhHHHHHHhcCCCCCCCCCcccccc--chhhhhhhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQC--GHQFHLDCIGSAFNSKGAMQCPNCRKIEKG--QWLYSNGCR   94 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~C--GH~FC~~CI~swl~skg~~~CPlCRk~~k~--N~~L~nlve   94 (452)
                      +-+.||||.+.+..|      +.+|  ||..|..|-.+..     ..||.||..+..  .+.++++++
T Consensus        47 ~lleCPvC~~~l~~P------i~QC~nGHlaCssC~~~~~-----~~CP~Cr~~~g~~R~~amEkV~e  103 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPP------IFQCDNGHLACSSCRTKVS-----NKCPTCRLPIGNIRCRAMEKVAE  103 (299)
T ss_pred             hhccCchhhccCccc------ceecCCCcEehhhhhhhhc-----ccCCccccccccHHHHHHHHHHH
Confidence            788999999999888      6788  8999999986432     289999998874  344444444

>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=95.21  E-value=0.014  Score=54.70  Aligned_cols=54  Identities=28%  Similarity=0.623  Sum_probs=37.4

Q ss_pred             CccccccccccccccCCCcceeccc------------CCcc-hHhHHHHHHhcC--------------------------
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQC------------GHQF-HLDCIGSAFNSK--------------------------   71 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~C------------GH~F-C~~CI~swl~sk--------------------------   71 (452)
                      ++.+|+|||+.-.+.     |+|-|            +..+ |..|+.++-+..                          
T Consensus         1 ed~~CpICme~PHNA-----VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (162)
T PF07800_consen    1 EDVTCPICMEHPHNA-----VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSES   75 (162)
T ss_pred             CCccCceeccCCCce-----EEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccc
Confidence            468999999987777     66654            3322 678888765421                          


Q ss_pred             ---CCCCCCCCccccccchhh
Q 039031           72 ---GAMQCPNCRKIEKGQWLY   89 (452)
Q Consensus        72 ---g~~~CPlCRk~~k~N~~L   89 (452)
                         ....||+||..++....+
T Consensus        76 ~~~~~L~CPLCRG~V~GWtvv   96 (162)
T PF07800_consen   76 QEQPELACPLCRGEVKGWTVV   96 (162)
T ss_pred             cccccccCccccCceeceEEc
Confidence               136899999988775444

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.

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

Probab=95.06  E-value=0.018  Score=44.01  Aligned_cols=47  Identities=26%  Similarity=0.647  Sum_probs=23.3

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      |++|.+.+.. .++.+.-=+||..+|+.|+...++. ....||.||++.
T Consensus         1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~-~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILEN-EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTS-S-SB-TTT--B-
T ss_pred             CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhc-cCCCCCCCCCCC
Confidence            7899998833 2443444578999999999887763 234999999864

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

Probab=94.58  E-value=0.025  Score=58.42  Aligned_cols=47  Identities=23%  Similarity=0.350  Sum_probs=38.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      +...|+||+....+|    .+...-|-.||..||.+++.+.+  .||+-..+.
T Consensus       299 ~~~~CpvClk~r~Np----tvl~vSGyVfCY~Ci~~Yv~~~~--~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNP----TVLEVSGYVFCYPCIFSYVVNYG--HCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccCCC----ceEEecceEEeHHHHHHHHHhcC--CCCccCCcc
Confidence            667899999998888    35666799999999999998665  899865543

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

Probab=94.53  E-value=0.02  Score=59.65  Aligned_cols=47  Identities=19%  Similarity=0.395  Sum_probs=38.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||.-.-...     +..+|+|.-|.+||.+.+-+.  +.|-.|+..+.
T Consensus       421 Ed~lCpICyA~pi~A-----vf~PC~H~SC~~CI~qHlmN~--k~CFfCktTv~  467 (489)
T KOG4692|consen  421 EDNLCPICYAGPINA-----VFAPCSHRSCYGCITQHLMNC--KRCFFCKTTVI  467 (489)
T ss_pred             ccccCcceecccchh-----hccCCCCchHHHHHHHHHhcC--CeeeEecceee
Confidence            678899999876666     889999999999999876533  48999988643

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

Probab=94.50  E-value=0.0061  Score=61.98  Aligned_cols=41  Identities=32%  Similarity=0.690  Sum_probs=33.6

Q ss_pred             ccccccccccccccCCCcceecccCC-cchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGH-QFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH-~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ...|.||++...+.     +.|.||| .-|..|-..+      ..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DC-----vfLeCGHmVtCt~CGkrm------~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDC-----VFLECGHMVTCTKCGKRM------NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcce-----EEeecCcEEeehhhcccc------ccCchHHHHH
Confidence            57899999998888     9999999 4588886542      2799999854

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

Probab=94.48  E-value=0.015  Score=65.29  Aligned_cols=47  Identities=28%  Similarity=0.731  Sum_probs=40.2

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ..|.||++ ...+     +...|+|.||..|+...+.......||+||..+..
T Consensus       455 ~~c~ic~~-~~~~-----~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-LDSF-----FITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-cccc-----eeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            79999999 5555     89999999999999998887665689999997654

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.14  E-value=0.037  Score=56.24  Aligned_cols=49  Identities=29%  Similarity=0.662  Sum_probs=38.6

Q ss_pred             cccccccc-ccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           34 SCSICLEL-VTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        34 ~CpICLe~-f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .|++|... +.+| +....+-+|+|..|..|+...+.. +...||.|.+++.
T Consensus         2 ~Cp~CKt~~Y~np-~lk~~in~C~H~lCEsCvd~iF~~-g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNP-DLKLMINECGHRLCESCVDRIFSL-GPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCc-cceeeeccccchHHHHHHHHHHhc-CCCCCCcccchhh
Confidence            59999985 5677 444455599999999999998874 4569999988754

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

Probab=93.98  E-value=0.039  Score=65.62  Aligned_cols=53  Identities=26%  Similarity=0.649  Sum_probs=39.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC--------CCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK--------GAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk--------g~~~CPlCRk~~k~   85 (452)
                      .+-.|-||+..--.  ..+.+.|.|+|.||+.|....++..        +-++||+|+.++..
T Consensus      3485 ~DDmCmICFTE~L~--AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALS--AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cCceEEEEehhhhC--CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            45679999874321  2245889999999999998887753        33899999997653

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=93.73  E-value=0.01  Score=58.66  Aligned_cols=46  Identities=24%  Similarity=0.576  Sum_probs=33.9

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +.|-.|...-.   .....++.|.|.||..|...-..    -.|++|++.++.
T Consensus         4 VhCn~C~~~~~---~~~f~LTaC~HvfC~~C~k~~~~----~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRFPS---QDPFFLTACRHVFCEPCLKASSP----DVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccccCC---CCceeeeechhhhhhhhcccCCc----cccccccceeee
Confidence            56887777432   34578999999999999864222    289999998654

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

Probab=93.59  E-value=0.032  Score=58.04  Aligned_cols=43  Identities=28%  Similarity=0.599  Sum_probs=33.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ....|.||++...+.     +.++|||..|  |+.-...   ..+||+||..+
T Consensus       304 ~p~lcVVcl~e~~~~-----~fvpcGh~cc--ct~cs~~---l~~CPvCR~rI  346 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSA-----VFVPCGHVCC--CTLCSKH---LPQCPVCRQRI  346 (355)
T ss_pred             CCCceEEecCCccce-----eeecCCcEEE--chHHHhh---CCCCchhHHHH
Confidence            356799999987776     9999999987  8765433   24799999854

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

Probab=93.52  E-value=0.067  Score=55.80  Aligned_cols=55  Identities=25%  Similarity=0.463  Sum_probs=40.8

Q ss_pred             CCcCCccCccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           24 DSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        24 sse~e~ledl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ++++..-+...|-||-+.+.-.     ..++|+|..|--|..+.-.--....|++||...
T Consensus        53 SaddtDEen~~C~ICA~~~TYs-----~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          53 SADDTDEENMNCQICAGSTTYS-----ARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccccccccceeEEecCCceEE-----EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            3344444667899999988766     789999999999987643322335899999864

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

Probab=93.06  E-value=0.069  Score=53.24  Aligned_cols=50  Identities=30%  Similarity=0.689  Sum_probs=39.1

Q ss_pred             ccccccccccccc-CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           33 VSCSICLELVTDN-GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        33 l~CpICLe~f~dP-~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ..|-||-+.|..- +++....|.|||.+|..|+...+. .....||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~-~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLG-NSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhc-CceeeccCCCCcc
Confidence            5799999988643 244457788999999999987776 4456899999984

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.01  E-value=0.074  Score=52.84  Aligned_cols=51  Identities=16%  Similarity=0.248  Sum_probs=40.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ..+.|||+...|. .....+.+.+|||.|+..||...-   ....||+|-+++..
T Consensus       112 ~~~~CPvt~~~~~-~~~~fv~l~~cG~V~s~~alke~k---~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  112 GRFICPVTGKEFN-GKHKFVYLRPCGCVFSEKALKELK---KSKKCPVCGKPFTE  162 (260)
T ss_pred             ceeECCCCCcccC-CceeEEEEcCCCCEeeHHHHHhhc---ccccccccCCcccc
Confidence            5689999999884 334556778999999999999872   22479999998753

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=92.65  E-value=0.068  Score=57.13  Aligned_cols=35  Identities=17%  Similarity=0.525  Sum_probs=31.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS   70 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s   70 (452)
                      +++.|+||...|.+|     ++|+|+|..|..|....+..
T Consensus         3 eelkc~vc~~f~~ep-----iil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    3 EELKCPVCGSFYREP-----IILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             ccccCceehhhccCc-----eEeecccHHHHHHHHhhccc
Confidence            578999999999999     99999999999999876554

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

Probab=92.42  E-value=0.073  Score=56.45  Aligned_cols=50  Identities=24%  Similarity=0.602  Sum_probs=37.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC------CCCCCCCCccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK------GAMQCPNCRKI   82 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk------g~~~CPlCRk~   82 (452)
                      ..+.|.||++....  ..-++.++|+|.||..|+..++...      +.+.||.|...
T Consensus       183 slf~C~ICf~e~~G--~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  183 SLFDCCICFEEQMG--QHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             hcccceeeehhhcC--cceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            46789999997543  2346889999999999999998742      23788876543

>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=92.38  E-value=0.035  Score=55.35  Aligned_cols=53  Identities=25%  Similarity=0.592  Sum_probs=39.7

Q ss_pred             Ccccccccccc-ccccCCCcceecccCCcchHhHHHHHHhcCCCCCCC--CCccccc
Q 039031           31 RTVSCSICLEL-VTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCP--NCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~-f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CP--lCRk~~k   84 (452)
                      .+..||||..+ +-+|.-+..+...|-|..|.+|+.+.|.. +..+||  -|.+++.
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~-GpAqCP~~gC~kILR   64 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR-GPAQCPYKGCGKILR   64 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC-CCCCCCCccHHHHHH
Confidence            46799999985 55773333344459999999999999875 456999  6977653

>PHA03096 p28-like protein; Provisional

Probab=92.33  E-value=0.08  Score=53.82  Aligned_cols=50  Identities=22%  Similarity=0.322  Sum_probs=34.3

Q ss_pred             ccccccccccccc--CC-CcceecccCCcchHhHHHHHHhcC-CCCCCCCCccc
Q 039031           33 VSCSICLELVTDN--GD-RSWAKLQCGHQFHLDCIGSAFNSK-GAMQCPNCRKI   82 (452)
Q Consensus        33 l~CpICLe~f~dP--~~-~~ivlL~CGH~FC~~CI~swl~sk-g~~~CPlCRk~   82 (452)
                      ..|.||++....-  .+ .=..+..|.|.||..||..|.... ..-.||.||..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence            6799999965421  11 222556899999999999998753 22466666663

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

Probab=91.82  E-value=0.052  Score=55.63  Aligned_cols=53  Identities=25%  Similarity=0.547  Sum_probs=39.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc---------------------CCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS---------------------KGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s---------------------kg~~~CPlCRk~~k~   85 (452)
                      ....|.|||.-|.+.  -.++.+.|.|-||..|+.+++..                     +-.-.||+||..++.
T Consensus       114 p~gqCvICLygfa~~--~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  114 PNGQCVICLYGFASS--PAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCceEEEEEeecCC--CceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            356899999988755  23588999999999999888752                     012469999987653

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.40  E-value=0.15  Score=51.15  Aligned_cols=52  Identities=17%  Similarity=0.277  Sum_probs=41.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ..+.|+||.+.+.+. ..-.++.+|||.||..|+..++...  +.||+|-++++.
T Consensus       220 ~ryiCpvtrd~LtNt-~~ca~Lr~sg~Vv~~ecvEklir~D--~v~pv~d~plkd  271 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNT-TPCAVLRPSGHVVTKECVEKLIRKD--MVDPVTDKPLKD  271 (303)
T ss_pred             cceecccchhhhcCc-cceEEeccCCcEeeHHHHHHhcccc--ccccCCCCcCcc
Confidence            468899999998865 3334677999999999999987644  699999887654

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

Probab=91.23  E-value=0.18  Score=51.14  Aligned_cols=47  Identities=32%  Similarity=0.701  Sum_probs=37.1

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK   81 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk   81 (452)
                      ...|+||.+.+... ......++|||..+..|+...... + +.||+|.+
T Consensus       158 ~~ncPic~e~l~~s-~~~~~~~~CgH~~h~~cf~e~~~~-~-y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLS-FEDAGVLKCGHYMHSRCFEEMICE-G-YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccc-cccCCccCcccchHHHHHHHHhcc-C-CCCCcccc
Confidence            45599999976643 333477899999999999887664 4 89999999

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

Probab=90.77  E-value=0.065  Score=60.04  Aligned_cols=48  Identities=35%  Similarity=0.731  Sum_probs=41.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCC-CCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKG-AMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg-~~~CPlCRk~~   83 (452)
                      ..+.|+||+..+..|     +.+.|.|.||..|+...+..+. ..+||+|+..+
T Consensus        20 k~lEc~ic~~~~~~p-----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~   68 (684)
T KOG4362|consen   20 KILECPICLEHVKEP-----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI   68 (684)
T ss_pred             hhccCCceeEEeecc-----chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence            568999999999999     8999999999999988776543 57999999654

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

Probab=90.43  E-value=0.11  Score=57.69  Aligned_cols=45  Identities=31%  Similarity=0.699  Sum_probs=33.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK   81 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk   81 (452)
                      +-+.|.||+..|... ...-+.+.|||+.|..|+....+.    +|| |+.
T Consensus        10 ~~l~c~ic~n~f~~~-~~~Pvsl~cghtic~~c~~~lyn~----scp-~~~   54 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQ-RLEPVSLQCGHTICGHCVQLLYNA----SCP-TKR   54 (861)
T ss_pred             HHhhchHHHHHHHHH-hcCcccccccchHHHHHHHhHhhc----cCC-CCc
Confidence            567899998876532 222388999999999999876652    788 544

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

Probab=90.33  E-value=0.22  Score=49.50  Aligned_cols=50  Identities=26%  Similarity=0.588  Sum_probs=39.0

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcC------CCCCCCCCcccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK------GAMQCPNCRKIEKG   85 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk------g~~~CPlCRk~~k~   85 (452)
                      -.|.+|...+... +  .+.|.|-|.||.+|+.+|...-      ...+||.|...+-.
T Consensus        51 pNC~LC~t~La~g-d--t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   51 PNCRLCNTPLASG-D--TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCceeCCccccC-c--ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            4699999888755 3  3889999999999999987641      13799999886543

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

Probab=90.28  E-value=0.1  Score=43.75  Aligned_cols=32  Identities=28%  Similarity=0.781  Sum_probs=27.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHH
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIG   65 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~   65 (452)
                      ++..|+||...+.+.   .++..+|||.||..|+.
T Consensus        77 ~~~~C~vC~k~l~~~---~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNS---VFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCCc---eEEEeCCCeEEeccccc
Confidence            567899999998764   46888999999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

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

Probab=89.90  E-value=0.17  Score=57.88  Aligned_cols=45  Identities=27%  Similarity=0.729  Sum_probs=37.0

Q ss_pred             ccCccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           29 SFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        29 ~ledl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      -+....|.+|...+.-|    .|-..|||.||..|+.     .+...||.|+..
T Consensus       837 i~q~skCs~C~~~LdlP----~VhF~CgHsyHqhC~e-----~~~~~CP~C~~e  881 (933)
T KOG2114|consen  837 IFQVSKCSACEGTLDLP----FVHFLCGHSYHQHCLE-----DKEDKCPKCLPE  881 (933)
T ss_pred             eeeeeeecccCCccccc----eeeeecccHHHHHhhc-----cCcccCCccchh
Confidence            33556899999999888    5889999999999997     234589999873

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=89.87  E-value=0.36  Score=45.47  Aligned_cols=48  Identities=19%  Similarity=0.376  Sum_probs=36.5

Q ss_pred             CccccccccccccccCCCcceecccCC-----cchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGH-----QFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH-----~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .+..|-||.+.-. .     ...+|..     ..|..|+.+|+..++...|++|+..+.
T Consensus         7 ~~~~CRIC~~~~~-~-----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~   59 (162)
T PHA02825          7 MDKCCWICKDEYD-V-----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN   59 (162)
T ss_pred             CCCeeEecCCCCC-C-----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence            4568999988632 2     2346655     349999999999888889999999754

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

Probab=89.68  E-value=0.14  Score=52.70  Aligned_cols=44  Identities=25%  Similarity=0.470  Sum_probs=30.8

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      -.|--|-..+..-    ..+++|.|.||++|...-    ..+.||.|...+.
T Consensus        91 HfCd~Cd~PI~IY----GRmIPCkHvFCl~CAr~~----~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRCDFPIAIY----GRMIPCKHVFCLECARSD----SDKICPLCDDRVQ  134 (389)
T ss_pred             EeecccCCcceee----ecccccchhhhhhhhhcC----ccccCcCcccHHH
Confidence            3466676655433    167899999999998542    2359999977654

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=89.60  E-value=0.22  Score=52.00  Aligned_cols=51  Identities=24%  Similarity=0.537  Sum_probs=36.9

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      -.|++|++.+... ++-..--+||-..|.-|+...-+.- ...||.||.....
T Consensus        15 d~cplcie~mdit-dknf~pc~cgy~ic~fc~~~irq~l-ngrcpacrr~y~d   65 (480)
T COG5175          15 DYCPLCIEPMDIT-DKNFFPCPCGYQICQFCYNNIRQNL-NGRCPACRRKYDD   65 (480)
T ss_pred             ccCcccccccccc-cCCcccCCcccHHHHHHHHHHHhhc-cCCChHhhhhccc
Confidence            3499999987654 4445666899999999986544332 2489999997643

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=89.60  E-value=0.14  Score=40.25  Aligned_cols=44  Identities=25%  Similarity=0.475  Sum_probs=32.8

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ...|-.|...-.+.     ++++|||..|..|+.-+-  -  ..||.|.+++.
T Consensus         7 ~~~~~~~~~~~~~~-----~~~pCgH~I~~~~f~~~r--Y--ngCPfC~~~~~   50 (55)
T PF14447_consen    7 EQPCVFCGFVGTKG-----TVLPCGHLICDNCFPGER--Y--NGCPFCGTPFE   50 (55)
T ss_pred             ceeEEEcccccccc-----ccccccceeeccccChhh--c--cCCCCCCCccc
Confidence            45677777765555     899999999999986431  1  37999988764

>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=89.20  E-value=0.33  Score=36.01  Aligned_cols=43  Identities=33%  Similarity=0.834  Sum_probs=23.1

Q ss_pred             cccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNC   79 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlC   79 (452)
                      |.+|.+.+...  ..-....|+-.+|..|+..++.......||.|
T Consensus         1 C~~C~~iv~~G--~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQG--QRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSS--EE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeee--ccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            67888877665  00011258889999999999987654579987

; PDB: 3NW0_A 2CT0_A.

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

Probab=87.83  E-value=0.52  Score=35.95  Aligned_cols=46  Identities=20%  Similarity=0.415  Sum_probs=23.6

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHh---cCCCCCCCCCccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFN---SKGAMQCPNCRKI   82 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~---skg~~~CPlCRk~   82 (452)
                      .+.|+|....+..|    +....|.|.-|.+- ..|+.   ..+...||+|.++
T Consensus         2 sL~CPls~~~i~~P----~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    2 SLRCPLSFQRIRIP----VRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             ESB-TTTSSB-SSE----EEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeeCCCCCCEEEeC----ccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            36899999999888    46679999988764 23433   3455889999863

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.

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

Probab=87.21  E-value=0.38  Score=36.21  Aligned_cols=42  Identities=26%  Similarity=0.560  Sum_probs=27.2

Q ss_pred             cccccccccccCCCcceecccCC-----cchHhHHHHHHhcCCCCCCCCC
Q 039031           35 CSICLELVTDNGDRSWAKLQCGH-----QFHLDCIGSAFNSKGAMQCPNC   79 (452)
Q Consensus        35 CpICLe~f~dP~~~~ivlL~CGH-----~FC~~CI~swl~skg~~~CPlC   79 (452)
                      |-||++.-.+..   ..+.+|.-     ..|..|+.+|+..++...|++|
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            678888654331   25666643     5599999999998777789987

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

Probab=87.13  E-value=0.39  Score=54.98  Aligned_cols=52  Identities=33%  Similarity=0.770  Sum_probs=39.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC-----CCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK-----GAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk-----g~~~CPlCRk~~   83 (452)
                      +.+.|.||.+.+..- .-.+....|-|.||+.||..|....     ....||.|....
T Consensus       190 ~~yeCmIC~e~I~~t-~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  190 RKYECMICTERIKRT-APVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             CceEEEEeeeecccc-CCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            468899999987533 3345566799999999999998652     348899998543

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

Probab=86.31  E-value=0.25  Score=52.71  Aligned_cols=50  Identities=30%  Similarity=0.695  Sum_probs=37.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC----CC--CCCCC--Cccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK----GA--MQCPN--CRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk----g~--~~CPl--CRk~~k   84 (452)
                      ....|-||.+.+..    .++.+.|||.||..|+..++..+    ..  +.||.  |+..+.
T Consensus        69 ~~~~c~ic~~~~~~----~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~  126 (444)
T KOG1815|consen   69 GDVQCGICVESYDG----EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVG  126 (444)
T ss_pred             ccccCCcccCCCcc----hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCC
Confidence            46899999998764    24889999999999999998764    11  46764  655443

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

Probab=86.29  E-value=0.59  Score=53.33  Aligned_cols=67  Identities=9%  Similarity=0.109  Sum_probs=41.7

Q ss_pred             CCCCCCCCCcCCccCccccccccccccccCCC--cceecccCCcchHhHHHHHHhc----CCCCCCCCCcccc
Q 039031           17 DGDVGDCDSRGKSFRTVSCSICLELVTDNGDR--SWAKLQCGHQFHLDCIGSAFNS----KGAMQCPNCRKIE   83 (452)
Q Consensus        17 ~~~~g~~sse~e~ledl~CpICLe~f~dP~~~--~ivlL~CGH~FC~~CI~swl~s----kg~~~CPlCRk~~   83 (452)
                      +..+...+.+.+..+...|.||...+.++.+-  ....-.|+|.||..||..|...    ...-.|+.|...+
T Consensus        81 eS~~snsE~DeK~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci  153 (1134)
T KOG0825|consen   81 ESSSSNDEVDEKTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV  153 (1134)
T ss_pred             cccccccccCcccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence            33334434444555667788887776664211  1133359999999999999864    2234677887654

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

Probab=85.16  E-value=0.69  Score=42.58  Aligned_cols=53  Identities=21%  Similarity=0.384  Sum_probs=38.2

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCC-CCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKG-AMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg-~~~CPlCRk~~k~   85 (452)
                      -.+|.||.+...+.. -+--.--||-..|..|....|+... -..||+|+..++.
T Consensus        80 lYeCnIC~etS~ee~-FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   80 LYECNICKETSAEER-FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             ceeccCcccccchhh-cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            468999999765541 0001124899999999999887643 2689999998765

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

Probab=84.94  E-value=0.97  Score=47.93  Aligned_cols=49  Identities=24%  Similarity=0.531  Sum_probs=37.2

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCC--CCCCCCccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGA--MQCPNCRKI   82 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~--~~CPlCRk~   82 (452)
                      ..+.|||=.+.-.+  +.+.+.|.|||..|.+-|.+..+ ++.  +.||+|-..
T Consensus       333 SvF~CPVlKeqtsd--eNPPm~L~CGHVISkdAlnrLS~-ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSD--ENPPMMLICGHVISKDALNRLSK-NGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccC--CCCCeeeeccceecHHHHHHHhh-CCCeeeeCCCCCcc
Confidence            67899997664331  22359999999999999998766 344  899999663

>PHA02862 5L protein; Provisional

Probab=84.69  E-value=0.78  Score=42.84  Aligned_cols=46  Identities=22%  Similarity=0.511  Sum_probs=34.9

Q ss_pred             cccccccccccccCCCcceecccCC-----cchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGH-----QFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH-----~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ..|-||.+.-.+.      .-+|..     .-|..|+.+|++..++..|++|+..+.
T Consensus         3 diCWIC~~~~~e~------~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER------NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC------cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence            4799999864322      345543     569999999999877789999999764

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

Probab=83.03  E-value=0.79  Score=48.20  Aligned_cols=30  Identities=37%  Similarity=0.864  Sum_probs=24.0

Q ss_pred             cCCcchHhHHHHHHhcC-----------CCCCCCCCccccc
Q 039031           55 CGHQFHLDCIGSAFNSK-----------GAMQCPNCRKIEK   84 (452)
Q Consensus        55 CGH~FC~~CI~swl~sk-----------g~~~CPlCRk~~k   84 (452)
                      |-...|.+|+.+||..+           ++..||.||+.+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            45677999999999753           3579999999865

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

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

Probab=82.60  E-value=0.63  Score=49.11  Aligned_cols=52  Identities=29%  Similarity=0.728  Sum_probs=35.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC----CCCCCCC--Ccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK----GAMQCPN--CRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk----g~~~CPl--CRk~~   83 (452)
                      ....|.||........+. .....|+|.||.+|+.+++..+    ..+.||.  |...+
T Consensus       145 ~~~~C~iC~~e~~~~~~~-f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l  202 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDM-FSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRL  202 (384)
T ss_pred             ccccCccCccccccHhhh-HHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccC
Confidence            357899999443333122 2367899999999999988753    3477875  54443

>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit

Probab=82.12  E-value=1.8  Score=51.19  Aligned_cols=56  Identities=25%  Similarity=0.387  Sum_probs=38.9

Q ss_pred             CccCcccccccccccc--ccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           28 KSFRTVSCSICLELVT--DNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        28 e~ledl~CpICLe~f~--dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +.+....|.||.+.+-  ..++.=+..-.|+=-.|+.|.+ +=.+.+...||.|++..+
T Consensus        13 ~~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktrYk   70 (1079)
T PLN02638         13 KHGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTKYK   70 (1079)
T ss_pred             cccCCceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCchh
Confidence            3445569999999754  2223334556888899999994 444456679999998654

>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=82.04  E-value=0.63  Score=42.73  Aligned_cols=36  Identities=28%  Similarity=0.504  Sum_probs=27.0

Q ss_pred             ccccccccccccccCCCcceecccC------CcchHhHHHHHHh
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCG------HQFHLDCIGSAFN   69 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CG------H~FC~~CI~swl~   69 (452)
                      ..+|.||++.+.+.  ..++.+.||      |.||.+|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~--~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNN--DGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcC--CCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            57899999988762  223556664      6799999999943

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

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

Probab=81.85  E-value=0.52  Score=56.09  Aligned_cols=46  Identities=26%  Similarity=0.637  Sum_probs=39.0

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI   82 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~   82 (452)
                      +...|.||++.+..-    ..+..|||.+|..|+..|+..+  ..||+|+..
T Consensus      1152 ~~~~c~ic~dil~~~----~~I~~cgh~~c~~c~~~~l~~~--s~~~~~ksi 1197 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQ----GGIAGCGHEPCCRCDELWLYAS--SRCPICKSI 1197 (1394)
T ss_pred             cccchHHHHHHHHhc----CCeeeechhHhhhHHHHHHHHh--ccCcchhhh
Confidence            567899999999843    1788999999999999999866  489999865

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

Probab=81.45  E-value=0.58  Score=47.89  Aligned_cols=43  Identities=28%  Similarity=0.790  Sum_probs=34.8

Q ss_pred             CccccccccccccccCCCcceeccc----CCcchHhHHHHHHhcCC---CCCCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQC----GHQFHLDCIGSAFNSKG---AMQCPN   78 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~C----GH~FC~~CI~swl~skg---~~~CPl   78 (452)
                      .-+.|.+|.|.|+|-     ...+|    .|.||+-|-.+.++.++   ..-||.
T Consensus       267 apLcCTLC~ERLEDT-----HFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS  316 (352)
T KOG3579|consen  267 APLCCTLCHERLEDT-----HFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS  316 (352)
T ss_pred             CceeehhhhhhhccC-----ceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence            568999999999987     66777    89999999999888653   356665

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	452
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	5e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-10
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-09
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-08
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-07
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	7e-07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	7e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	7e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	8e-07
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	9e-07
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	9e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-06
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-06
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-06
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	3e-06
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	5e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	6e-06
1z6u_A	150	NP95-like ring finger protein isoform B; structura	6e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	7e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	7e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	3e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-05
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-05
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	7e-05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	7e-05
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	9e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	9e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	1e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-04
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-04
2ect_A	78	Ring finger protein 126; metal binding protein, st	3e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	4e-04
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	5e-04
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	6e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	7e-04

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

 Score = 57.1 bits (138), Expect = 5e-11
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 31 RTVSCSICLELVTD--NGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
            VSC IC++  ++     R     +CGH F   C+  +  +     CP CRK
Sbjct: 2  AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--TCPTCRK 52

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

 Score = 55.7 bits (134), Expect = 2e-10
 Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 4/66 (6%)

Query: 18 GDVGDCDSRGKSFRTVSCSICLELVTD--NGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQ 75
          G  G   +  +   TVSC IC++  ++     R     +CGH F   C+  +  +     
Sbjct: 1  GSSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--T 58

Query: 76 CPNCRK 81
          CP CRK
Sbjct: 59 CPTCRK 64

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

 Score = 55.2 bits (133), Expect = 3e-10
 Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 32 TVSCSICLELVTD--NGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          TVSC IC++  ++     R     +CGH F   C+  +  +     CP CRK
Sbjct: 10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--TCPTCRK 59

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

 Score = 51.6 bits (124), Expect = 4e-09
 Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 6/47 (12%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C ICLE  ++        L C H F   CI           CP C+ 
Sbjct: 8  CPICLEDPSNYS----MALPCLHAFCYVCITRWIRQNP--TCPLCKV 48

>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 = 51.1 bits (122), Expect = 3e-08
 Identities = 14/48 (29%), Positives = 16/48 (33%), Gaps = 6/48 (12%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C  C ELV            C H    DC+  +F       CP CR 
Sbjct: 54 QCICCQELVFRP-----ITTVCQHNVCKDCLDRSFR-AQVFSCPACRY 95

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

 Score = 48.6 bits (116), Expect = 1e-07
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 8/50 (16%)

Query: 34 SCSICLELVTDNGDRSWAKL--QCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C IC +++TD      A +   CG+ +  +CI +A        CP C +
Sbjct: 15 LCLICKDIMTD------AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58

>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 = 47.8 bits (114), Expect = 1e-07
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 8/50 (16%)

Query: 34 SCSICLELVTDNGDRSWAKL--QCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C IC +++TD      A +   CG+ +  +CI +A        CP C +
Sbjct: 17 LCLICKDIMTD------AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 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 = 14/48 (29%), Positives = 22/48 (45%), Gaps = 4/48 (8%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C+IC  L+     +  +   CG + HL C+   F S    +CP+C  
Sbjct: 17 ICNICHSLLI----QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

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

 Score = 45.6 bits (108), Expect = 7e-07
 Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 7/64 (10%)

Query: 18 GDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCP 77
          G  G   +   S     C+ICL+            L C H F   C+  A       +C 
Sbjct: 1  GSSGSSGNTAPSLTVPECAICLQTCVHP-----VSLPCKHVFCYLCVKGASWLG--KRCA 53

Query: 78 NCRK 81
           CR+
Sbjct: 54 LCRQ 57

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

 Score = 47.0 bits (112), Expect = 7e-07
 Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 14/55 (25%)

Query: 33 VSCSICLEL----VTDNGDRSWAKLQCGHQFHLDCIGSAFN-SKGAMQCPNCRKI 82
          + C ICLEL    V+          +C H F   C+    N  KG  QCP C+  
Sbjct: 22 LECPICLELIKEPVS---------TKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>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 = 46.4 bits (110), Expect = 7e-07
 Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 9/51 (17%)

Query: 33 VSCSICLELVTDNGDRSWAKL--QCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
            C IC+E + D      A+L   C       CI   + ++   QCP+CR 
Sbjct: 23 FRCFICMEKLRD------ARLCPHCSKLCCFSCI-RRWLTEQRAQCPHCRA 66

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

 Score = 45.4 bits (108), Expect = 8e-07
 Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 6/51 (11%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAF-NSKGAMQCPNCRKI 82
          V C ICL+++          + CGH F L CI      S G  +CP C+  
Sbjct: 21 VICPICLDILQKP-----VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTS 66

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

 Score = 45.7 bits (109), Expect = 9e-07
 Identities = 19/58 (32%), Positives = 24/58 (41%), Gaps = 17/58 (29%)

Query: 33 VSCSICLEL----VTDNGDRSWAKLQCGHQFHLDCI----GSAFNSKGAMQCPNCRKI 82
          V+C ICLEL    ++         L CGH F   C+      +   KG   CP CR  
Sbjct: 20 VTCPICLELLTQPLS---------LDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS 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 = 44.6 bits (106), Expect = 9e-07
 Identities = 14/47 (29%), Positives = 16/47 (34%), Gaps = 3/47 (6%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C ICLE +          L CGH  H  C           +CP C  
Sbjct: 8  CPICLEDIHT-SRVVAHVLPCGHLLHRTCYEEMLKEGY--RCPLCSG 51

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

 Score = 46.1 bits (109), Expect = 1e-06
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 7/64 (10%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSNGC 93
           C IC+E++ +        L C H     C  S    K ++ CP CR+     W   +  
Sbjct: 17 QCGICMEILVEP-----VTLPCNHTLCKPCFQSTVE-KASLCCPFCRR-RVSSWTRYHTR 69

Query: 94 RSFP 97
          R+  
Sbjct: 70 RNSL 73

>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 = 46.4 bits (109), Expect = 1e-06
 Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 16/64 (25%)

Query: 35 CSICLELVTDNGDRS-------------WAKLQCGHQFHLDCIGSAFNSK---GAMQCPN 78
          C IC+E +      S                 +C H FHL C+ + + +    G++QCP+
Sbjct: 28 CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS 87

Query: 79 CRKI 82
          C+ I
Sbjct: 88 CKTI 91

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

 Score = 46.3 bits (109), Expect = 2e-06
 Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 32 TVSCSICLELVTD--NGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          TVSC IC++  ++     R     +CGH F   C+  +  +     CP CRK
Sbjct: 7  TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--TCPTCRK 56

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

 Score = 44.7 bits (105), Expect = 2e-06
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          V C +C+E + +  D ++    CG+Q    C       +    CP CRK
Sbjct: 12 VECPLCMEPL-EIDDINFFPCTCGYQICRFCWHRIRTDENG-LCPACRK 58

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

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 16/64 (25%), Positives = 20/64 (31%), Gaps = 8/64 (12%)

Query: 18 GDVGDCDSRGKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCP 77
          G  G      +      C IC++      D     L C H F   CI    +      CP
Sbjct: 1  GSSGSSGRVKQLTDEEECCICMD---GRADL---ILPCAHSFCQKCIDKWSDRHR--NCP 52

Query: 78 NCRK 81
           CR 
Sbjct: 53 ICRL 56

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

 Score = 44.2 bits (105), Expect = 3e-06
 Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 18/59 (30%)

Query: 33 VSCSICLEL----VTDNGDRSWAKLQCGHQFHLDCIG-----SAFNSKGAMQCPNCRKI 82
          V+C ICLEL    ++         L CGH     CI      +  +  G   CP C   
Sbjct: 13 VTCPICLELLTEPLS---------LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS 62

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

 Score = 44.1 bits (104), Expect = 3e-06
 Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 7/48 (14%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C IC +   +         +C H F   C    F +    +C  C +
Sbjct: 17 RCFICRQAFQNP-----VVTKCRHYFCESCALEHFRAT--PRCYICDQ 57

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

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 18/54 (33%), Positives = 22/54 (40%), Gaps = 9/54 (16%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS----KGAMQCPNCRKI 82
          V+C ICLEL+ +          C H F   CI   + S     G   CP CR  
Sbjct: 20 VTCPICLELLKEP-----VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68

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

 Score = 43.4 bits (102), Expect = 5e-06
 Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 3/47 (6%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C  C        D      +C H FH  C+          +CP C++
Sbjct: 29 CLRCQAENKQ-EDCVVVWGECNHSFHNCCMSLWVKQNN--RCPLCQQ 72

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

 Score = 42.7 bits (101), Expect = 6e-06
 Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 12/53 (22%)

Query: 30 FRTVSCSICLELVTDNGDRSWAK-LQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          F+ + C  C             K L C H     C+         MQCP C+ 
Sbjct: 4  FQFLRCQQCQAEAKC------PKLLPCLHTLCSGCL-----EASGMQCPICQA 45

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 45.0 bits (106), Expect = 6e-06
 Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 6/49 (12%)

Query: 33  VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
             C  C ELV           +C H    DC+  +F ++    CP CR 
Sbjct: 79  FMCVCCQELVYQP-----VTTECFHNVCKDCLQRSFKAQV-FSCPACRH 121

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

 Score = 46.3 bits (109), Expect = 7e-06
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 35  CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCR 80
           C+IC  L+     +  +   CG + HL C+   F S    +CP+C 
Sbjct: 183 CNICHSLLI----QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCN 224

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

 Score = 43.2 bits (102), Expect = 7e-06
 Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 33 VSCSICLELVTDNGDRSWAK-LQCGHQFHLDCIGSAF-NSKGAMQCPNCRKI 82
          + C IC+E  T+   R   K L CGH     C+     +S   ++CP C KI
Sbjct: 16 LECPICMESFTEEQLR--PKLLHCGHTICRQCLEKLLASSINGVRCPFCSKI 65

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

 Score = 41.2 bits (97), Expect = 2e-05
 Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 6/48 (12%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAF-NSKGAMQCPNC 79
          V C ICL+++          + CGH F L CI      S G  +CP C
Sbjct: 21 VICPICLDILQKP-----VTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>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 = 45.1 bits (106), Expect = 3e-05
 Identities = 16/48 (33%), Positives = 18/48 (37%), Gaps = 6/48 (12%)

Query: 34  SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
            C IC E   D          CGH     C+ S   S+G   CP CR 
Sbjct: 334 LCKICAENDKD-----VKIEPCGHLMCTSCLTSWQESEG-QGCPFCRC 375

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

 Score = 43.1 bits (101), Expect = 3e-05
 Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 7/48 (14%)

Query: 34  SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
            C IC E   +        L C H F   CI      K  ++CP CRK
Sbjct: 66  QCIICSEYFIEA-----VTLNCAHSFCSYCINEWMKRK--IECPICRK 106

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

 Score = 40.1 bits (94), Expect = 6e-05
 Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          CSIC   + D    +    +C H F   CI   F      +CP C  
Sbjct: 18 CSICKGYLID----ATTITECLHTFCKSCIVRHFYYSN--RCPKCNI 58

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

 Score = 39.6 bits (93), Expect = 7e-05
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 6/48 (12%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAF-NSKGAMQCPNC 79
           SCS+CLE + +        ++CGH F   CI   + + +    CP C
Sbjct: 16 ASCSVCLEYLKEP-----VIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 39.5 bits (93), Expect = 7e-05
 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 7/50 (14%)

Query: 33 VSCSICLELVTDNGDRSWAKL--QCGHQFHLDCIGSAFNSKGAMQCPNCR 80
          V C++CL  + D G+   A+   +CGH FH +C+     S     CP CR
Sbjct: 6  VECAVCLAELED-GEE--ARFLPRCGHGFHAECVDMWLGSHST--CPLCR 50

>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 = 39.7 bits (93), Expect = 9e-05
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 14/68 (20%)

Query: 14 DDGDGDVGDCDSRGKSFRTVSCSICLELVTDNGD-RSWAKLQCGHQFHLDCIGSAFNSKG 72
          D  +G   D +          C+ICL ++ +  D R   +L C H FH  C+     +  
Sbjct: 4  DGEEGTEEDTEE--------KCTICLSILEEGEDVR---RLPCMHLFHQVCVDQWLITNK 52

Query: 73 AMQCPNCR 80
            +CP CR
Sbjct: 53 --KCPICR 58

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

 Score = 43.7 bits (102), Expect = 9e-05
 Identities = 13/61 (21%), Positives = 21/61 (34%), Gaps = 12/61 (19%)

Query: 33  VSCSICLELVTDNG---DRSWAKLQCGHQFHLDCIGSAFNSKGAMQ---------CPNCR 80
           + C+IC     D G     S    +C  + H  C+   F +    +         CP C+
Sbjct: 309 LRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCK 368

Query: 81  K 81
            
Sbjct: 369 A 369

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

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 6/47 (12%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C  C  ++         + +CGH+F   C+ +  +S    +C  C++
Sbjct: 18 CEKCHLVLCSP-----KQTECGHRFCESCMAALLSSSSP-KCTACQE 58

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

 Score = 40.1 bits (94), Expect = 1e-04
 Identities = 17/61 (27%), Positives = 22/61 (36%), Gaps = 10/61 (16%)

Query: 33 VSCSICLELVTDNGDRSWAKL--QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYS 90
          + C IC E          A +  QC H +   CI    + K   QCP C        L +
Sbjct: 23 LRCGICFEYFNI------AMIIPQCSHNYCSLCIRKFLSYKT--QCPTCCVTVTEPDLKN 74

Query: 91 N 91
          N
Sbjct: 75 N 75

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

 Score = 40.3 bits (94), Expect = 2e-04
 Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 8/49 (16%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          + CS C  ++ +          C H F  +C+     +     CP C  
Sbjct: 23 LRCSRCTNILRE----PVCLGGCEHIFCSNCVSDCIGT----GCPVCYT 63

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

 Score = 40.8 bits (95), Expect = 2e-04
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 6/49 (12%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI 82
           C ICL  + +       +  CGH+F   CI  +    G  +CP   +I
Sbjct: 20 ECPICLMALREA-----VQTPCGHRFCKACIIKSIRDAGH-KCPVDNEI 62

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

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 13/49 (26%), Positives = 15/49 (30%), Gaps = 1/49 (2%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI 82
           C  C      N         CGH     C+   F  +GA  CP C   
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF-VRGAGNCPECGTP 52

>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 = 2e-04
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 9/51 (17%)

Query: 33 VSCSICLELVTDNGDRSWAK--LQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          + C ICL+++ +           +C H+F  DCI +A  S    +CP CRK
Sbjct: 55 LMCPICLDMLKN------TMTTKECLHRFCADCIITALRSGNK-ECPTCRK 98

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

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          + C IC       GD +  +L C H FH  C+       G   CP CR 
Sbjct: 41 MCCPICCSEYVK-GDVA-TELPCHHYFHKPCVSIWLQKSGT--CPVCRC 85

>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 = 38.2 bits (89), Expect = 3e-04
 Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          + C +C E     G+    +L C H FH  CI           CP CRK
Sbjct: 16 LECPVCKEDYAL-GESV-RQLPCNHLFHDSCIVPWLEQHD--SCPVCRK 60

>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 = 38.3 bits (89), Expect = 4e-04
 Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 9/59 (15%)

Query: 27 GKSFRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK------GAMQCPNC 79
          G S  +  C +CL       ++     QC   F   C+              A+ CP+ 
Sbjct: 1  GSS-GSSGCKLCLG--EYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

>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 = 38.6 bits (90), Expect = 5e-04
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 10/51 (19%)

Query: 33 VSCSICLELVTDNGDRSWAK--LQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          + C +C     D      A   ++C H F   CI     +     CP C  
Sbjct: 16 LMCVLCGGYFID------ATTIIECLHSFCKTCIVRYLETSK--YCPICDV 58

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

 Score = 37.4 bits (87), Expect = 6e-04
 Identities = 12/49 (24%), Positives = 17/49 (34%), Gaps = 6/49 (12%)

Query: 34 SCSICLELVTDNGD-RSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
           C++CLE      +        C H FH  C+      +    CP C  
Sbjct: 17 LCAVCLEDFKPRDELG---ICPCKHAFHRKCLIKWLEVRK--VCPLCNM 60

>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 = 7e-04
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 6/50 (12%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI 82
            C ICL  + +       +  CGH+F   CI  +    G  +CP   +I
Sbjct: 19 YECPICLMALREA-----VQTPCGHRFCKACIIKSIRDAGH-KCPVDNEI 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	452
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.31
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.26
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.22
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.22
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.2
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.18
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.17
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.17
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.16
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.16
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.13
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.1
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.09
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.09
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.08
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.08
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.07
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.07
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.06
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.03
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.03
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.02
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.01
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.99
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.99
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.99
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.98
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.98
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.97
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.95
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.95
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.94
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.93
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.92
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.92
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.92
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.92
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.91
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.88
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.88
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.84
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.81
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.8
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.79
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.78
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.77
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.77
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.74
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.74
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.72
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.58
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.55
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.53
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.52
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.5
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.5
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.48
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.48
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.46
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.46
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.4
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.24
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.22
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.14
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.78
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.78
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.39
3nw0_A	238	Non-structural maintenance of chromosomes element	96.6
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.2
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	94.16
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	91.3
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	87.01
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	84.51
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	84.14
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	82.22

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

Probab=99.31  E-value=1.2e-12  Score=106.44  Aligned_cols=66  Identities=21%  Similarity=0.593  Sum_probs=53.1

Q ss_pred             CCcc-CccccccccccccccCCCcceecc-cCCcchHhHHHHHHhcCCCCCCCCCccccc------cchhhhhhhccCC
Q 039031           27 GKSF-RTVSCSICLELVTDNGDRSWAKLQ-CGHQFHLDCIGSAFNSKGAMQCPNCRKIEK------GQWLYSNGCRSFP   97 (452)
Q Consensus        27 ~e~l-edl~CpICLe~f~dP~~~~ivlL~-CGH~FC~~CI~swl~skg~~~CPlCRk~~k------~N~~L~nlve~~k   97 (452)
                      .+.+ +++.|+||++.|.+|     ++++ |||+||..||..|+...+...||+||+.+.      .|..+.++++.++
T Consensus         7 ~~~~~~~~~C~IC~~~~~~p-----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~   80 (92)
T 3ztg_A            7 DDPIPDELLCLICKDIMTDA-----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFK   80 (92)
T ss_dssp             CCCCCTTTEETTTTEECSSC-----EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHH
T ss_pred             cccCCcCCCCCCCChhhcCc-----eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHH
Confidence            3344 689999999999999     8899 999999999999998666579999999862      2666666665443

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

Probab=99.26  E-value=4.3e-12  Score=100.15  Aligned_cols=49  Identities=27%  Similarity=0.728  Sum_probs=43.9

Q ss_pred             CccccccccccccccCCCcceecc-cCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQ-CGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~-CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +++.|+||++.+.+|     +.++ |||.||..||..|+...+...||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~p-----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           14 DELLCLICKDIMTDA-----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             GGGSCSSSCCCCTTC-----EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCcCCChHHhCC-----eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            679999999999999     8898 999999999999998765569999999743

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

Probab=99.22  E-value=1.2e-11  Score=97.86  Aligned_cols=50  Identities=36%  Similarity=0.759  Sum_probs=44.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC----CCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK----GAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk----g~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+...    +...||+||+.+..
T Consensus        18 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           18 EEVTCPICLELLKEP-----VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             TTTSCTTTCSCCSSC-----EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             cCCCCcCCChhhCcc-----eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            678999999999999     889999999999999999873    25799999998654

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

Probab=99.22  E-value=8.5e-12  Score=97.64  Aligned_cols=54  Identities=26%  Similarity=0.589  Sum_probs=44.9

Q ss_pred             cCCcc-CccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           26 RGKSF-RTVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        26 e~e~l-edl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      +.+.+ +++.|+||++.+.+|     +.+ +|||.||..||..|++.+  ..||+||+.+...
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p-----~~~~~CgH~fC~~Ci~~~~~~~--~~CP~Cr~~~~~~   63 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDA-----TTITECLHTFCKSCIVRHFYYS--NRCPKCNIVVHQT   63 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSC-----EECSSSCCEECHHHHHHHHHHC--SSCTTTCCCCCSS
T ss_pred             hHhhcCCCCCCCCCChHHHCc-----CEECCCCCHHHHHHHHHHHHcC--CcCCCcCcccCcc
Confidence            33344 678999999999998     665 999999999999999864  5999999987653

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

Probab=99.20  E-value=2.2e-11  Score=97.17  Aligned_cols=47  Identities=21%  Similarity=0.470  Sum_probs=42.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +.+.|+||++.+.+|     ++++|||.||..||..|+...  ..||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~--~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQAFQNP-----VVTKCRHYFCESCALEHFRAT--PRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCSBCCSE-----EECTTSCEEEHHHHHHHHHHC--SBCSSSCCBCC
T ss_pred             CCCCCcCCCchhcCe-----eEccCCCHhHHHHHHHHHHCC--CcCCCcCcccc
Confidence            578999999999999     889999999999999999854  48999999865

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

Probab=99.18  E-value=2e-11  Score=96.54  Aligned_cols=50  Identities=40%  Similarity=0.868  Sum_probs=43.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc----CCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS----KGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s----kg~~~CPlCRk~~k~   85 (452)
                      +.+.|+||++.+.+|     +.++|||.||..||..|+..    .+...||+||+.+..
T Consensus        18 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           18 EEVTCPICLELLTQP-----LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCTTTCSCCSSC-----BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCCCCcccCCc-----eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            678999999999998     78899999999999999986    235799999998654

>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=99.17  E-value=5.8e-12  Score=105.10  Aligned_cols=60  Identities=22%  Similarity=0.446  Sum_probs=48.8

Q ss_pred             CccccccccccccccCCCccee-cccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAK-LQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivl-L~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +++.|+||++.+.+|     +. ++|||.||..||..|+...+ ..||+||+.+..     +..+.++++.+
T Consensus        21 ~~~~C~IC~~~~~~p-----~~~~~CgH~FC~~Ci~~~~~~~~-~~CP~Cr~~~~~~~l~~~~~~~~i~~~~   86 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA-----RLCPHCSKLCCFSCIRRWLTEQR-AQCPHCRAPLQLRELVNCRWAEEVTQQL   86 (100)
T ss_dssp             HHTBCTTTCSBCSSE-----EECTTTCCEEEHHHHHHHHHHTC-SBCTTTCCBCCGGGCEECTTHHHHHHHH
T ss_pred             CCCCCccCCccccCc-----cccCCCCChhhHHHHHHHHHHCc-CCCCCCCCcCCHHHhHhhHHHHHHHHHH
Confidence            689999999999999     77 99999999999999998653 589999998754     34444444433

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

Probab=99.17  E-value=3.6e-11  Score=96.24  Aligned_cols=54  Identities=30%  Similarity=0.692  Sum_probs=43.8

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC-CCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK-GAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk-g~~~CPlCRk~~k~   85 (452)
                      +.+.|+||++.+.+. +...+.++|||.||..||..|++.+ +...||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~~-~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           14 EVLECPICMESFTEE-QLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             SCCBCTTTCCBCCTT-SSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             CCCCCccCCcccccc-CCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            678999999999882 1112888999999999999999864 34699999997654

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

Probab=99.16  E-value=5.9e-12  Score=99.13  Aligned_cols=50  Identities=36%  Similarity=0.729  Sum_probs=43.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC-----CCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK-----GAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk-----g~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+...     ....||+||+.+..
T Consensus        11 ~~~~C~IC~~~~~~p-----~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           11 EEVTCPICLELLTEP-----LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCEETTTTEECSSC-----CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             cCCCCcCCCcccCCe-----eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            678999999999999     788999999999999998752     25799999998754

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

Probab=99.16  E-value=8.8e-12  Score=98.46  Aligned_cols=58  Identities=19%  Similarity=0.399  Sum_probs=48.2

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCR   94 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve   94 (452)
                      +++.|+||++.+.+|     ++++|||.||..||..|+.. +...||+||+.+..     |..+.++++
T Consensus         7 ~~~~C~IC~~~~~~P-----v~~~CgH~fc~~Ci~~~~~~-~~~~CP~C~~~~~~~~l~~n~~l~~~i~   69 (78)
T 1t1h_A            7 EYFRCPISLELMKDP-----VIVSTGQTYERSSIQKWLDA-GHKTCPKSQETLLHAGLTPNYVLKSLIA   69 (78)
T ss_dssp             SSSSCTTTSCCCSSE-----EEETTTEEEEHHHHHHHHTT-TCCBCTTTCCBCSSCCCEECTTTHHHHH
T ss_pred             ccCCCCCccccccCC-----EEcCCCCeecHHHHHHHHHH-CcCCCCCCcCCCChhhCccCHHHHHHHH
Confidence            579999999999999     88999999999999999974 34689999998653     555555554

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

Probab=99.13  E-value=4.6e-11  Score=91.79  Aligned_cols=49  Identities=20%  Similarity=0.590  Sum_probs=42.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+.. ....||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSP-----KQTECGHRFCESCMAALLSS-SSPKCTACQESIVK   62 (66)
T ss_dssp             CCEECTTTCCEESSC-----CCCSSSCCCCHHHHHHHHTT-SSCCCTTTCCCCCT
T ss_pred             cCCCCCCCChHhcCe-----eECCCCCHHHHHHHHHHHHh-CcCCCCCCCcCCCh
Confidence            678999999999999     77999999999999999963 33589999997654

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

Probab=99.12  E-value=3.1e-11  Score=94.14  Aligned_cols=49  Identities=27%  Similarity=0.540  Sum_probs=43.3

Q ss_pred             cCccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           30 FRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        30 ledl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      .+++.|+||++.+.++     +.++|||.||..||..|+..+  ..||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~-----~~~~CgH~fC~~Ci~~~~~~~--~~CP~Cr~~~~~   61 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP-----VSLPCKHVFCYLCVKGASWLG--KRCALCRQEIPE   61 (71)
T ss_dssp             SSCCBCSSSSSBCSSE-----EEETTTEEEEHHHHHHCTTCS--SBCSSSCCBCCH
T ss_pred             CCCCCCccCCcccCCC-----EEccCCCHHHHHHHHHHHHCC--CcCcCcCchhCH
Confidence            3678999999999998     889999999999999998755  599999998754

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

Probab=99.10  E-value=6.8e-11  Score=90.36  Aligned_cols=52  Identities=33%  Similarity=0.719  Sum_probs=43.2

Q ss_pred             CccccccccccccccC--CCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNG--DRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~--~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +...|+||++.+.++.  ....+.++|||.||..||..|+..+  ..||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~   67 (69)
T 2ea6_A           14 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--NTCPTCRKKIN   67 (69)
T ss_dssp             CCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC--SSCTTTCCCCC
T ss_pred             CCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC--CCCCCCCCccC
Confidence            5789999999988762  2344789999999999999999864  49999999764

>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=7.3e-12  Score=106.14  Aligned_cols=48  Identities=27%  Similarity=0.750  Sum_probs=42.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+.. +...||+||+.+.
T Consensus        14 ~~~~C~iC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~   61 (115)
T 3l11_A           14 SECQCGICMEILVEP-----VTLPCNHTLCKPCFQSTVEK-ASLCCPFCRRRVS   61 (115)
T ss_dssp             HHHBCTTTCSBCSSC-----EECTTSCEECHHHHCCCCCT-TTSBCTTTCCBCH
T ss_pred             CCCCCccCCcccCce-----eEcCCCCHHhHHHHHHHHhH-CcCCCCCCCcccC
Confidence            679999999999999     88999999999999999874 3369999999875

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

Probab=99.09  E-value=6.6e-11  Score=93.39  Aligned_cols=51  Identities=33%  Similarity=0.642  Sum_probs=42.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|+||++.|.++.  ..+.++|||.||..||..|++.+  ..||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~--~~CP~Cr~~~~~   64 (78)
T 2ect_A           14 SGLECPVCKEDYALGE--SVRQLPCNHLFHDSCIVPWLEQH--DSCPVCRKSLTG   64 (78)
T ss_dssp             SSCCCTTTTSCCCTTS--CEEECTTSCEEETTTTHHHHTTT--CSCTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCC--CEEEeCCCCeecHHHHHHHHHcC--CcCcCcCCccCC
Confidence            5789999999988662  34667999999999999999855  499999997654

>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=99.09  E-value=3.4e-11  Score=103.48  Aligned_cols=58  Identities=26%  Similarity=0.490  Sum_probs=48.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc------chhhhhhhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG------QWLYSNGCR   94 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~------N~~L~nlve   94 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+.. +...||+||+.+..      |..+.++++
T Consensus        51 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~  114 (124)
T 3fl2_A           51 ETFQCICCQELVFRP-----ITTVCQHNVCKDCLDRSFRA-QVFSCPACRYDLGRSYAMQVNQPLQTVLN  114 (124)
T ss_dssp             HHTBCTTTSSBCSSE-----EECTTSCEEEHHHHHHHHHT-TCCBCTTTCCBCCTTCCCCCCHHHHHHHH
T ss_pred             cCCCCCcCChHHcCc-----EEeeCCCcccHHHHHHHHhH-CcCCCCCCCccCCCCCCCCCCHHHHHHHH
Confidence            568999999999999     88999999999999999984 33599999998743      556666654

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

Probab=99.08  E-value=1.1e-10  Score=90.63  Aligned_cols=50  Identities=32%  Similarity=0.820  Sum_probs=43.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc-CCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS-KGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s-kg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|++. .....||+||+.+..
T Consensus        19 ~~~~C~IC~~~~~~~-----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           19 EEVICPICLDILQKP-----VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCBCTTTCSBCSSE-----EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             cCCEeccCCcccCCe-----EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            678999999999998     88899999999999999873 234699999997653

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

Probab=99.08  E-value=3.6e-11  Score=105.53  Aligned_cols=48  Identities=35%  Similarity=0.761  Sum_probs=42.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     ++++|||.||..||..|+..+  ..||+||+.+..
T Consensus        52 ~~~~C~iC~~~~~~~-----~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEA-----VTLNCAHSFCSYCINEWMKRK--IECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSE-----EEETTSCEEEHHHHHHHTTTC--SBCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCc-----eECCCCCCccHHHHHHHHHcC--CcCCCCCCcCCC
Confidence            467899999999999     899999999999999999855  489999998753

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

Probab=99.07  E-value=1.3e-10  Score=86.27  Aligned_cols=44  Identities=34%  Similarity=0.876  Sum_probs=38.8

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc-CCCCCCCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS-KGAMQCPNC   79 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s-kg~~~CPlC   79 (452)
                      +.+.|+||++.+.+|     +.++|||.||..||..|+.. +....||+|
T Consensus        14 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLKEP-----VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCSSC-----CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccCcc-----EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            678999999999999     78999999999999999764 345699998

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

Probab=99.07  E-value=2.9e-11  Score=99.91  Aligned_cols=60  Identities=25%  Similarity=0.534  Sum_probs=49.5

Q ss_pred             CccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSFP   97 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~k   97 (452)
                      +.+.|+||++.+.+|     +.+ +|||.||..||..|+..+  ..||+||+.+..     |..+.++++.++
T Consensus        21 ~~~~C~IC~~~~~~p-----~~~~~CgH~fC~~Ci~~~~~~~--~~CP~Cr~~~~~~~l~~n~~l~~~i~~~~   86 (99)
T 2y43_A           21 DLLRCGICFEYFNIA-----MIIPQCSHNYCSLCIRKFLSYK--TQCPTCCVTVTEPDLKNNRILDELVKSLN   86 (99)
T ss_dssp             HHTBCTTTCSBCSSE-----EECTTTCCEEEHHHHHHHHTTC--CBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             CCCCcccCChhhCCc-----CEECCCCCHhhHHHHHHHHHCC--CCCCCCCCcCChhhCCcCHHHHHHHHHHH
Confidence            578999999999998     666 899999999999999854  599999998753     666666665443

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

Probab=99.07  E-value=9.9e-11  Score=95.56  Aligned_cols=57  Identities=14%  Similarity=0.056  Sum_probs=48.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCR   94 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve   94 (452)
                      +++.|+||++.+.+|     ++++|||+||..||..|+...  .+||.|+..+..     |..+.++++
T Consensus        13 ~~~~CpI~~~~m~dP-----V~~~cGhtf~r~~I~~~l~~~--~~cP~~~~~l~~~~l~pn~~L~~~i~   74 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDP-----VRLPSGTVMDRSIILRHLLNS--PTDPFNRQMLTESMLEPVPELKEQIQ   74 (85)
T ss_dssp             TTTBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHHHHC--SBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             hheECcccCchhcCC-----eECCCCCEECHHHHHHHHhcC--CCCCCCcCCCChHhcchHHHHHHHHH
Confidence            579999999999999     999999999999999999854  599999998753     555555554

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

Probab=99.06  E-value=1.3e-10  Score=90.85  Aligned_cols=50  Identities=24%  Similarity=0.508  Sum_probs=41.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.+.++.  .++.++|+|.||..||..|++.+.  .||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~~~--~~~~~~C~H~f~~~Ci~~~~~~~~--~CP~Cr~~~~   63 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRD--ELGICPCKHAFHRKCLIKWLEVRK--VCPLCNMPVL   63 (74)
T ss_dssp             CSCBCSSSCCBCCSSS--CEEEETTTEEEEHHHHHHHHHHCS--BCTTTCCBCS
T ss_pred             CCCCCcCCCcccCCCC--cEEEcCCCCEecHHHHHHHHHcCC--cCCCcCcccc
Confidence            5679999999988762  235669999999999999998654  8999999754

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

Probab=99.04  E-value=9.8e-11  Score=90.31  Aligned_cols=53  Identities=32%  Similarity=0.720  Sum_probs=44.0

Q ss_pred             Ccccccccccccccc--CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDN--GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP--~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.++  .....+.++|||.||..||..|++.+  ..||+||+.+..
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~~   63 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--NTCPTCRKKINH   63 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC--SBCTTTCCBCCC
T ss_pred             CCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC--CCCCCCCCccCh
Confidence            568999999998875  23445789999999999999999865  499999997654

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

Probab=99.03  E-value=2.9e-10  Score=86.34  Aligned_cols=44  Identities=36%  Similarity=0.948  Sum_probs=39.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC-CCCCCCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK-GAMQCPNC   79 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk-g~~~CPlC   79 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|++.. ....||+|
T Consensus        19 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDILQKP-----VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBCSSC-----EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchhCCe-----EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            678999999999999     889999999999999999842 34689998

>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=99.03  E-value=1.8e-10  Score=96.79  Aligned_cols=59  Identities=14%  Similarity=0.010  Sum_probs=49.9

Q ss_pred             CccccccccccccccCCCcceecccC-CcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCG-HQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CG-H~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +++.|+||++.|.+|     ++++|| |+||..||..|+...  .+||+|+..+..     |..+.++++.+
T Consensus        21 ~~~~CpI~~~~m~dP-----V~~~cG~htf~r~cI~~~l~~~--~~cP~~~~~l~~~~L~pn~~Lk~~I~~~   85 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP-----VVLPSSRVTVDRSTIARHLLSD--QTDPFNRSPLTMDQIRPNTELKEKIQRW   85 (98)
T ss_dssp             TTTBCTTTCSBCSSE-----EECTTTCCEEEHHHHHHHTTTS--CBCTTTCSBCCTTTSEECHHHHHHHHHH
T ss_pred             HhcCCcCccccccCC-----eECCCCCeEECHHHHHHHHHhC--CCCCCCCCCCChhhceEcHHHHHHHHHH
Confidence            679999999999999     999999 999999999999854  489999998753     55666666533

>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=99.02  E-value=2e-10  Score=95.15  Aligned_cols=63  Identities=21%  Similarity=0.418  Sum_probs=51.0

Q ss_pred             CccccccccccccccCCCcceecc-cCCcchHhHHHHHHhcC----CCCCCCC--Cccc-cc-----cchhhhhhhccCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQ-CGHQFHLDCIGSAFNSK----GAMQCPN--CRKI-EK-----GQWLYSNGCRSFP   97 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~-CGH~FC~~CI~swl~sk----g~~~CPl--CRk~-~k-----~N~~L~nlve~~k   97 (452)
                      +++.|+||++.|.+|     ++++ |||+||..||..|+...    +...||+  |++. +.     .|..+.++++.++
T Consensus         6 ~~~~CPI~~~~~~dP-----V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~   80 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP-----VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHN   80 (94)
T ss_dssp             SCCBCTTTCSBCSSE-----EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHH
T ss_pred             cEeECcCcCchhcCC-----EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHH
Confidence            578999999999999     8885 99999999999999863    3469999  9865 43     3777777776554


Q ss_pred             C
Q 039031           98 E   98 (452)
Q Consensus        98 ~   98 (452)
                      .
T Consensus        81 ~   81 (94)
T 2yu4_A           81 K   81 (94)
T ss_dssp             T
T ss_pred             H
Confidence            4

>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=99.01  E-value=1.5e-10  Score=103.89  Aligned_cols=60  Identities=25%  Similarity=0.526  Sum_probs=49.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc------chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG------QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~------N~~L~nlve~~   96 (452)
                      +.+.|+||++.+.+|     ++++|||.||..||..|+.. +...||+||..+..      |..+.++++.+
T Consensus        77 ~~~~C~IC~~~~~~p-----v~~~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~  142 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP-----VTTECFHNVCKDCLQRSFKA-QVFSCPACRHDLGQNYIMIPNEILQTLLDLF  142 (150)
T ss_dssp             HHTBCTTTSSBCSSE-----EECTTSCEEEHHHHHHHHHT-TCCBCTTTCCBCCTTCCCCBCHHHHHHHHHH
T ss_pred             cCCEeecCChhhcCC-----EEcCCCCchhHHHHHHHHHh-CCCcCCCCCccCCCCCCCCCCHHHHHHHHHH
Confidence            568899999999999     88999999999999999985 33589999998653      55566666543

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

Probab=98.99  E-value=1.9e-10  Score=88.01  Aligned_cols=53  Identities=21%  Similarity=0.441  Sum_probs=42.7

Q ss_pred             Cccccccccc-cccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLE-LVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe-~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++ .+.++ ....+.++|||.||..||.+|+... ...||+||+.+..
T Consensus         2 ~~~~C~IC~~~~~~~~-~~~~~~~~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNP-SLKLMVNVCGHTLCESCVDLLFVRG-AGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCS-SCCEEECTTCCCEEHHHHHHHHHTT-SSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCC-ccCeecCCCCCHhHHHHHHHHHHcC-CCcCCCCCCcccc
Confidence            3678999999 88887 3333568999999999999998743 4689999998754

>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=98.99  E-value=1.9e-10  Score=96.58  Aligned_cols=59  Identities=19%  Similarity=0.407  Sum_probs=48.0

Q ss_pred             CccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCcccccc---------chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG---------QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~---------N~~L~nlve~~   96 (452)
                      +++.|+||++.+.+|     +.+ +|||.||..||..|+...  ..||+||+.+..         |..+.++++.+
T Consensus        14 ~~~~C~IC~~~~~~p-----~~~~~CgH~fC~~Ci~~~~~~~--~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~   82 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA-----TTIIECLHSFCKTCIVRYLETS--KYCPICDVQVHKTRPLLNIRSDKTLQDIVYKL   82 (108)
T ss_dssp             GGTBCTTTSSBCSSE-----EEETTTCCEEEHHHHHHHHTSC--SBCTTTCCBSCSSCGGGGEEECHHHHHHHHHH
T ss_pred             CcCCCccCChHHhCc-----CEeCCCCChhhHHHHHHHHHhC--CcCcCCCccccccCcccccCcCHHHHHHHHHH
Confidence            578999999999999     776 999999999999999865  599999998653         44555555433

>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=98.99  E-value=3.8e-10  Score=87.05  Aligned_cols=50  Identities=28%  Similarity=0.680  Sum_probs=41.0

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.+...  ...+.++|||.||..||..|+..+.  .||+||+.+.
T Consensus        13 ~~~~C~IC~~~~~~~--~~~~~~~C~H~fc~~Ci~~~~~~~~--~CP~Cr~~~~   62 (69)
T 2kiz_A           13 TEEKCTICLSILEEG--EDVRRLPCMHLFHQVCVDQWLITNK--KCPICRVDIE   62 (69)
T ss_dssp             CCCSBTTTTBCCCSS--SCEEECTTSCEEEHHHHHHHHHHCS--BCTTTCSBSC
T ss_pred             CCCCCeeCCccccCC--CcEEEeCCCCHHHHHHHHHHHHcCC--CCcCcCcccc
Confidence            457899999988643  2247789999999999999998654  7999999764

>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=98.98  E-value=3.2e-10  Score=83.45  Aligned_cols=50  Identities=28%  Similarity=0.634  Sum_probs=41.8

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +..|+||++.+.+. +...+.++|||.||..||..|+...  ..||+||+.+.
T Consensus         5 ~~~C~IC~~~~~~~-~~~~~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~   54 (55)
T 2ecm_A            5 SSGCPICLEDIHTS-RVVAHVLPCGHLLHRTCYEEMLKEG--YRCPLCSGPSS   54 (55)
T ss_dssp             CCSCTTTCCCCCTT-TSCEEECTTSCEEETTHHHHHHHHT--CCCTTSCCSSC
T ss_pred             CCcCcccChhhcCC-CcCeEecCCCCcccHHHHHHHHHcC--CcCCCCCCcCC
Confidence            56899999998763 3345889999999999999999866  59999998753

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

Probab=98.98  E-value=2e-10  Score=103.11  Aligned_cols=62  Identities=27%  Similarity=0.572  Sum_probs=49.4

Q ss_pred             CccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCcccccc------chhhhhhhccCCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG------QWLYSNGCRSFPE   98 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~------N~~L~nlve~~k~   98 (452)
                      +.+.|+||++.+.+|     +.+ +|||.||..||..|+... ...||+||+.+..      +..+.+++..+..
T Consensus        53 ~~~~C~IC~~~~~~p-----~~~~~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~  121 (165)
T 2ckl_B           53 SELMCPICLDMLKNT-----MTTKECLHRFCADCIITALRSG-NKECPTCRKKLVSKRSLRPDPNFDALISKIYP  121 (165)
T ss_dssp             HHHBCTTTSSBCSSE-----EEETTTCCEEEHHHHHHHHHTT-CCBCTTTCCBCCSGGGEEECHHHHHHHHHHC-
T ss_pred             CCCCCcccChHhhCc-----CEeCCCCChhHHHHHHHHHHhC-cCCCCCCCCcCCCcccCCcCHHHHHHHHHHHc
Confidence            678999999999998     665 999999999999999852 3589999998742      5666666665443

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

Probab=98.97  E-value=2.4e-10  Score=86.10  Aligned_cols=52  Identities=31%  Similarity=0.721  Sum_probs=43.0

Q ss_pred             cccccccccccccc--CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDN--GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP--~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++.|+||++.+.++  .....+.++|||.||..||..|++.+  ..||+||+.+..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~~   56 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--NTCPTCRKKINH   56 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC--SBCTTTCCBCTT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC--CCCCCCCccCCc
Confidence            57999999998875  23345788999999999999999864  499999997654

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

Probab=98.95  E-value=2.1e-10  Score=95.83  Aligned_cols=50  Identities=34%  Similarity=0.752  Sum_probs=43.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC-CCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK-GAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk-g~~~CPlCRk~~k~   85 (452)
                      +.+.|+||++.+.+|     +.++|||.||..||..|+..+ +...||+||+.+..
T Consensus        20 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           20 KILECPICLELIKEP-----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHTSCSSSCCCCSSC-----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCCCcccChhhcCe-----EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            468999999999999     789999999999999999854 34689999998654

>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=98.95  E-value=7.1e-10  Score=93.45  Aligned_cols=59  Identities=14%  Similarity=0.061  Sum_probs=49.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +++.|+||++.|.+|     ++++|||+||..||..|+...  .+||.|+..+..     |..+.++++.+
T Consensus        28 ~~~~CpI~~~~m~dP-----V~~~cGhtf~r~~I~~~l~~~--~~cP~~~~~l~~~~L~pn~~Lk~~I~~~   91 (100)
T 2kre_A           28 DEFRDPLMDTLMTDP-----VRLPSGTIMDRSIILRHLLNS--PTDPFNRQTLTESMLEPVPELKEQIQAW   91 (100)
T ss_dssp             TTTBCTTTCSBCSSE-----EEETTTEEEEHHHHHHHTTSC--SBCSSSCCBCCTTSSEECHHHHHHHHHH
T ss_pred             HhhCCcCccCcccCC-----eECCCCCEEchHHHHHHHHcC--CCCCCCCCCCChhhceECHHHHHHHHHH
Confidence            689999999999999     999999999999999999843  599999998753     66666666543

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

Probab=98.94  E-value=3.4e-10  Score=95.34  Aligned_cols=53  Identities=30%  Similarity=0.683  Sum_probs=41.1

Q ss_pred             ccccccccccccccC-------------CCcceecccCCcchHhHHHHHHhc---CCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNG-------------DRSWAKLQCGHQFHLDCIGSAFNS---KGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~-------------~~~ivlL~CGH~FC~~CI~swl~s---kg~~~CPlCRk~~k   84 (452)
                      +..|+||++.|.++.             ...+.+++|+|.||..||..|+..   .....||+||+.+.
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            468999999997652             123347899999999999999953   23469999999764

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

Probab=98.93  E-value=9.1e-10  Score=94.03  Aligned_cols=49  Identities=29%  Similarity=0.640  Sum_probs=43.8

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+.... ..||+||+.+..
T Consensus        17 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~   65 (118)
T 3hct_A           17 SKYECPICLMALREA-----VQTPCGHRFCKACIIKSIRDAG-HKCPVDNEILLE   65 (118)
T ss_dssp             GGGBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHHHHHC-SBCTTTCCBCCG
T ss_pred             CCCCCCcCChhhcCe-----EECCcCChhhHHHHHHHHhhCC-CCCCCCCCCcCH
Confidence            678999999999999     8899999999999999998654 389999998764

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

Probab=98.92  E-value=5e-10  Score=91.82  Aligned_cols=50  Identities=26%  Similarity=0.592  Sum_probs=40.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.+...  ...+.++|||.||..||..|+..+  ..||+||+.+.
T Consensus        39 ~~~~C~IC~~~~~~~--~~~~~l~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~   88 (91)
T 2l0b_A           39 QEMCCPICCSEYVKG--DVATELPCHHYFHKPCVSIWLQKS--GTCPVCRCMFP   88 (91)
T ss_dssp             SCSEETTTTEECCTT--CEEEEETTTEEEEHHHHHHHHTTT--CBCTTTCCBSS
T ss_pred             CCCCCcccChhhcCC--CcEEecCCCChHHHHHHHHHHHcC--CcCcCcCccCC
Confidence            567899999988763  123678999999999999999865  49999999754

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

Probab=98.92  E-value=4.1e-10  Score=106.60  Aligned_cols=60  Identities=15%  Similarity=0.154  Sum_probs=50.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +.+.|+||++.+.+|     ++++|||+||..||..|+...+ ..||+|+.++..     |..+.++++.+
T Consensus       207 ~~~~c~i~~~~~~dP-----v~~~~gh~f~~~~i~~~~~~~~-~~cP~~~~~~~~~~l~~n~~l~~~i~~~  271 (281)
T 2c2l_A          207 DYLCGKISFELMREP-----CITPSGITYDRKDIEEHLQRVG-HFNPVTRSPLTQEQLIPNLAMKEVIDAF  271 (281)
T ss_dssp             STTBCTTTCSBCSSE-----EECSSCCEEETTHHHHHHHHTC-SSCTTTCCCCCGGGCEECHHHHHHHHHH
T ss_pred             cccCCcCcCCHhcCC-----eECCCCCEECHHHHHHHHHHCC-CCCcCCCCCCchhcCcccHHHHHHHHHH
Confidence            679999999999999     9999999999999999998654 359999998763     66666666544

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

Probab=98.92  E-value=5e-10  Score=88.02  Aligned_cols=50  Identities=24%  Similarity=0.608  Sum_probs=41.8

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.+..+.  .++.++|+|.||..||..|++.+  ..||+||+.+.
T Consensus        22 ~~~~C~IC~~~~~~~~--~~~~l~C~H~fh~~Ci~~w~~~~--~~CP~Cr~~~~   71 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQ--LLRVLPCNHEFHAKCVDKWLKAN--RTCPICRADSG   71 (75)
T ss_dssp             SCCEETTTTEECCBTC--EEEEETTTEEEETTHHHHHHHHC--SSCTTTCCCCC
T ss_pred             CCCCCeECCcccCCCC--eEEEECCCCHhHHHHHHHHHHcC--CcCcCcCCcCC
Confidence            5678999999987662  34678999999999999999865  48999999764

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

Probab=98.92  E-value=4.4e-10  Score=82.86  Aligned_cols=49  Identities=35%  Similarity=0.763  Sum_probs=39.3

Q ss_pred             CccccccccccccccCCCcceecc-cCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQ-CGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~-CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ++..|+||++.+.+.. . .+.++ |||.||..||..|++.+  ..||+||+.+
T Consensus         4 ~~~~C~IC~~~~~~~~-~-~~~~~~C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~   53 (55)
T 1iym_A            4 DGVECAVCLAELEDGE-E-ARFLPRCGHGFHAECVDMWLGSH--STCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTS-C-CEECSSSCCEECTTHHHHTTTTC--CSCSSSCCCS
T ss_pred             CCCcCccCCccccCCC-c-eEECCCCCCcccHHHHHHHHHcC--CcCcCCCCEe
Confidence            3578999999987642 2 25565 99999999999999764  4899999865

>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=98.91  E-value=5.3e-11  Score=101.59  Aligned_cols=58  Identities=19%  Similarity=0.448  Sum_probs=48.5

Q ss_pred             CccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSFP   97 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~k   97 (452)
                      +++.|+||++.+.+|     +.+ +|||.||..||..|+.    ..||+||+.+..     |..+.++++.+.
T Consensus        21 ~~~~C~IC~~~~~~p-----v~~~~CgH~fC~~Ci~~~~~----~~CP~Cr~~~~~~~~~~n~~l~~l~~~~~   84 (117)
T 1jm7_B           21 KLLRCSRCTNILREP-----VCLGGCEHIFCSNCVSDCIG----TGCPVCYTPAWIQDLKINRQLDSMIQLCS   84 (117)
T ss_dssp             HTTSCSSSCSCCSSC-----BCCCSSSCCBCTTTGGGGTT----TBCSSSCCBCSCSSCCCCHHHHHHHHHHH
T ss_pred             hCCCCCCCChHhhCc-----cEeCCCCCHHHHHHHHHHhc----CCCcCCCCcCccccccccHHHHHHHHHHH
Confidence            679999999999999     788 9999999999999987    489999998753     666666665443

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

Probab=98.88  E-value=8.7e-10  Score=84.61  Aligned_cols=47  Identities=30%  Similarity=0.574  Sum_probs=40.6

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +..|+||++.+.++    .+.++|||.||..||..|+..+  ..||+||+.+.
T Consensus         5 ~~~C~IC~~~~~~~----~~~~~C~H~fc~~Ci~~~~~~~--~~CP~Cr~~~~   51 (68)
T 1chc_A            5 AERCPICLEDPSNY----SMALPCLHAFCYVCITRWIRQN--PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCCSC----EEETTTTEEESTTHHHHHHHHS--CSTTTTCCCCC
T ss_pred             CCCCeeCCccccCC----cEecCCCCeeHHHHHHHHHhCc--CcCcCCChhhH
Confidence            46899999998875    3788999999999999999865  49999999764

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

Probab=98.88  E-value=1e-09  Score=88.46  Aligned_cols=52  Identities=27%  Similarity=0.503  Sum_probs=39.4

Q ss_pred             Ccccccccccccccc----------CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDN----------GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP----------~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.|.++          ++..++++.|+|.||..||.+|+..+.  +||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~--~CP~CR~~~~   75 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNN--RCPLCQQDWV   75 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCC--BCTTTCCBCC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCC--CCCCcCCCcc
Confidence            455677887777542          233455667999999999999998664  9999999754

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

Probab=98.84  E-value=1.2e-09  Score=92.49  Aligned_cols=49  Identities=31%  Similarity=0.659  Sum_probs=43.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+...+ ..||+||+.+..
T Consensus        22 ~~~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~   70 (116)
T 1rmd_A           22 KSISCQICEHILADP-----VETSCKHLFCRICILRCLKVMG-SYCPSCRYPCFP   70 (116)
T ss_dssp             HHTBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHHHHTC-SBCTTTCCBCCG
T ss_pred             CCCCCCCCCcHhcCc-----EEcCCCCcccHHHHHHHHhHCc-CcCCCCCCCCCH
Confidence            678999999999999     8899999999999999998633 589999998754

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

Probab=98.81  E-value=8.4e-10  Score=85.32  Aligned_cols=46  Identities=30%  Similarity=0.654  Sum_probs=39.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +...|+||++.+.+      +.++|||.||..||..|+...  ..||+||+.+.
T Consensus        14 ~~~~C~IC~~~~~~------~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~   59 (70)
T 2ecn_A           14 DEEECCICMDGRAD------LILPCAHSFCQKCIDKWSDRH--RNCPICRLQMT   59 (70)
T ss_dssp             CCCCCSSSCCSCCS------EEETTTEEECHHHHHHSSCCC--SSCHHHHHCTT
T ss_pred             CCCCCeeCCcCccC------cccCCCCcccHHHHHHHHHCc--CcCCCcCCccc
Confidence            57899999998754      678999999999999998743  59999999764

>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=2.2e-09  Score=96.60  Aligned_cols=90  Identities=20%  Similarity=0.330  Sum_probs=61.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccCCCC---CCC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSFPEF---SMD  102 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~k~~---~~~  102 (452)
                      +++.|+||++.+.+|     +.++|||+||..||..|+..+. ..||+||..+..     +..+.+++..++..   ...
T Consensus        17 ~~~~C~IC~~~~~~p-----v~~~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~GC   90 (170)
T 3hcs_A           17 SKYECPICLMALREA-----VQTPCGHRFCKACIIKSIRDAG-HKCPVDNEILLENQLFPDNFAKREILSLMVKCPNEGC   90 (170)
T ss_dssp             GGGBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHHHHHC-SBCTTTCCBCCGGGCEECHHHHHHHHTSEEECCSTTC
T ss_pred             CCCCCCCCChhhcCc-----EECCCCCHHHHHHHHHHHHhCC-CCCCCCccCcchhhhhhhHHHHHHHhhcccCCCCCCC
Confidence            679999999999999     8899999999999999998643 489999998764     22333333322211   244


Q ss_pred             cccccccccccccCccCcccccCC
Q 039031          103 DWTHDEDLYDLSYSEMSFGVHWCP  126 (452)
Q Consensus       103 e~~~eEd~~d~e~sE~p~~~~~CP  126 (452)
                      .|......+.....+.++....||
T Consensus        91 ~~~~~~~~l~~H~~~C~~~~v~C~  114 (170)
T 3hcs_A           91 LHKMELRHLEDHQAHCEFALMDCP  114 (170)
T ss_dssp             CCEEEGGGHHHHHTTCTTSEEECT
T ss_pred             CceecHhHHHHHHhcCCceeeECC
Confidence            444433333333455566666676

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

Probab=98.79  E-value=2.2e-09  Score=91.12  Aligned_cols=53  Identities=32%  Similarity=0.737  Sum_probs=44.0

Q ss_pred             Ccccccccccccccc--CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDN--GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP--~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+.++  .....+.++|||.||..||.+|++.+.  .||+||+.+..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~--~CP~Cr~~~~~   60 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN--TCPTCRKKINH   60 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCS--BCTTTCCBCTT
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCC--CCCCCCCcCcc
Confidence            468999999999876  233458899999999999999998653  99999997654

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

Probab=98.78  E-value=5e-09  Score=84.72  Aligned_cols=53  Identities=26%  Similarity=0.493  Sum_probs=39.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +++.|+||++.+... +..+..++|||.||..||..++.. ....||+||+.+..
T Consensus        10 ~~~~CpICle~~~~~-d~~~~p~~CGH~fC~~Cl~~~~~~-~~~~CP~CR~~~~~   62 (78)
T 1e4u_A           10 DPVECPLCMEPLEID-DINFFPCTCGYQICRFCWHRIRTD-ENGLCPACRKPYPE   62 (78)
T ss_dssp             CCCBCTTTCCBCCTT-TTTCCSSTTSCCCCHHHHHHHTTS-SCSBCTTTCCBCSS
T ss_pred             cCCcCCccCccCccc-cccccccCCCCCcCHHHHHHHHhc-CCCCCCCCCCccCC
Confidence            578999999988532 222222359999999999998864 34699999998754

>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=98.77  E-value=3.1e-09  Score=104.24  Aligned_cols=61  Identities=18%  Similarity=0.373  Sum_probs=50.9

Q ss_pred             CccccccccccccccCCCccee-cccCCcchHhHHHHHHhcCCCCCCCC--Ccccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAK-LQCGHQFHLDCIGSAFNSKGAMQCPN--CRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivl-L~CGH~FC~~CI~swl~skg~~~CPl--CRk~~k~-----N~~L~nlve~~   96 (452)
                      .++.|+||++.|.+|     ++ +.|||.||..||..|+...+...||+  |++.+..     |..+.++++..
T Consensus       180 ~el~CPIcl~~f~DP-----Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lve~~  248 (267)
T 3htk_C          180 IELTCPITCKPYEAP-----LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRCKIA  248 (267)
T ss_dssp             CCSBCTTTSSBCSSE-----EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHHHHH
T ss_pred             eeeECcCccCcccCC-----eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHHHHH
Confidence            578999999999999     76 59999999999999998655578999  9997653     66777776543

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

Probab=98.77  E-value=2.9e-09  Score=99.03  Aligned_cols=60  Identities=15%  Similarity=0.149  Sum_probs=50.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +.+.|+||++.|.+|     ++++|||+||..||..|+...+. +||.|+.++..     |..+.++++.+
T Consensus       105 ~~f~CPI~~elm~DP-----V~~~~Ghtfer~~I~~~l~~~~~-tcP~t~~~l~~~~L~pN~~Lk~~Ie~~  169 (179)
T 2f42_A          105 DYLCGKISFELMREP-----CITPSGITYDRKDIEEHLQRVGH-FDPVTRSPLTQDQLIPNLAMKEVIDAF  169 (179)
T ss_dssp             GGGBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHHHHTCS-BCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             HhhcccCccccCCCC-----eECCCCCEECHHHHHHHHHhCCC-CCCCCcCCCChhhCcchHHHHHHHHHH
Confidence            679999999999999     99999999999999999986543 79999998753     66666666533

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

Probab=98.74  E-value=2.1e-09  Score=80.86  Aligned_cols=44  Identities=25%  Similarity=0.538  Sum_probs=38.3

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +.+.|+||++.+.+|     +.++|||.||..||..     ....||+||+.+.
T Consensus         5 ~~~~C~IC~~~~~~p-----~~l~CgH~fC~~Ci~~-----~~~~CP~Cr~~~~   48 (56)
T 1bor_A            5 QFLRCQQCQAEAKCP-----KLLPCLHTLCSGCLEA-----SGMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCC-----SCSTTSCCSBTTTCSS-----SSSSCSSCCSSSS
T ss_pred             cCCCceEeCCccCCe-----EEcCCCCcccHHHHcc-----CCCCCCcCCcEee
Confidence            468999999999999     8899999999999976     2358999999764

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

Probab=98.74  E-value=6e-09  Score=88.98  Aligned_cols=52  Identities=25%  Similarity=0.491  Sum_probs=41.7

Q ss_pred             Ccccccccccccccc-------------CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDN-------------GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP-------------~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|+||++.|.++             .+..++.++|+|.||..||..|+..+  .+||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~--~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR--QVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC--SBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC--CcCcCCCCcce
Confidence            456899999988754             12345778999999999999999865  48999999753

>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=98.72  E-value=1.8e-09  Score=95.99  Aligned_cols=47  Identities=26%  Similarity=0.592  Sum_probs=41.9

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      +++.|+||++.+.+|     +.++|||.||..||..|+... ...||+||+.+
T Consensus        30 ~~~~C~IC~~~~~~p-----v~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~   76 (141)
T 3knv_A           30 AKYLCSACRNVLRRP-----FQAQCGHRYCSFCLASILSSG-PQNCAACVHEG   76 (141)
T ss_dssp             GGGBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHGGGS-CEECHHHHHTT
T ss_pred             cCcCCCCCChhhcCc-----EECCCCCccCHHHHHHHHhcC-CCCCCCCCCcc
Confidence            678999999999999     889999999999999999744 35899999864

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

Probab=98.58  E-value=9.9e-09  Score=81.27  Aligned_cols=44  Identities=23%  Similarity=0.522  Sum_probs=39.2

Q ss_pred             CccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|+||++.+.++     +.++|||. ||..|+..|      ..||+||+.+..
T Consensus        23 ~~~~C~iC~~~~~~~-----~~~pCgH~~~C~~C~~~~------~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNIAI-----VFVPCGHLVTCKQCAEAV------DKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBCCE-----EEETTCCBCCCHHHHTTC------SBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCCCE-----EEcCCCChhHHHHhhhcC------ccCCCcCcCccC
Confidence            578999999999998     89999999 999999877      389999997653

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

Probab=98.55  E-value=3.1e-08  Score=83.95  Aligned_cols=54  Identities=31%  Similarity=0.716  Sum_probs=44.1

Q ss_pred             Ccccccccccccccc--CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           31 RTVSCSICLELVTDN--GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        31 edl~CpICLe~f~dP--~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      +...|+||++.+.++  .....+.++|||.||..||..|++..  ..||+||+.+..+
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA--NTCPTCRKKINHK  126 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC--SBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC--CCCCCCCCcCChh
Confidence            568899999998764  22344788999999999999999865  4999999987654

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

Probab=98.53  E-value=1e-08  Score=89.30  Aligned_cols=50  Identities=26%  Similarity=0.516  Sum_probs=0.4

Q ss_pred             cccccccccccccc-------------CCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           32 TVSCSICLELVTDN-------------GDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        32 dl~CpICLe~f~dP-------------~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      +..|+||++.|.++             .+..++.++|+|.||..||..|+..+  .+||+||+.+
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~--~~CP~Cr~~~  110 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR--QVCPLDNREW  110 (117)
T ss_dssp             C----------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC--CcCCCCCCee
Confidence            46899999998763             12234557999999999999999875  4899999974

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

Probab=98.52  E-value=6.6e-08  Score=75.92  Aligned_cols=44  Identities=25%  Similarity=0.597  Sum_probs=37.7

Q ss_pred             CccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|.||++...++     ++++|||. ||..|+..    .  ..||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~~-----v~~pCgH~~~C~~C~~~----~--~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNW-----VLLPCRHTCLCDGCVKY----F--QQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSCCCC-----EETTTTBCCSCTTHHHH----C--SSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCCCCE-----EEECCCChhhhHHHHhc----C--CCCCCCCcchhc
Confidence            578999999998887     99999999 99999973    1  489999997654

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

Probab=98.50  E-value=7.8e-08  Score=78.19  Aligned_cols=52  Identities=21%  Similarity=0.306  Sum_probs=41.7

Q ss_pred             CccccccccccccccCCCcceecccC-----CcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCG-----HQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CG-----H~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|.||++.+.+. +.  ++++|.     |.||..||.+|+..++...||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~-~~--l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           14 SQDICRICHCEGDDE-SP--LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             TSCCCSSSCCCCCSS-SC--EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCeEcCccccCC-Ce--eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            456899999987543 22  568996     99999999999997766799999997643

>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=98.50  E-value=5.1e-08  Score=100.24  Aligned_cols=48  Identities=35%  Similarity=0.575  Sum_probs=41.7

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ...|+||++.+.++     +.++|||.||..||..|+... ...||+||+.+..
T Consensus       332 ~~~C~ICle~~~~p-----v~lpCGH~FC~~Ci~~wl~~~-~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKDV-----KIEPCGHLMCTSCLTSWQESE-GQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCCE-----EEETTCCEECHHHHHHHHHHT-CSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCCe-----EEeCCCChhhHHHHHHHHhcC-CCCCCCCCCccCC
Confidence            36899999999998     999999999999999999832 3589999998754

>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=98.48  E-value=5.6e-08  Score=75.20  Aligned_cols=47  Identities=21%  Similarity=0.469  Sum_probs=39.7

Q ss_pred             CccccccccccccccCCCcceec--ccCCc-chHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKL--QCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL--~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ++..|.||++...+.     +.+  +|||. ||..|+..|++.+  ..||+||+.+.
T Consensus         7 ~~~~C~IC~~~~~~~-----~~~~~pCgH~~~C~~C~~~~~~~~--~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNG-----CIVHGKTGHLMACFTCAKKLKKRN--KPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCE-----EEEETTEEEEEECHHHHHHHHHTT--CCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCE-----EEECCCCCChhhHHHHHHHHHHcC--CcCCCcCcchh
Confidence            456899999988877     665  99999 8999999998754  48999999764

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

Probab=98.48  E-value=2e-08  Score=79.48  Aligned_cols=44  Identities=23%  Similarity=0.522  Sum_probs=37.8

Q ss_pred             CccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|+||++.+.++     +.++|||. ||..|+...      ..||+||+.+..
T Consensus        24 ~~~~C~IC~~~~~~~-----~~~pCgH~~~C~~C~~~~------~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAI-----VFVPCGHLVTCKQCAEAV------DKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCB-----CCSSSCCCCBCHHHHHHC------SBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCE-----EEecCCCHHHHHHHhhCC------CCCccCCceecC
Confidence            567899999999998     88999999 999999632      489999997654

>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=98.46  E-value=1.7e-08  Score=82.83  Aligned_cols=49  Identities=24%  Similarity=0.485  Sum_probs=38.3

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcC------CCCCCCC--Cccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK------GAMQCPN--CRKI   82 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk------g~~~CPl--CRk~   82 (452)
                      .+.|+||++.+..+.  .+.+++|||.||..||..++..+      ....||.  |+..
T Consensus         5 ~~~C~IC~~~~~~~~--~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQ--MTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             BCCCSSSCCCCBGGG--EEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CcCCcccCccccccc--ceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            578999999988761  11224799999999999998752      2368999  9998

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

Probab=98.46  E-value=1.6e-07  Score=75.75  Aligned_cols=50  Identities=28%  Similarity=0.667  Sum_probs=40.6

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ....|.||.+.+...    .....|+|.||..||.+||+.....+||+||+.+.
T Consensus        14 ~i~~C~IC~~~i~~g----~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           14 AVKICNICHSLLIQG----QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSCBCSSSCCBCSSS----EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCcCcchhhHcccC----CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            457899999998743    14449999999999999998765569999998653

>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=98.40  E-value=1.3e-07  Score=72.96  Aligned_cols=46  Identities=24%  Similarity=0.516  Sum_probs=38.9

Q ss_pred             ccccccccccccccCCCcceec--ccCCc-chHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKL--QCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL--~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +..|.||++...++     +++  +|||. ||..|+..|++..  ..||+||+.+.
T Consensus         7 ~~~C~IC~~~~~~~-----~~~~~pCgH~~~C~~C~~~~~~~~--~~CPiCR~~i~   55 (63)
T 2vje_B            7 LKPCSLCEKRPRDG-----NIIHGRTGHLVTCFHCARRLKKAG--ASCPICKKEIQ   55 (63)
T ss_dssp             GSBCTTTSSSBSCE-----EEEETTEEEEEECHHHHHHHHHTT--CBCTTTCCBCC
T ss_pred             CCCCcccCCcCCCe-----EEEecCCCCHhHHHHHHHHHHHhC--CcCCCcCchhh
Confidence            46899999988777     555  99998 9999999988754  48999999764

>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=98.24  E-value=3.8e-07  Score=70.46  Aligned_cols=47  Identities=11%  Similarity=0.084  Sum_probs=41.4

Q ss_pred             ccccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      .+.|+||++.+.+|     +++ .|||+|++.||.+|+..++  +||++++++..
T Consensus         3 ~~~CpIs~~~m~dP-----V~~~~sG~~yer~~I~~~l~~~~--~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRP-----VLSPKSRTIFEKSLLEQYVKDTG--NDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSE-----EEETTTTEEEEHHHHHHHHHHHS--BCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCC-----EEeCCCCcEEcHHHHHHHHHhCC--CCcCCcCCCCh
Confidence            47899999999999     888 9999999999999998664  69999997654

>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=98.22  E-value=1.9e-07  Score=75.22  Aligned_cols=44  Identities=25%  Similarity=0.595  Sum_probs=38.4

Q ss_pred             CccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|.||++.+.++     +.++|||. ||..|+..+      ..||+||+.+..
T Consensus        17 ~~~~C~IC~~~~~~~-----v~~pCgH~~~C~~C~~~~------~~CP~Cr~~i~~   61 (79)
T 2yho_A           17 EAMLCMVCCEEEINS-----TFCPCGHTVCCESCAAQL------QSCPVCRSRVEH   61 (79)
T ss_dssp             HHTBCTTTSSSBCCE-----EEETTCBCCBCHHHHTTC------SBCTTTCCBCCE
T ss_pred             CCCEeEEeCcccCcE-----EEECCCCHHHHHHHHHhc------CcCCCCCchhhC
Confidence            567899999999888     99999999 999999754      289999998754

>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=98.14  E-value=4e-07  Score=92.12  Aligned_cols=44  Identities=32%  Similarity=0.758  Sum_probs=39.3

Q ss_pred             CccccccccccccccCCCcceecccCCc-chHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQ-FHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~-FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|+||++.+.++     +.++|||. ||..|+..|      ..||+||+.+..
T Consensus       294 ~~~~C~IC~~~~~~~-----v~lpCgH~~fC~~C~~~~------~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVSV-----VFIPCGHLVVCQECAPSL------RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCCE-----EEETTCCEEECTTTGGGC------SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCce-----EEcCCCChhHhHHHHhcC------CcCCCCCCCccC
Confidence            578999999999999     99999999 999999876      389999998654

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

Probab=97.78  E-value=1.2e-05  Score=61.94  Aligned_cols=48  Identities=21%  Similarity=0.472  Sum_probs=37.8

Q ss_pred             ccccccccccccccCCCcceecccC--C---cchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCG--H---QFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CG--H---~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ...|.||++...++     .+++|.  +   .||..||.+|+..++...||+|+..+.
T Consensus         6 ~~~CrIC~~~~~~~-----l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            6 VPVCWICNEELGNE-----RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTEECSCC-----CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCEeEEeecCCCCc-----eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            46899999874443     457764  4   899999999998766679999998753

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

Probab=97.78  E-value=6.1e-06  Score=84.05  Aligned_cols=55  Identities=25%  Similarity=0.536  Sum_probs=40.8

Q ss_pred             CccccccccccccccCC---CcceecccCCcchHhHHHHHHhcCCC---------CCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGD---RSWAKLQCGHQFHLDCIGSAFNSKGA---------MQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~---~~ivlL~CGH~FC~~CI~swl~skg~---------~~CPlCRk~~k~   85 (452)
                      +...|+||++.+.+.+.   +......|+|.||..||.+|++....         ..||+||+++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            46789999998776222   22234689999999999999975311         379999998654

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

Probab=97.39  E-value=9.5e-05  Score=63.07  Aligned_cols=46  Identities=22%  Similarity=0.400  Sum_probs=37.3

Q ss_pred             ccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        34 ~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      .|.+|...+..-    ..+++|.|.||++|+..|.+.+. ..||.|+..+.
T Consensus         3 fC~~C~~Pi~iy----gRmIPCkHvFCydCa~~~~~~~~-k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKVY----GRMIPCKHVFCYDCAILHEKKGD-KMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSEE----EEEETTCCEEEHHHHHHHHHTTC-CBCTTTCCBCS
T ss_pred             ecCccCCCeEEE----eeeccccccHHHHHHHHHHhccC-CCCcCcCCeee
Confidence            588998887654    37899999999999999876433 49999999754

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

Probab=96.60  E-value=0.0011  Score=63.75  Aligned_cols=49  Identities=29%  Similarity=0.685  Sum_probs=39.7

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ...|.||.+.+...    .....|++.||..|+..|++..+...||.|+..+.
T Consensus       180 i~~C~iC~~iv~~g----~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          180 VKICNICHSLLIQG----QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             CCBCTTTCSBCSSC----EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCcCcchhhHHhCC----cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            46799999987744    24556999999999999998766679999988653

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

Probab=94.16  E-value=0.021  Score=46.76  Aligned_cols=34  Identities=21%  Similarity=0.536  Sum_probs=27.1

Q ss_pred             Ccccccccccc-ccccCCCccee--cccCCcchHhHHHHHHh
Q 039031           31 RTVSCSICLEL-VTDNGDRSWAK--LQCGHQFHLDCIGSAFN   69 (452)
Q Consensus        31 edl~CpICLe~-f~dP~~~~ivl--L~CGH~FC~~CI~swl~   69 (452)
                      +++.|.||.+. +.++     +.  +.|+|.||..|+..+..
T Consensus         2 ee~~C~~C~~~~~~~a-----v~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDA-----VKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBC-----CEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCc-----eEECCcCChHHhHHHCHHHhc
Confidence            46899999975 5555     44  99999999999997443

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=91.30  E-value=0.18  Score=41.63  Aligned_cols=46  Identities=30%  Similarity=0.762  Sum_probs=34.9

Q ss_pred             CccccccccccccccCCCcceeccc----CCcchHhHHHHHHhcC---CCCCCCCCcc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQC----GHQFHLDCIGSAFNSK---GAMQCPNCRK   81 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~C----GH~FC~~CI~swl~sk---g~~~CPlCRk   81 (452)
                      ..+.|.+|.+.+++-     -..+|    .|.||+.|-...++.+   ...-||.=.+
T Consensus        14 a~l~CtlC~erLEdt-----HFVQCPsv~~HkFCFpCsr~sIk~q~~~~EvyCPSG~k   66 (93)
T 2cs3_A           14 GPLCCTICHERLEDT-----HFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSGEK   66 (93)
T ss_dssp             CSCCCSSSCSCCSST-----TSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTTSSC
T ss_pred             CeeEeecchhhhccC-----ceeeCCCccCCeeeccccHHHHHhcCCCCcEECCCCCc
Confidence            568999999999887     45556    8999999999888753   3356775433

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=87.01  E-value=0.75  Score=47.12  Aligned_cols=51  Identities=18%  Similarity=0.255  Sum_probs=38.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhH--HHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDC--IGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~C--I~swl~skg~~~CPlCRk~~k~   85 (452)
                      -.+.|+|-+..+..|    .....|.|.-|++-  +..+........||+|.+.+..
T Consensus       248 vSL~CPlS~~ri~~P----vRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~  300 (371)
T 3i2d_A          248 MSLQCPISYTRMKYP----SKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIAL  300 (371)
T ss_dssp             EESBCTTTSSBCSSE----EEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCG
T ss_pred             EeecCCCcccccccc----CcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCH
Confidence            468999999999888    46678999966665  3444444567999999998654

>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=84.51  E-value=0.67  Score=52.68  Aligned_cols=57  Identities=12%  Similarity=-0.023  Sum_probs=46.8

Q ss_pred             CccccccccccccccCCCcceecccC-CcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCG-HQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCR   94 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CG-H~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve   94 (452)
                      +.+.|+|-++.+.+|     ++++.| ++|-+.+|.+|+...  .+||.-|.+++.     |..+...++
T Consensus       890 ~~F~cPIs~~lM~DP-----VilpsG~~TydR~~I~~wl~~~--~tdP~Tr~~L~~~~liPN~~Lk~~I~  952 (968)
T 3m62_A          890 DEFLDPLMYTIMKDP-----VILPASKMNIDRSTIKAHLLSD--STDPFNRMPLKLEDVTPNEELRQKIL  952 (968)
T ss_dssp             GGGBCTTTCSBCSSE-----EECTTTCCEEEHHHHHHHHTTC--CBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             HHhCCcchhhHHhCC-----eEcCCCCEEECHHHHHHHHhcC--CCCCCCCCCCCcccccccHHHHHHHH
Confidence            679999999999999     999998 699999999999864  489999887653     555555443

>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=84.14  E-value=1  Score=45.98  Aligned_cols=51  Identities=20%  Similarity=0.264  Sum_probs=38.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhH--HHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDC--IGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~C--I~swl~skg~~~CPlCRk~~k~   85 (452)
                      -.+.|+|-+..+..|    .....|.|.-|++-  +..+........||+|.+.+..
T Consensus       214 vSL~CPlS~~ri~~P----~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~  266 (360)
T 4fo9_A          214 VSLMCPLGKMRLTIP----CRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAY  266 (360)
T ss_dssp             EESBCTTTCSBCSSE----EEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCG
T ss_pred             EeeeCCCccceeccC----CcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCH
Confidence            368899999999888    46678999966554  3333344567999999998653

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

Probab=82.22  E-value=0.83  Score=35.62  Aligned_cols=47  Identities=21%  Similarity=0.432  Sum_probs=34.2

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhc--CCCCCCCCCccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS--KGAMQCPNCRKI   82 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~s--kg~~~CPlCRk~   82 (452)
                      ....|.||.+.     ..++.--.|...||..|+...+..  .+...|+.|+..
T Consensus        11 ~~~~C~vC~~~-----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG-----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC-----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC-----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            35679999752     234456689999999999766554  355899999763

---

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	452
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	4e-09
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-09
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-08
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-08
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	7e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	9e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-07
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	7e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-04
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	6e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.001

>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 = 50.2 bits (119), Expect = 4e-09
 Identities = 9/47 (19%), Positives = 14/47 (29%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C IC E + +   R+          H  C+ +         C  C  
Sbjct: 9  CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>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 = 50.5 bits (120), Expect = 5e-09
 Identities = 13/49 (26%), Positives = 15/49 (30%), Gaps = 1/49 (2%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKI 82
           C  C      N         CGH     C+   F  +GA  CP C   
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFV-RGAGNCPECGTP 52

>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 = 48.7 bits (116), Expect = 1e-08
 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C++CL  + D G+ +    +CGH FH +C+     S     CP CR 
Sbjct: 8  CAVCLAELED-GEEARFLPRCGHGFHAECVDMWLGSHS--TCPLCRL 51

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.6 bits (113), Expect = 4e-08
 Identities = 12/52 (23%), Positives = 16/52 (30%), Gaps = 10/52 (19%)

Query: 30 FRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          F+ + C  C              L C H     C+         MQCP C+ 
Sbjct: 4  FQFLRCQQCQAEAKCP-----KLLPCLHTLCSGCL-----EASGMQCPICQA 45

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 47.6 bits (113), Expect = 4e-08
 Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 6/47 (12%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C ICLE  ++        L C H F   CI           CP C+ 
Sbjct: 8  CPICLEDPSNY----SMALPCLHAFCYVCITRWIRQNP--TCPLCKV 48

>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 = 47.3 bits (112), Expect = 7e-08
 Identities = 16/47 (34%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C IC E   D          CGH     C+ S   S+G   CP CR 
Sbjct: 26 CKICAENDKD-----VKIEPCGHLMCTSCLTSWQESEGQ-GCPFCRC 66

>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 = 47.8 bits (113), Expect = 9e-08
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 6/49 (12%)

Query: 34 SCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNS-KGAMQCPNCRK 81
           C ICLEL+ +         +C H F   C+    N  KG  QCP C+ 
Sbjct: 23 ECPICLELIKE-----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKN 66

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 2e-07
 Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          V C +C+E + +  D ++    CG+Q    C       +    CP CRK
Sbjct: 1  VECPLCMEPL-EIDDINFFPCTCGYQICRFCWHRIRTDEN-GLCPACRK 47

>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 = 45.3 bits (107), Expect = 5e-07
 Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 6/49 (12%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          +SC IC  ++ D       +  C H F   CI       G+  CP+CR 
Sbjct: 24 ISCQICEHILADP-----VETSCKHLFCRICILRCLKVMGS-YCPSCRY 66

>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 = 39.3 bits (91), Expect = 7e-05
 Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 15/61 (24%)

Query: 34 SCSICLELVTD-------------NGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCR 80
          +C+IC   + D             + + + A   C H FH  CI     ++    CP   
Sbjct: 23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR--QVCPLDN 80

Query: 81 K 81
          +
Sbjct: 81 R 81

>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 = 39.2 bits (90), Expect = 1e-04
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 16/65 (24%)

Query: 34 SCSICLELVTD-------------NGDRSWAKLQCGHQFHLDCIGSAFNSK---GAMQCP 77
           C IC+E +                        +C H FHL C+ + + +    G++QCP
Sbjct: 27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 78 NCRKI 82
          +C+ I
Sbjct: 87 SCKTI 91

>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 = 38.6 bits (89), Expect = 1e-04
 Identities = 13/59 (22%), Positives = 19/59 (32%), Gaps = 8/59 (13%)

Query: 33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQWLYSN 91
          + CS C  ++ +          C H F  +C+           CP C      Q L  N
Sbjct: 23 LRCSRCTNILREP----VCLGGCEHIFCSNCVSDCIG----TGCPVCYTPAWIQDLKIN 73

>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 = 36.6 bits (84), Expect = 6e-04
 Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 8/55 (14%)

Query: 32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK------GAMQCPNCR 80
          +  C +CL       ++     QC   F   C+              A+ CP+  
Sbjct: 5  SSGCKLCLGEYPV--EQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.7 bits (79), Expect = 0.001
 Identities = 4/47 (8%), Positives = 9/47 (19%), Gaps = 6/47 (12%)

Query: 35 CSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRK 81
          C+I  ++                 F    +            P   +
Sbjct: 3  CAISGKVPRRPVLSPK----SRTIFEKSLLEQYVKDT--GNDPITNE 43

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	452
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.13
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.12
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.11
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.1
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.05
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.05
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.03
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.02
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.99
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.95
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.92
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.87
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.87
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.85
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.73
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.63
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.92
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	86.57
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	84.05
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	83.58

>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=99.13  E-value=1.4e-11  Score=97.55  Aligned_cols=60  Identities=15%  Similarity=0.154  Sum_probs=51.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +++.|+||++.|.+|     ++++|||+||..||..|+...+ ..||.|+..+..     |..+.++++.+
T Consensus         6 ~~l~CpIc~~l~~dP-----v~~~cGhtfc~~ci~~~l~~~~-~~cP~c~~~l~~~~l~pN~~L~~~I~~~   70 (80)
T d2c2la2           6 DYLCGKISFELMREP-----CITPSGITYDRKDIEEHLQRVG-HFNPVTRSPLTQEQLIPNLAMKEVIDAF   70 (80)
T ss_dssp             STTBCTTTCSBCSSE-----EECSSCCEEETTHHHHHHHHTC-SSCTTTCCCCCGGGCEECHHHHHHHHHH
T ss_pred             ccccCcCcCchhhhh-----cccCCcCeecHHHHHHHHhcCC-ccCCCccccccccccccHHHHHHHHHHH
Confidence            689999999999999     9999999999999999998544 489999998753     66777776654

>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=99.12  E-value=1.8e-11  Score=93.81  Aligned_cols=54  Identities=20%  Similarity=0.415  Sum_probs=43.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++..|+||++.+..+.+...++++|||.||..||..|+.... ..||+||++++.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA-GNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS-SSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCc-CCCCCCCcCccc
Confidence            568999999986655455567789999999999999997543 479999998754

>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=99.11  E-value=8.8e-12  Score=102.93  Aligned_cols=49  Identities=35%  Similarity=0.775  Sum_probs=43.0

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcC-CCCCCCCCccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK-GAMQCPNCRKIEK   84 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk-g~~~CPlCRk~~k   84 (452)
                      +.+.|+||++.+.+|     ++++|||.||..||..|+... +...||+||+.+.
T Consensus        20 ~~l~CpIC~~~~~~p-----v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          20 KILECPICLELIKEP-----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HHTSCSSSCCCCSSC-----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             cCcCCCccCchhCCe-----EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            458899999999999     889999999999999999764 3468999999864

>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=99.10  E-value=1e-11  Score=97.69  Aligned_cols=59  Identities=17%  Similarity=0.334  Sum_probs=49.7

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhcc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRS   95 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~   95 (452)
                      +++.|+||++.|.+|     ++++|||+||..||..|++... ..||.|+..+..     |..+.++++.
T Consensus         7 ~~l~CpIc~~~m~dP-----V~~~cgh~fc~~ci~~~~~~~~-~~cP~~~~~l~~~~l~pN~~L~~~I~~   70 (78)
T d1t1ha_           7 EYFRCPISLELMKDP-----VIVSTGQTYERSSIQKWLDAGH-KTCPKSQETLLHAGLTPNYVLKSLIAL   70 (78)
T ss_dssp             SSSSCTTTSCCCSSE-----EEETTTEEEEHHHHHHHHTTTC-CBCTTTCCBCSSCCCEECTTTHHHHHH
T ss_pred             ccCCCcCcCchhhCc-----eEccCCCcchHHHHHHHHHHCC-CCCCcccccCCcccccchHHHHHHHHH
Confidence            679999999999999     8999999999999999998543 479999998653     6666666653

>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=99.05  E-value=2.9e-11  Score=98.22  Aligned_cols=49  Identities=31%  Similarity=0.659  Sum_probs=43.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      +.+.|+||++.+.+|     ++++|||.||..||..|++.++ ..||+||.++..
T Consensus        22 ~~l~C~IC~~~~~~p-----v~~~CgH~FC~~Ci~~~~~~~~-~~CP~Cr~p~~~   70 (86)
T d1rmda2          22 KSISCQICEHILADP-----VETSCKHLFCRICILRCLKVMG-SYCPSCRYPCFP   70 (86)
T ss_dssp             HHTBCTTTCSBCSSE-----EECTTSCEEEHHHHHHHHHHTC-SBCTTTCCBCCG
T ss_pred             cCcCCccCCcchhcc-----eecCCCChhhHHHHHHHHhhCC-CcCcccCCCCCh
Confidence            568999999999999     9999999999999999997554 489999998653

>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=99.05  E-value=3e-11  Score=90.15  Aligned_cols=50  Identities=32%  Similarity=0.769  Sum_probs=40.5

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~   83 (452)
                      ++..|+||++.|.+. +...++..|+|.||..||.+|++.++  .||+||+.+
T Consensus         4 d~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~Wl~~~~--~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELEDG-EEARFLPRCGHGFHAECVDMWLGSHS--TCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTT-SCCEECSSSCCEECTTHHHHTTTTCC--SCSSSCCCS
T ss_pred             CCCCCeEECccccCC-CEEEEeCCCCCcccHHHHHHHHHhCC--cCCCCCCEe
Confidence            346899999999875 34344557999999999999998654  899999864

>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=99.03  E-value=4.3e-11  Score=88.09  Aligned_cols=50  Identities=28%  Similarity=0.547  Sum_probs=40.5

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      +.|+||++.|... +..+..++|||.||..||..|++..+ ..||+||+++.
T Consensus         1 leCpICl~~~~~~-~~~~~~~~CgH~~c~~C~~~w~~~~~-~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEID-DINFFPCTCGYQICRFCWHRIRTDEN-GLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGG-GTTCCSSSSSCCCCHHHHHHHTTTSC-CBCTTTCCBCS
T ss_pred             CCCcCCChhhhCC-CceEEecCCCCccchHHHHHHHhhcC-CCCCccCCcCC
Confidence            4799999998755 33445679999999999999998543 47999999864

>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=99.02  E-value=7.2e-11  Score=93.74  Aligned_cols=47  Identities=38%  Similarity=0.646  Sum_probs=41.1

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ..|+||++.+.++     ++++|||.||..||..|+..+. ..||+||+.++.
T Consensus        24 ~~C~IC~~~~~~~-----~~~~CgH~fC~~Ci~~wl~~~~-~~CP~Cr~~i~~   70 (79)
T d1fbva4          24 QLCKICAENDKDV-----KIEPCGHLMCTSCLTSWQESEG-QGCPFCRCEIKG   70 (79)
T ss_dssp             TBCTTTSSSBCCE-----ECSSSCCEECHHHHHHHHHTTC-CSCTTTCCCCCC
T ss_pred             CCCccCCCcCCCe-----EEeCCCCeeeHHHHHHHHHHCc-CcCCCCCcCccC
Confidence            4699999999998     8999999999999999997543 479999998754

>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=98.99  E-value=8e-11  Score=90.68  Aligned_cols=46  Identities=30%  Similarity=0.588  Sum_probs=39.3

Q ss_pred             cccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ..|+||++.+.++    .+.++|||.||..||.+|++.+.  .||+||+.+.
T Consensus         6 d~C~IC~~~~~~~----~~~~~C~H~Fc~~Ci~~w~~~~~--~CP~CR~~i~   51 (68)
T d1chca_           6 ERCPICLEDPSNY----SMALPCLHAFCYVCITRWIRQNP--TCPLCKVPVE   51 (68)
T ss_dssp             CCCSSCCSCCCSC----EEETTTTEEESTTHHHHHHHHSC--STTTTCCCCC
T ss_pred             CCCccCCcCccCC----cEEeCCCCcCcHHHHHHHHHhCC--cCCCCCcchH
Confidence            4799999998766    36789999999999999998754  8999999653

>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=98.95  E-value=1.2e-10  Score=86.75  Aligned_cols=47  Identities=11%  Similarity=0.098  Sum_probs=41.1

Q ss_pred             cccccccccccccCCCcceec-ccCCcchHhHHHHHHhcCCCCCCCCCccccccc
Q 039031           33 VSCSICLELVTDNGDRSWAKL-QCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKGQ   86 (452)
Q Consensus        33 l~CpICLe~f~dP~~~~ivlL-~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~N   86 (452)
                      +.|+||++.+.+|     +.+ .|||.||.+||.+|++.++  +||+||+++..+
T Consensus         1 l~C~Ic~~~~~~P-----v~~~~cGh~fc~~cI~~~l~~~~--~CP~c~~~l~~~   48 (56)
T d2baya1           1 MLCAISGKVPRRP-----VLSPKSRTIFEKSLLEQYVKDTG--NDPITNEPLSIE   48 (56)
T ss_dssp             CCCTTTCSCCSSE-----EEETTTTEEEEHHHHHHHHHHHS--BCTTTCCBCCGG
T ss_pred             CCCccCCchHHhc-----CccCCCCCcccHHHHHHHHhhcc--CCCccCCcCCHH
Confidence            4799999999999     766 6999999999999999765  899999986543

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=6.2e-11  Score=96.73  Aligned_cols=57  Identities=18%  Similarity=0.416  Sum_probs=45.8

Q ss_pred             CccccccccccccccCCCccee-cccCCcchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhccC
Q 039031           31 RTVSCSICLELVTDNGDRSWAK-LQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRSF   96 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivl-L~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~~   96 (452)
                      +.+.|+||++.|.+|     +. ..|||.||..||..|+..    .||.||..+..     |..+.++++.+
T Consensus        21 ~~l~C~IC~~~~~~p-----v~~~~CgH~fC~~Ci~~~~~~----~CP~Cr~~~~~~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          21 KLLRCSRCTNILREP-----VCLGGCEHIFCSNCVSDCIGT----GCPVCYTPAWIQDLKINRQLDSMIQLC   83 (97)
T ss_dssp             HTTSCSSSCSCCSSC-----BCCCSSSCCBCTTTGGGGTTT----BCSSSCCBCSCSSCCCCHHHHHHHHHH
T ss_pred             hcCCCccCCchhhcC-----ceeCCCCCchhHHHHHHHHhc----cccccCCcCchhhCcccHHHHHHHHHH
Confidence            678999999999999     65 489999999999999852    69999987542     56666666544

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.87  E-value=5.1e-10  Score=93.18  Aligned_cols=53  Identities=30%  Similarity=0.674  Sum_probs=41.2

Q ss_pred             CccccccccccccccC-------------CCcceecccCCcchHhHHHHHHhcC---CCCCCCCCcccc
Q 039031           31 RTVSCSICLELVTDNG-------------DRSWAKLQCGHQFHLDCIGSAFNSK---GAMQCPNCRKIE   83 (452)
Q Consensus        31 edl~CpICLe~f~dP~-------------~~~ivlL~CGH~FC~~CI~swl~sk---g~~~CPlCRk~~   83 (452)
                      .+..|+||++.|..+.             +..+.+++|||.||..||..|++.+   +..+||+||+++
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            3567999999876431             2345678999999999999999854   235899999975

>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=98.87  E-value=5.7e-10  Score=91.90  Aligned_cols=58  Identities=14%  Similarity=0.005  Sum_probs=48.1

Q ss_pred             CccccccccccccccCCCcceecccCC-cchHhHHHHHHhcCCCCCCCCCcccccc-----chhhhhhhcc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGH-QFHLDCIGSAFNSKGAMQCPNCRKIEKG-----QWLYSNGCRS   95 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH-~FC~~CI~swl~skg~~~CPlCRk~~k~-----N~~L~nlve~   95 (452)
                      +++.|+||++.|.+|     |+++|+| +||..||..|+..++  .||+|++.+..     |..|.+.++.
T Consensus        21 ~~f~CPI~~~lm~dP-----V~~~~~~~ty~r~~I~~~l~~~~--~~P~~~~~l~~~~L~pN~~Lr~~I~~   84 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP-----VVLPSSRVTVDRSTIARHLLSDQ--TDPFNRSPLTMDQIRPNTELKEKIQR   84 (98)
T ss_dssp             TTTBCTTTCSBCSSE-----EECTTTCCEEEHHHHHHHTTTSC--BCTTTCSBCCTTTSEECHHHHHHHHH
T ss_pred             HHhCCcCchhHHHHH-----HhcccccchhhHHHHHHHHHhcC--CcccccccccchhhcchHHHHHHHHH
Confidence            689999999999999     8898765 899999999998654  89999998764     6666666543

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=1.6e-10  Score=86.59  Aligned_cols=46  Identities=26%  Similarity=0.538  Sum_probs=39.0

Q ss_pred             cCccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCcccccc
Q 039031           30 FRTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEKG   85 (452)
Q Consensus        30 ledl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k~   85 (452)
                      ++.+.|+||++.+.+|     ++++|||.||..||..|     ...||+||+.+..
T Consensus         4 ~~~l~C~IC~~~~~~p-----~~lpCgH~fC~~Ci~~~-----~~~CP~Cr~~~~~   49 (56)
T d1bora_           4 FQFLRCQQCQAEAKCP-----KLLPCLHTLCSGCLEAS-----GMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCC-----SCSTTSCCSBTTTCSSS-----SSSCSSCCSSSSC
T ss_pred             cCCCCCcccCcccCCC-----EEecCCCHHhHHHHHcC-----CCcCcCCCCcccC
Confidence            3568999999999999     88999999999999643     3589999997653

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=3.6e-09  Score=85.07  Aligned_cols=50  Identities=26%  Similarity=0.516  Sum_probs=38.8

Q ss_pred             cccccccccccccC-------------CCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           33 VSCSICLELVTDNG-------------DRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        33 l~CpICLe~f~dP~-------------~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ..|+||++.+.++.             ...++.++|||.||..||..|++.++  +||+||+.+.
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~--~CP~CR~~~~   84 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ--VCPLDNREWE   84 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCS--BCSSSCSBCC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCC--cCCCCCCccc
Confidence            45888887765431             12357789999999999999999764  8999999764

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.63  E-value=7e-09  Score=77.60  Aligned_cols=53  Identities=17%  Similarity=0.285  Sum_probs=40.0

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcCCCCCCCCCccccc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSKGAMQCPNCRKIEK   84 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~skg~~~CPlCRk~~k   84 (452)
                      ...|.||++.+.++.........|+|.||..||..|+..++..+||+||+.++
T Consensus         6 ~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           6 VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            46899999988766211122334569999999999998766679999999764

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=1.6e-06  Score=69.10  Aligned_cols=48  Identities=21%  Similarity=0.410  Sum_probs=35.7

Q ss_pred             ccccccccccccccCCCcceecccCCcchHhHHHHHHhcC------CCCCCCCCcc
Q 039031           32 TVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGSAFNSK------GAMQCPNCRK   81 (452)
Q Consensus        32 dl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~swl~sk------g~~~CPlCRk   81 (452)
                      ...|+||++.+...  ....++.|+|.||..||..|++.+      ..+.||.|+.
T Consensus         5 ~~~C~IC~~~~~~~--~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           5 SSGCKLCLGEYPVE--QMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             BCCCSSSCCCCBGG--GEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCcCccCCCcccCC--ceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            46899999987543  122566899999999999999742      2357998654

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.57  E-value=0.2  Score=38.50  Aligned_cols=46  Identities=30%  Similarity=0.762  Sum_probs=34.8

Q ss_pred             CccccccccccccccCCCcceeccc----CCcchHhHHHHHHhcC---CCCCCCCCcc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQC----GHQFHLDCIGSAFNSK---GAMQCPNCRK   81 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~C----GH~FC~~CI~swl~sk---g~~~CPlCRk   81 (452)
                      ..+.|.||.+.+++-     -..+|    +|.||..|-...++.+   +..-||.-.+
T Consensus         7 ~~l~CtlC~erLEdt-----HFVQCPsv~~HkFCFpCsr~sik~q~~~~evyCPSG~k   59 (80)
T d2cs3a1           7 GPLCCTICHERLEDT-----HFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSGEK   59 (80)
T ss_dssp             CSCCCSSSCSCCSST-----TSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTTSSC
T ss_pred             CceeeeeehhhhcCC-----ceEeCCCCcCCceeccccHHHHHhcCCCCcEECCCCCc
Confidence            358999999999887     45556    8999999999888753   3456775443

>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=84.05  E-value=0.1  Score=40.22  Aligned_cols=51  Identities=20%  Similarity=0.587  Sum_probs=33.4

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHH-----HHhc-CCCCCCCCCcc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGS-----AFNS-KGAMQCPNCRK   81 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~s-----wl~s-kg~~~CPlCRk   81 (452)
                      ..+.|.||...........+.--.|...||..|+..     .... .....|+.|..
T Consensus        15 ~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~   71 (88)
T d1weva_          15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             CcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCc
Confidence            467899998754433233344557899999999752     1221 23578999965

>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=83.58  E-value=0.85  Score=34.36  Aligned_cols=50  Identities=24%  Similarity=0.498  Sum_probs=32.1

Q ss_pred             CccccccccccccccCCCcceecccCCcchHhHHHH---HHhcCCCCCCCCCccc
Q 039031           31 RTVSCSICLELVTDNGDRSWAKLQCGHQFHLDCIGS---AFNSKGAMQCPNCRKI   82 (452)
Q Consensus        31 edl~CpICLe~f~dP~~~~ivlL~CGH~FC~~CI~s---wl~skg~~~CPlCRk~   82 (452)
                      ..+.| ||....... +.-+.--.|.-.||..|+.-   -......+.||.|+..
T Consensus        11 ~pv~C-iC~~~~~~~-~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          11 VPVYC-LCRQPYNVN-HFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCCCS-TTSCSCCSS-SCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             CCeEe-ECCCccCCC-CcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            34667 998764322 22234557899999999942   2222245899999874