Citrus Sinensis ID: 045854

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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--
Protein Sequence
MENKDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPVIPYLHIFDEDSDGTD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccEEccccccccHHHHHHHHHHHHccccccccccccccccccccEEEEcccccccccccccccccccccccccHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccHHHHHHHcccccccccccccccccccccccccccccEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccEEcccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccEEEEEEccccccEEEEccccccccccccccEEEEEEEEcccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHccccccccEEEcccccccccccccEEEEEEEcccccccc
Coil and Loop (DISEMBL)
menkdqsggssscssenpnpcpiclgpvvedsyldkcfhkfcYNCIVHWTKVVASKHSsllssvkcplcktenvsiihgydgtyfqrNYISQIFGDSFFFSKAHRYRLqsyytepgilndvfnVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNkqrcqmgtpetkeEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRlgwntprvtmesgegetsgqtpvipylhifdedsdgtd
Flexible Loop (DISEMBL)
menkdqsggssscssenpnPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSyytepgilnDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQmgtpetkeedfKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESgegetsgqtpvipylhifdedsdgtd
Low Complexity Region (SEG)
MENKDQsggssscssENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPVIPYLHIFDEDSDGTD
Disordered region (IsUnstruct)
********************CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRN****************KALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRV***************IPYL***********
Disordered Region (DISOPRED)
*********************PICLGPVVEDSYLDKCFHKFCYNCIVHWT**************KCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFF***AHRYRLQSYYTEPGILND*******************LQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLK***************EDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYM****************************LHIF*E******
Disordered Region (DISEMBL)
*****************PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVT*********GQTPVIPYLHIFDEDSDGTD
Disordered Region (DISPRO)
******************NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSS**SSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPVIPYLHIFDED*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MENKDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPVIPYLHIFDEDSDGTD
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	272	2.2.26 [Sep-21-2011]
Q9NS56	1045	E3 ubiquitin-protein liga	yes	no	0.305	0.079	0.333	1e-08
Q80Z37	1033	E3 ubiquitin-protein liga	yes	no	0.305	0.080	0.340	2e-08
P29129	410	E3 ubiquitin-protein liga	no	no	0.187	0.124	0.393	1e-06
Q9V8P9	1038	E3 ubiquitin-protein liga	yes	no	0.231	0.060	0.320	5e-06
P09309	467	E3 ubiquitin-protein liga	no	no	0.224	0.130	0.352	4e-05
P84445	532	E3 ubiquitin-protein liga	no	no	0.235	0.120	0.32	0.0003
P28990	532	E3 ubiquitin-protein liga	no	no	0.235	0.120	0.32	0.0003
Q8NHY2	731	E3 ubiquitin-protein liga	no	no	0.180	0.067	0.383	0.0008
Q9R1A8	733	E3 ubiquitin-protein liga	no	no	0.180	0.066	0.383	0.0008
Q09268	610	Uncharacterized RING fing	yes	no	0.158	0.070	0.372	0.0009

>sp|Q9NS56|TOPRS_HUMAN E3 ubiquitin-protein ligase Topors OS=Homo sapiens GN=TOPORS PE=1 SV=1

 Score = 60.5 bits (145), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 44/93 (47%), Gaps = 10/93 (10%)

Query: 21  CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
           CPICL      SYLD+C HKFC+ C+  W+K  A          +CPLCK    SI H  
Sbjct: 103 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKA----------ECPLCKQPFDSIFHSV 152

Query: 81  DGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYT 113
                 + Y+ +   +  F +   R+R ++  T
Sbjct: 153 RAEDDFKEYVLRPSYNGSFVTPDRRFRYRTTLT 185

Functions as an E3 ubiquitin-protein ligase and as an E3 SUMO1-protein ligase. Probable tumor suppressor involved in cell growth, cell proliferation and apoptosis that regulates p53/TP53 stability through ubiquitin-dependent degradation. May regulate chromatin modification through sumoylation of several chromatin modification-associated proteins. May be involved in DNA damage-induced cell death through IKBKE sumoylation.
Homo sapiens (taxid: 9606)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q80Z37|TOPRS_MOUSE E3 ubiquitin-protein ligase Topors OS=Mus musculus GN=Topors PE=1 SV=1

 Score = 60.1 bits (144), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 32/94 (34%), Positives = 44/94 (46%), Gaps = 11/94 (11%)

Query: 21  CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
           CPICL      SYLD+C HKFC+ C+  W+K  A          +CPLCK    SI H  
Sbjct: 104 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKA----------ECPLCKQPFDSIFHSV 153

Query: 81  DGT-YFQRNYISQIFGDSFFFSKAHRYRLQSYYT 113
                F+   +   +  SF   +  R+R ++  T
Sbjct: 154 RAEDDFKEYVLRPSYNGSFTNPEVRRFRYRTTMT 187

Functions as an E3 ubiquitin-protein ligase and as a E3 SUMO1-protein ligase. Probable tumor suppressor involved in cell growth, cell proliferation and apoptosis that regulates p53/TP53 stability through ubiquitin-dependent degradation. May regulate chromatin modification through sumoylation of several chromatin modification-associated proteins. May be involved in DNA-damage-induced cell death through IKBKE sumoylation.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P29129|ICP0_SUHVF E3 ubiquitin-protein ligase ICP0 OS=Suid herpesvirus 1 (strain Indiana-Funkhauser / Becker) GN=EP0 PE=2 SV=1

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/61 (39%), Positives = 29/61 (47%), Gaps = 10/61 (16%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
          CPICL     ++    C HKFC +CI  WT          L+S  CPLC     SI+H  
Sbjct: 46 CPICLDVAATEAQTLPCMHKFCLDCIQRWT----------LTSTACPLCNARVTSILHHV 95

Query: 81 D 81
          D
Sbjct: 96 D 96

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Sus scrofa (taxid: 9823)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9V8P9|TOPRS_DROME E3 ubiquitin-protein ligase Topors OS=Drosophila melanogaster GN=Topors PE=1 SV=1

 Score = 52.0 bits (123), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 18/81 (22%)

Query: 6   QSGGSSSCSSEN--------PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKH 57
           + G S+S + EN        P  C ICL       + D C H+FC+ C+  W+K+     
Sbjct: 79  EPGTSASAAEENGTVERNSPPPNCAICLSRCRRKCFTDSCMHQFCFKCLCEWSKI----- 133

Query: 58  SSLLSSVKCPLCKTENVSIIH 78
                  +CPLCK    +IIH
Sbjct: 134 -----KPECPLCKQPFRTIIH 149

Functions as an ubiquitin-protein E3 ligase. Negatively regulates the transcriptional repressor h/hairy by promoting its ubiquitination and subsequent degradation. Also directs the nuclear organization of the gypsy chromatin insulator. Chromatin insulators are regulatory elements which establish independent domains of transcriptional activity within eukaryotic genomes. Insulators have two defining properties; they can block the communication between an enhancer and a promoter when placed between them, and can also buffer transgenes from position effect variegation (PEV). Insulators are proposed to structure the chromatin fiber into independent domains of differing transcriptional potential by promoting the formation of distinct chromatin loops. This chromatin looping may require the formation of insulator bodies, where homotypic interactions between individual subunits of the insulator complex could promote the clustering of widely spaced insulators at the nuclear periphery. Within the gypsy insulator complex, this protein may promote formation of nuclear insulator bodies by recruiting individual insulator complexes to the nuclear lamina.

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P09309|IE61_VZVD E3 ubiquitin-protein ligase IE61 OS=Varicella-zoster virus (strain Dumas) GN=61 PE=1 SV=1

 Score = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 10/71 (14%)

Query: 8  GGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCP 67
           G S  S  + N C IC+  V +      C H FC+ CI  WT           +SV+CP
Sbjct: 6  AGGSGTSDASDNTCTICMSTVSDLGKTMPCLHDFCFVCIRAWTS----------TSVQCP 55

Query: 68 LCKTENVSIIH 78
          LC+    SI+H
Sbjct: 56 LCRCPVQSILH 66

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P84445|ICP0_EHV1V E3 ubiquitin-protein ligase ICP0 OS=Equine herpesvirus 1 (strain V592) GN=ICP0 PE=3 SV=1

 Score = 45.8 bits (107), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 11/75 (14%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
          CPICL      S    C H FCY CI  W +           +  CPLCK    S++H  
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIR----------QNPTCPLCKVPVESVVHTI 57

Query: 81 DG-TYFQRNYISQIF 94
          +  + F+   +S  F
Sbjct: 58 ESDSEFKETKVSVDF 72

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Equus caballus (taxid: 9796)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P28990|ICP0_EHV1B E3 ubiquitin-protein ligase ICP0 OS=Equine herpesvirus 1 (strain Ab4p) GN=63 PE=1 SV=1

 Score = 45.8 bits (107), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 11/75 (14%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
          CPICL      S    C H FCY CI  W +           +  CPLCK    S++H  
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIR----------QNPTCPLCKVPVESVVHTI 57

Query: 81 DG-TYFQRNYISQIF 94
          +  + F+   +S  F
Sbjct: 58 ESDSEFKETKVSVDF 72

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Equus caballus (taxid: 9796)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8NHY2|RFWD2_HUMAN E3 ubiquitin-protein ligase RFWD2 OS=Homo sapiens GN=RFWD2 PE=1 SV=1

 Score = 44.7 bits (104), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 31/60 (51%), Gaps = 11/60 (18%)

Query: 21  CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
           CPIC   ++E++Y+ KC H FCY CI          H SL  + +CP C     +I H Y
Sbjct: 136 CPICFD-MIEEAYMTKCGHSFCYKCI----------HQSLEDNNRCPKCNYVVDNIDHLY 184

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Involved in JUN ubiquitination and degradation. Directly involved in p53 (TP53) ubiquitination and degradation, thereby abolishing p53-dependent transcription and apoptosis. Ubiquitinates p53 independently of MDM2 or RCHY1. Probably mediates E3 ubiquitin ligase activity by functioning as the essential RING domain subunit of larger E3 complexes. In contrast, it does not constitute the catalytic RING subunit in the DCX DET1-COP1 complex that negatively regulates JUN, the ubiquitin ligase activity being mediated by RBX1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9R1A8|RFWD2_MOUSE E3 ubiquitin-protein ligase RFWD2 OS=Mus musculus GN=Rfwd2 PE=1 SV=2

 Score = 44.7 bits (104), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 31/60 (51%), Gaps = 11/60 (18%)

Query: 21  CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
           CPIC   ++E++Y+ KC H FCY CI          H SL  + +CP C     +I H Y
Sbjct: 138 CPICFD-MIEEAYMTKCGHSFCYKCI----------HQSLEDNNRCPKCNYVVDNIDHLY 186

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Involved in JUN ubiquitination and degradation. Directly involved in p53 (TP53) ubiquitination and degradation, thereby abolishing p53-dependent transcription and apoptosis. Ubiquitinates p53 independently of MDM2 or RCHY1. Probably mediates E3 ubiquitin ligase activity by functioning as the essential RING domain subunit of larger E3 complexes. In contrast, it does not constitute the catalytic RING subunit in the DCX DET1-COP1 complex that negatively regulates JUN, the ubiquitin ligase activity being mediated by RBX1.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q09268|YQDA_CAEEL Uncharacterized RING finger protein C32D5.10 OS=Caenorhabditis elegans GN=C32D5.10 PE=4 SV=2

 Score = 44.3 bits (103), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 8/51 (15%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          C +C   +++ + L  C H+FCY+CIV W     +K S       CP+CKT
Sbjct: 41 CSVCKNEIIDTTSLSDCCHEFCYDCIVGWL----TKGSGPF----CPMCKT 83

Caenorhabditis elegans (taxid: 6239)

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	272
296088311	299	unnamed protein product [Vitis vinifera]	0.996	0.906	0.698	1e-111
359487787	271	PREDICTED: uncharacterized protein LOC10	0.996	1.0	0.698	1e-111
255542600	276	protein binding protein, putative [Ricin	0.933	0.920	0.690	1e-103
224131020	271	predicted protein [Populus trichocarpa]	0.985	0.988	0.643	1e-101
449442835	274	PREDICTED: E3 ubiquitin-protein ligase T	0.963	0.956	0.619	2e-95
449525896	274	PREDICTED: uncharacterized protein LOC10	0.963	0.956	0.619	4e-95
356535101	281	PREDICTED: E3 ubiquitin-protein ligase T	0.926	0.896	0.640	7e-94
297829048	273	zinc finger family protein [Arabidopsis	0.988	0.985	0.578	4e-85
357441629	300	E3 ubiquitin-protein ligase Topors [Medi	0.974	0.883	0.537	7e-85
30679440	278	RING/U-box domain-containing protein [Ar	0.988	0.967	0.564	2e-83

>gi|296088311|emb|CBI36756.3| unnamed protein product [Vitis vinifera]

 Score =  407 bits (1047), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 190/272 (69%), Positives = 223/272 (81%), Gaps = 1/272 (0%)

Query: 1   MENKDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSL 60
           M N+ +    +   SE PNPCPICLGPVV+DSYLD+CFHKFCY+CIV WTKVVASKH  L
Sbjct: 29  MMNQSKDTSCNDSPSEGPNPCPICLGPVVKDSYLDQCFHKFCYDCIVRWTKVVASKHCRL 88

Query: 61  LSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILND 120
            S++KCP CKTEN SI+HGYDG+ FQ++YI+Q FG SF FSKAH+YRLQ YYTEPGILND
Sbjct: 89  SSTIKCPFCKTENFSIVHGYDGSSFQQHYINQDFGKSFSFSKAHKYRLQCYYTEPGILND 148

Query: 121 VFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQ 180
            FNVSRYWK  KY Q NQWLQ+WLRREIQA++QEEDV+I+VHHILGV+DS +KR +Q+ Q
Sbjct: 149 KFNVSRYWKFHKYRQPNQWLQAWLRREIQALIQEEDVDIIVHHILGVLDSVIKRTEQKGQ 208

Query: 181 MGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTP 240
             TPE K+E+FKA VSDAARPFL  RTDRFVNE++LFLAS LNIEAYD VY+Q+LGW  P
Sbjct: 209 TITPERKQEEFKASVSDAARPFLTGRTDRFVNEVELFLASGLNIEAYDEVYLQQLGWTNP 268

Query: 241 RVTMESGEGETSGQTPVIPYLHIFDEDSDGTD 272
             T E  E E +G T V+PYL++FD DSDGTD
Sbjct: 269 MATTEGVE-EQNGHTHVVPYLYLFDYDSDGTD 299

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487787|ref|XP_002280880.2| PREDICTED: uncharacterized protein LOC100254480 [Vitis vinifera]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 190/272 (69%), Positives = 223/272 (81%), Gaps = 1/272 (0%)

Query: 1   MENKDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSL 60
           M N+ +    +   SE PNPCPICLGPVV+DSYLD+CFHKFCY+CIV WTKVVASKH  L
Sbjct: 1   MMNQSKDTSCNDSPSEGPNPCPICLGPVVKDSYLDQCFHKFCYDCIVRWTKVVASKHCRL 60

Query: 61  LSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILND 120
            S++KCP CKTEN SI+HGYDG+ FQ++YI+Q FG SF FSKAH+YRLQ YYTEPGILND
Sbjct: 61  SSTIKCPFCKTENFSIVHGYDGSSFQQHYINQDFGKSFSFSKAHKYRLQCYYTEPGILND 120

Query: 121 VFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQ 180
            FNVSRYWK  KY Q NQWLQ+WLRREIQA++QEEDV+I+VHHILGV+DS +KR +Q+ Q
Sbjct: 121 KFNVSRYWKFHKYRQPNQWLQAWLRREIQALIQEEDVDIIVHHILGVLDSVIKRTEQKGQ 180

Query: 181 MGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTP 240
             TPE K+E+FKA VSDAARPFL  RTDRFVNE++LFLAS LNIEAYD VY+Q+LGW  P
Sbjct: 181 TITPERKQEEFKASVSDAARPFLTGRTDRFVNEVELFLASGLNIEAYDEVYLQQLGWTNP 240

Query: 241 RVTMESGEGETSGQTPVIPYLHIFDEDSDGTD 272
             T E G  E +G T V+PYL++FD DSDGTD
Sbjct: 241 MATTE-GVEEQNGHTHVVPYLYLFDYDSDGTD 271

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542600|ref|XP_002512363.1| protein binding protein, putative [Ricinus communis] gi|223548324|gb|EEF49815.1| protein binding protein, putative [Ricinus communis]

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 176/255 (69%), Positives = 210/255 (82%), Gaps = 1/255 (0%)

Query: 19  NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASK-HSSLLSSVKCPLCKTENVSII 77
           NPCPICLGP +++SYLD CFHKFCYNCI+HWTKV+  K HS   SSVKCPLCKTEN SII
Sbjct: 22  NPCPICLGPFIQESYLDTCFHKFCYNCILHWTKVIGRKRHSPSPSSVKCPLCKTENHSII 81

Query: 78  HGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSN 137
           +G+DG+ FQR+Y + I  +S FFSK H+YRLQ YYT+ G L+ + NV RYWKSRKYLQ N
Sbjct: 82  YGFDGSSFQRHYTNVICQNSSFFSKEHKYRLQCYYTKSGSLSKIVNVLRYWKSRKYLQPN 141

Query: 138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSD 197
           +WLQ WLRREIQA++QEEDVEI++HHILGVVDSF KR+++  QM  PETK+ +F+ LVSD
Sbjct: 142 RWLQRWLRREIQALLQEEDVEIILHHILGVVDSFQKRSEKTHQMNMPETKQSEFRTLVSD 201

Query: 198 AARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPV 257
           AARPFL ARTD FVNE++LFLAS  NIEAYD VYMQ+LGWN P VT E+ + E S Q PV
Sbjct: 202 AARPFLAARTDWFVNELELFLASGFNIEAYDEVYMQQLGWNAPTVTGEAADAEPSEQRPV 261

Query: 258 IPYLHIFDEDSDGTD 272
           IPYL+IFD+DSD T+
Sbjct: 262 IPYLYIFDDDSDETE 276

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131020|ref|XP_002328433.1| predicted protein [Populus trichocarpa] gi|222838148|gb|EEE76513.1| predicted protein [Populus trichocarpa]

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 175/272 (64%), Positives = 223/272 (81%), Gaps = 4/272 (1%)

Query: 1   MENKDQSGG--SSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHS 58
           M+ +D +    + SCSS + NPCPICL P +++SYLD CFHKFCY CI+ WTKVV+SK S
Sbjct: 1   MDQQDSNSNKENQSCSSSDSNPCPICLAPFLQESYLDTCFHKFCYKCILQWTKVVSSKKS 60

Query: 59  SLLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGIL 118
              SSVKCPLCKT+N S+I+GYDG+ FQR+Y++Q F DS FFSKAH+YRLQ YYTEPGIL
Sbjct: 61  RRPSSVKCPLCKTDNFSLIYGYDGSSFQRHYVNQGFEDSSFFSKAHKYRLQCYYTEPGIL 120

Query: 119 NDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQR 178
           ND  NVSR+WK RKYLQ N+WLQSWLRRE+Q+++QEED+E++++HILG V+SF  RN+  
Sbjct: 121 NDTINVSRFWKLRKYLQPNRWLQSWLRREVQSLLQEEDIEVILYHILGTVNSFFSRNEHM 180

Query: 179 CQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWN 238
            Q  TPETK+E+FKA+VS+AARPFL A+TDRFV E++LFLAS LNIEAYD VY+Q++GWN
Sbjct: 181 RQTKTPETKQEEFKAVVSNAARPFLTAKTDRFVIELELFLASGLNIEAYDEVYLQQMGWN 240

Query: 239 TPRVTMESGEGETSGQTPVIPYLHIFDEDSDG 270
           TP+ T E+G GE+    PV+PYL+IFD +S+ 
Sbjct: 241 TPKTT-EAG-GESIEHNPVVPYLYIFDANSEN 270

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442835|ref|XP_004139186.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Cucumis sativus]

 Score =  355 bits (910), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 163/263 (61%), Positives = 202/263 (76%), Gaps = 1/263 (0%)

Query: 10  SSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC 69
           + + +S+  NPCPICLGP+ + SYLDKCFH FCYNCIV WTKVV+ K S  LSS+KCPLC
Sbjct: 13  TRTSTSDYTNPCPICLGPINQSSYLDKCFHNFCYNCIVQWTKVVSGKRSCTLSSIKCPLC 72

Query: 70  KTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWK 129
           KTE+ SIIHG DG  FQR+Y++  F DSF  SKAHRYRLQ YYTEPG LND+F+V RYWK
Sbjct: 73  KTESSSIIHGLDGHNFQRHYVNPDFQDSFILSKAHRYRLQCYYTEPGFLNDIFDVQRYWK 132

Query: 130 SRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEE 189
            +KYLQ+NQWL+ WL+RE+QA++QEEDV+I++HH LG+++SF +RN+   Q  TPE K +
Sbjct: 133 LQKYLQANQWLEVWLKRELQALIQEEDVDIIMHHFLGLINSFFRRNEPEYQTETPELKRK 192

Query: 190 DFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEG 249
            F   + DAA+PFL AR DRF+ E++LFLAS LNIEAYD+VY+QRLGWN P V   + E 
Sbjct: 193 RFSQTILDAAKPFLSARADRFILELELFLASGLNIEAYDSVYLQRLGWNKPIVPSVANE- 251

Query: 250 ETSGQTPVIPYLHIFDEDSDGTD 272
           E  G   V PYL+IFD D D  D
Sbjct: 252 EDLGLKSVTPYLYIFDCDPDDGD 274

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449525896|ref|XP_004169952.1| PREDICTED: uncharacterized protein LOC101225414 [Cucumis sativus]

 Score =  353 bits (906), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 163/263 (61%), Positives = 202/263 (76%), Gaps = 1/263 (0%)

Query: 10  SSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC 69
           + + +S+  NPCPICLGP+ + SYLDKCFH FCYNCIV WTKVV+ K S  LSS+KCPLC
Sbjct: 13  TRTSTSDYTNPCPICLGPINQSSYLDKCFHNFCYNCIVQWTKVVSGKRSCTLSSIKCPLC 72

Query: 70  KTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWK 129
           KTE+ SIIHG DG  FQR+Y++  F DSF  SKAHRYRLQ YYTEPG LND+F+V RYWK
Sbjct: 73  KTESSSIIHGLDGHNFQRHYVNPDFQDSFILSKAHRYRLQCYYTEPGFLNDIFDVQRYWK 132

Query: 130 SRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEE 189
            +KYLQ+NQWL+ WL+RE+QA++QEEDV+I++HH LG+++SF +RN+   Q  TPE K +
Sbjct: 133 LQKYLQANQWLEVWLKRELQALIQEEDVDIIMHHFLGLINSFSQRNEPEYQTETPELKRK 192

Query: 190 DFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEG 249
            F   + DAA+PFL AR DRF+ E++LFLAS LNIEAYD+VY+QRLGWN P V   + E 
Sbjct: 193 RFSQTILDAAKPFLSARADRFILELELFLASGLNIEAYDSVYLQRLGWNKPIVPSVANE- 251

Query: 250 ETSGQTPVIPYLHIFDEDSDGTD 272
           E  G   V PYL+IFD D D  D
Sbjct: 252 EDLGLKSVTPYLYIFDCDPDDGD 274

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356535101|ref|XP_003536087.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Glycine max]

 Score =  349 bits (896), Expect = 7e-94,   Method: Compositional matrix adjust.
 Identities = 162/253 (64%), Positives = 200/253 (79%), Gaps = 1/253 (0%)

Query: 21  CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
           CPICLGP ++ SYLDKCFHKFC+NCI+ WTKVVA KH S  SSVKCPLCKTEN SII+G 
Sbjct: 29  CPICLGPFLQLSYLDKCFHKFCFNCILRWTKVVAGKHRSPPSSVKCPLCKTENFSIIYGV 88

Query: 81  DGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWL 140
           DG+ FQR+Y++Q F DSF  S+AHRYRLQ YYTE G L+D+FN+S+YW+S KY Q N WL
Sbjct: 89  DGSCFQRHYVNQDFEDSFILSRAHRYRLQCYYTEQGFLDDIFNISQYWRSLKYNQPNCWL 148

Query: 141 QSWLRREIQAVMQEEDVEIVVHHILGVVDSFL-KRNKQRCQMGTPETKEEDFKALVSDAA 199
           ++WLRREIQA++QEEDV+I++HHIL VV + L  R +Q+  M  PE K+E+FK  VS+AA
Sbjct: 149 ENWLRREIQALIQEEDVDIILHHILAVVKAALWTRREQKSHMNAPEKKQEEFKMSVSEAA 208

Query: 200 RPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPVIP 259
           RPFL ARTDRFV E+QLFLAS +NIEAYDA Y+QRLGW++P V  E    E   ++ VIP
Sbjct: 209 RPFLAARTDRFVYEIQLFLASGMNIEAYDAAYIQRLGWSSPGVNTEVSHSELVDRSTVIP 268

Query: 260 YLHIFDEDSDGTD 272
           Y+H+FD D D  +
Sbjct: 269 YMHLFDGDFDENE 281

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297829048|ref|XP_002882406.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297328246|gb|EFH58665.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  320 bits (820), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 158/273 (57%), Positives = 197/273 (72%), Gaps = 4/273 (1%)

Query: 1   MENKDQSGGSSSCS-SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSS 59
           M  K+ +GGS S     + +PCPICLGP + DSYLD CFHKFC+NCI  W KVV+SK S 
Sbjct: 1   MAAKEIAGGSGSIDDGSDFDPCPICLGPFLHDSYLDTCFHKFCFNCIKQWIKVVSSKASK 60

Query: 60  LLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILN 119
            LSSVKCPLCKTEN SIIH YDG  F R+YI++   D F  +K  RYRLQ YYTE G L 
Sbjct: 61  QLSSVKCPLCKTENFSIIHNYDGCSFDRHYINRNIPDGFVLTKEQRYRLQCYYTESGFLA 120

Query: 120 DVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRC 179
           DVF+VSR+WK +K+LQ N+ L++WLRRE+QA+MQEEDV+IV+HH++GV+DSF KR KQR 
Sbjct: 121 DVFDVSRFWKLQKFLQPNRCLEAWLRRELQALMQEEDVDIVMHHLVGVMDSFCKRIKQRR 180

Query: 180 QM---GTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLG 236
           ++       T +E FKA VS+AARPF+M RTDRFV+E++LFLA+ LN+EAYDA+Y Q   
Sbjct: 181 KLEARNAETTNQEQFKAAVSEAARPFVMVRTDRFVDELELFLAAGLNMEAYDAIYKQNRR 240

Query: 237 WNTPRVTMESGEGETSGQTPVIPYLHIFDEDSD 269
                        E + +T V PYL IF+EDSD
Sbjct: 241 EIGAASEEREEVEEHNVRTRVTPYLFIFEEDSD 273

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357441629|ref|XP_003591092.1| E3 ubiquitin-protein ligase Topors [Medicago truncatula] gi|355480140|gb|AES61343.1| E3 ubiquitin-protein ligase Topors [Medicago truncatula]

 Score =  319 bits (818), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 165/307 (53%), Positives = 203/307 (66%), Gaps = 42/307 (13%)

Query: 1   MENKDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSL 60
           MEN+      SS  + + + CPICLGP ++ SYLD C H+FC+NCI+ W KVV+ KH   
Sbjct: 1   MENE------SSAPNSHDSICPICLGPFIQPSYLDHCLHQFCFNCILRWIKVVSGKHYHT 54

Query: 61  ---LSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGD--------------------- 96
               SSVKCPLCKT+N SIIHG DGT FQR+YI+    D                     
Sbjct: 55  PPPSSSVKCPLCKTDNFSIIHGVDGTCFQRHYINTNLQDDWFVSLSLAFIFKLSSTNYYN 114

Query: 97  -----------SFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLR 145
                      SF  S+AHRYRLQ YYT+ G + D+FNV +YWKSRKY Q N WLQ+WLR
Sbjct: 115 HFIICTYICPCSFVLSRAHRYRLQCYYTQQGCVEDIFNVLQYWKSRKYNQQNNWLQTWLR 174

Query: 146 REIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMA 205
           REIQA+ QEEDV+I+VHHI GVV +     +Q+  +  PE K+E+F   VS+AARPFL A
Sbjct: 175 REIQALTQEEDVDIIVHHIFGVVKTSWT-GEQKSHIKEPEKKQEEFMMSVSEAARPFLGA 233

Query: 206 RTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPRVTMESGEGETSGQTPVIPYLHIFD 265
           RTDRFV E+QLFLAS LNIEAYDAVY+QRLGW++P    E  + E   +T VIPYL+IFD
Sbjct: 234 RTDRFVYEIQLFLASGLNIEAYDAVYIQRLGWSSPGENTEVSQNELVDRTTVIPYLYIFD 293

Query: 266 EDSDGTD 272
           +DSDGT+
Sbjct: 294 DDSDGTE 300

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30679440|ref|NP_187176.2| RING/U-box domain-containing protein [Arabidopsis thaliana] gi|26450611|dbj|BAC42417.1| unknown protein [Arabidopsis thaliana] gi|31711722|gb|AAP68217.1| At3g05250 [Arabidopsis thaliana] gi|70905075|gb|AAZ14063.1| At3g05250 [Arabidopsis thaliana] gi|332640690|gb|AEE74211.1| RING/U-box domain-containing protein [Arabidopsis thaliana]

 Score =  314 bits (805), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 157/278 (56%), Positives = 199/278 (71%), Gaps = 9/278 (3%)

Query: 1   MENKDQSGGSSSCS-SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSS 59
           M  K+ +GGS S     + +PCPICLG  + +SYLD CFHKFC+NCI  W KVV+SK S 
Sbjct: 1   MAAKEIAGGSGSIDDGSDFDPCPICLGQFLRESYLDTCFHKFCFNCIKQWIKVVSSKASK 60

Query: 60  LLSSVKCPLCKTENVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILN 119
             SSV CPLCKTEN+SIIH YDG  F+R+YI     D F  +K  RYRLQ YYTE G L 
Sbjct: 61  QRSSVTCPLCKTENLSIIHNYDGCSFERHYIDPNIPDGFVLTKEQRYRLQCYYTESGFLA 120

Query: 120 DVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRC 179
           DVF+V+R+WK +K+LQ N+ L++WLRRE+QA+MQEEDV+IV+HH++GV++SF KR KQR 
Sbjct: 121 DVFDVARFWKLQKFLQPNRCLEAWLRRELQALMQEEDVDIVLHHLVGVMESFCKRIKQRR 180

Query: 180 QMGT---PETKEEDFKALVSDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLG 236
           +  T     T +E FKA+VS+AARPF+MARTDRFV+E++LFLA+ LN+EAYDA+Y Q L 
Sbjct: 181 KQETRSAETTNQEQFKAVVSEAARPFVMARTDRFVDELELFLAAGLNLEAYDAIYKQGLE 240

Query: 237 WNTPRVTMESGEGETSG-----QTPVIPYLHIFDEDSD 269
            N  R    + E          +T V PYL IF+EDSD
Sbjct: 241 GNNRREIGAASEEREEVEEHNVRTRVTPYLFIFEEDSD 278

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	272
TAIR|locus:2096264	278	AT3G05250 [Arabidopsis thalian	0.922	0.902	0.590	2.3e-78
UNIPROTKB|F1N329	1100	TOPORS "Uncharacterized protei	0.305	0.075	0.329	1.9e-11
UNIPROTKB|Q9NS56	1045	TOPORS "E3 ubiquitin-protein l	0.305	0.079	0.322	3.9e-11
UNIPROTKB|F1PHI0	1043	TOPORS "Uncharacterized protei	0.305	0.079	0.329	4.1e-11
UNIPROTKB|F1SE69	1049	TOPORS "Uncharacterized protei	0.349	0.090	0.317	6.9e-11
RGD|1305270	1042	Topors "topoisomerase I bindin	0.305	0.079	0.329	7e-11
MGI|MGI:2146189	1033	Topors "topoisomerase I bindin	0.305	0.080	0.329	9.3e-11
DICTYBASE|DDB_G0281183	548	DDB_G0281183 "RING zinc finger	0.224	0.111	0.383	1.5e-10
ZFIN|ZDB-GENE-030131-6401	846	toporsa "topoisomerase I bindi	0.176	0.056	0.431	7.8e-10
TAIR|locus:2064905	296	AT2G39100 [Arabidopsis thalian	0.316	0.290	0.362	9.3e-09

TAIR|locus:2096264 AT3G05250 [Arabidopsis thaliana (taxid:3702)]

 Score = 788 (282.4 bits), Expect = 2.3e-78, P = 2.3e-78
 Identities = 153/259 (59%), Positives = 193/259 (74%)

Query:    19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH 78
             +PCPICLG  + +SYLD CFHKFC+NCI  W KVV+SK S   SSV CPLCKTEN+SIIH
Sbjct:    20 DPCPICLGQFLRESYLDTCFHKFCFNCIKQWIKVVSSKASKQRSSVTCPLCKTENLSIIH 79

Query:    79 GYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQ 138
              YDG  F+R+YI     D F  +K  RYRLQ YYTE G L DVF+V+R+WK +K+LQ N+
Sbjct:    80 NYDGCSFERHYIDPNIPDGFVLTKEQRYRLQCYYTESGFLADVFDVARFWKLQKFLQPNR 139

Query:   139 WLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPE---TKEEDFKALV 195
              L++WLRRE+QA+MQEEDV+IV+HH++GV++SF KR KQR +  T     T +E FKA+V
Sbjct:   140 CLEAWLRRELQALMQEEDVDIVLHHLVGVMESFCKRIKQRRKQETRSAETTNQEQFKAVV 199

Query:   196 SDAARPFLMARTDRFVNEMQLFLASALNIEAYDAVYMQRLGWNTPR-VTMESGEGET--- 251
             S+AARPF+MARTDRFV+E++LFLA+ LN+EAYDA+Y Q L  N  R +   S E E    
Sbjct:   200 SEAARPFVMARTDRFVDELELFLAAGLNLEAYDAIYKQGLEGNNRREIGAASEEREEVEE 259

Query:   252 -SGQTPVIPYLHIFDEDSD 269
              + +T V PYL IF+EDSD
Sbjct:   260 HNVRTRVTPYLFIFEEDSD 278

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=RCA

GO:0009755 "hormone-mediated signaling pathway" evidence=RCA

UNIPROTKB|F1N329 TOPORS "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 141 (54.7 bits), Expect = 1.9e-11, Sum P(2) = 1.9e-11
 Identities = 31/94 (32%), Positives = 45/94 (47%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             CPICL      SYLD+C HKFC+ C+  W+K          +  +CPLCK    SI H  
Sbjct:   166 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSK----------NKAECPLCKQPFDSIFHSV 215

Query:    81 DGTYFQRNYISQ-IFGDSFFFSKAHRYRLQSYYT 113
                   + Y+ +  +  SF   +  R+R ++  T
Sbjct:   216 RAEDDFKEYVLRPSYNGSFATPEVRRFRYRTTMT 249

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0044547 "DNA topoisomerase binding" evidence=IEA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IEA

GO:0036064 "cilium basal body" evidence=IEA

GO:0032391 "photoreceptor connecting cilium" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0016605 "PML body" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IEA

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0005814 "centriole" evidence=IEA

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

GO:0003823 "antigen binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000930 "gamma-tubulin complex" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005813 "centrosome" evidence=IDA

GO:0043015 "gamma-tubulin binding" evidence=IDA

GO:0070936 "protein K48-linked ubiquitination" evidence=IEA

GO:0051457 "maintenance of protein location in nucleus" evidence=IEA

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IEA

UNIPROTKB|Q9NS56 TOPORS "E3 ubiquitin-protein ligase Topors" [Homo sapiens (taxid:9606)]

 Score = 138 (53.6 bits), Expect = 3.9e-11, Sum P(2) = 3.9e-11
 Identities = 30/93 (32%), Positives = 44/93 (47%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             CPICL      SYLD+C HKFC+ C+  W+K          +  +CPLCK    SI H  
Sbjct:   103 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSK----------NKAECPLCKQPFDSIFHSV 152

Query:    81 DGTYFQRNYISQIFGDSFFFSKAHRYRLQSYYT 113
                   + Y+ +   +  F +   R+R ++  T
Sbjct:   153 RAEDDFKEYVLRPSYNGSFVTPDRRFRYRTTLT 185

GO:0008270 "zinc ion binding" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0016607 "nuclear speck" evidence=IDA

GO:0044547 "DNA topoisomerase binding" evidence=IPI

GO:0006351 "transcription, DNA-dependent" evidence=NAS

GO:0003677 "DNA binding" evidence=IDA

GO:0003823 "antigen binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

GO:0051457 "maintenance of protein location in nucleus" evidence=IDA

GO:0006974 "response to DNA damage stimulus" evidence=IDA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IMP

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

GO:0005634 "nucleus" evidence=IDA

GO:0019789 "SUMO ligase activity" evidence=IMP;IDA

GO:0016925 "protein sumoylation" evidence=IMP;IDA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IMP

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IDA

GO:0016605 "PML body" evidence=IDA

GO:0034504 "protein localization to nucleus" evidence=IMP

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IDA

GO:0070936 "protein K48-linked ubiquitination" evidence=IDA

GO:0006513 "protein monoubiquitination" evidence=IDA

GO:0032391 "photoreceptor connecting cilium" evidence=IDA

GO:0005868 "cytoplasmic dynein complex" evidence=TAS

GO:0036064 "cilium basal body" evidence=IDA

GO:0030496 "midbody" evidence=TAS

GO:0010842 "retina layer formation" evidence=ISS

GO:0035845 "photoreceptor cell outer segment organization" evidence=ISS

GO:0046548 "retinal rod cell development" evidence=ISS

GO:0046549 "retinal cone cell development" evidence=ISS

GO:0043066 "negative regulation of apoptotic process" evidence=ISS

GO:0000922 "spindle pole" evidence=IDA

GO:0000930 "gamma-tubulin complex" evidence=IDA

GO:0005814 "centriole" evidence=IDA

UNIPROTKB|F1PHI0 TOPORS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 137 (53.3 bits), Expect = 4.1e-11, Sum P(2) = 4.1e-11
 Identities = 31/94 (32%), Positives = 44/94 (46%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             CPICL      SYLD+C HKFC+ C+  W+K          +  +CPLCK    SI H  
Sbjct:   103 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSK----------NKAECPLCKQPFDSIFHSV 152

Query:    81 DGTYFQRNYISQ-IFGDSFFFSKAHRYRLQSYYT 113
                   + Y+ +  +  SF      R+R ++  T
Sbjct:   153 RAEDDFKEYVLRPSYNGSFATPDVPRFRYRTTMT 186

GO:0036064 "cilium basal body" evidence=IDA

GO:0016607 "nuclear speck" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1SE69 TOPORS "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 136 (52.9 bits), Expect = 6.9e-11, Sum P(2) = 6.9e-11
 Identities = 34/107 (31%), Positives = 49/107 (45%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             CPICL      SYLD+C HKFC+ C+  W+K          +  +CPLCK    SI H  
Sbjct:   106 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSK----------NKAECPLCKQPFDSIFHSV 155

Query:    81 DGTYFQRNYISQ-IFGDSFFFSKAHRYRLQSYYTEPGILNDVFNVSR 126
                   + Y+ +     SF      R+R ++  T     + V++ SR
Sbjct:   156 RAEDDFKEYVLRPSHNGSFATPDVRRFRYRTTMTRERSAS-VYSPSR 201

GO:0032391 "photoreceptor connecting cilium" evidence=IDA

GO:0070936 "protein K48-linked ubiquitination" evidence=IEA

GO:0051457 "maintenance of protein location in nucleus" evidence=IEA

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0044547 "DNA topoisomerase binding" evidence=IEA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IEA

GO:0036064 "cilium basal body" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0016605 "PML body" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IEA

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0005814 "centriole" evidence=IEA

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

GO:0003823 "antigen binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000930 "gamma-tubulin complex" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|1305270 Topors "topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase" [Rattus norvegicus (taxid:10116)]

 Score = 141 (54.7 bits), Expect = 7.0e-11, Sum P(2) = 7.0e-11
 Identities = 31/94 (32%), Positives = 45/94 (47%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             CPICL      SYLD+C HKFC+ C+  W+K          +  +CPLCK    SI H  
Sbjct:   104 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSK----------NKAECPLCKQPFDSIFHSV 153

Query:    81 DGTYFQRNYISQ-IFGDSFFFSKAHRYRLQSYYT 113
                   + Y+ +  +  SF   +  R+R ++  T
Sbjct:   154 RAEDDFKEYVLRPSYNGSFTAPEVRRFRYRTTMT 187

GO:0000922 "spindle pole" evidence=IEA;ISO

GO:0000930 "gamma-tubulin complex" evidence=IEA;ISO

GO:0003677 "DNA binding" evidence=IEA;ISO

GO:0003823 "antigen binding" evidence=IEA;ISO

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005814 "centriole" evidence=IEA;ISO

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0006513 "protein monoubiquitination" evidence=IEA;ISO

GO:0006915 "apoptotic process" evidence=ISO

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IEA;ISO

GO:0016605 "PML body" evidence=IEA;ISO

GO:0016607 "nuclear speck" evidence=IEA;ISO

GO:0016853 "isomerase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA;ISO

GO:0019789 "SUMO ligase activity" evidence=IEA;ISO

GO:0032391 "photoreceptor connecting cilium" evidence=IEA;ISO

GO:0034504 "protein localization to nucleus" evidence=ISO

GO:0036064 "cilium basal body" evidence=IEA;ISO

GO:0042127 "regulation of cell proliferation" evidence=IEA;ISO

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

GO:0044547 "DNA topoisomerase binding" evidence=IEA;ISO

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA;ISO

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IEA;ISO

GO:0051457 "maintenance of protein location in nucleus" evidence=IEA;ISO

GO:0070936 "protein K48-linked ubiquitination" evidence=IEA;ISO

MGI|MGI:2146189 Topors "topoisomerase I binding, arginine/serine-rich" [Mus musculus (taxid:10090)]

 Score = 140 (54.3 bits), Expect = 9.3e-11, Sum P(2) = 9.3e-11
 Identities = 31/94 (32%), Positives = 45/94 (47%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             CPICL      SYLD+C HKFC+ C+  W+K          +  +CPLCK    SI H  
Sbjct:   104 CPICLDRFDNVSYLDRCLHKFCFRCVQEWSK----------NKAECPLCKQPFDSIFHSV 153

Query:    81 DGTYFQRNYISQ-IFGDSFFFSKAHRYRLQSYYT 113
                   + Y+ +  +  SF   +  R+R ++  T
Sbjct:   154 RAEDDFKEYVLRPSYNGSFTNPEVRRFRYRTTMT 187

GO:0000922 "spindle pole" evidence=ISO

GO:0000930 "gamma-tubulin complex" evidence=ISO

GO:0003677 "DNA binding" evidence=ISO

GO:0003823 "antigen binding" evidence=ISO

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005814 "centriole" evidence=ISO

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0006513 "protein monoubiquitination" evidence=ISO

GO:0006915 "apoptotic process" evidence=IDA

GO:0006974 "response to DNA damage stimulus" evidence=ISO;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=ISO

GO:0016605 "PML body" evidence=ISO

GO:0016607 "nuclear speck" evidence=ISO

GO:0016853 "isomerase activity" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=ISO

GO:0019789 "SUMO ligase activity" evidence=ISO

GO:0032391 "photoreceptor connecting cilium" evidence=ISO;IDA

GO:0034504 "protein localization to nucleus" evidence=ISO

GO:0036064 "cilium basal body" evidence=ISO;IDA

GO:0042127 "regulation of cell proliferation" evidence=IDA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0044547 "DNA topoisomerase binding" evidence=ISO

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IGI

GO:0046872 "metal ion binding" evidence=IEA

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=ISO

GO:0051457 "maintenance of protein location in nucleus" evidence=ISO

GO:0070936 "protein K48-linked ubiquitination" evidence=ISO

DICTYBASE|DDB_G0281183 DDB_G0281183 "RING zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 128 (50.1 bits), Expect = 1.5e-10, Sum P(2) = 1.5e-10
 Identities = 28/73 (38%), Positives = 43/73 (58%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
             C ICL P    ++LD CFH+FC+ CI+ W+++          + +CPLCK+E  S+I+  
Sbjct:   100 CSICLSPFENLTFLDICFHQFCFVCILQWSEL----------NQRCPLCKSEYHSLIYQV 149

Query:    81 -DGTYFQRNYISQ 92
                T +QR +I Q
Sbjct:   150 KSNTDYQR-FIIQ 161

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

ZFIN|ZDB-GENE-030131-6401 toporsa "topoisomerase I binding, arginine/serine-rich a" [Danio rerio (taxid:7955)]

 Score = 119 (46.9 bits), Expect = 7.8e-10, Sum P(2) = 7.8e-10
 Identities = 25/58 (43%), Positives = 29/58 (50%)

Query:    21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH 78
             CPICL      SYLD C HKFC+ CI  W+K          +  +CPLCK    S  H
Sbjct:    28 CPICLDHFKNISYLDVCLHKFCFCCIHEWSK----------NKAECPLCKQPFNSFYH 75

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010842 "retina layer formation" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2064905 AT2G39100 [Arabidopsis thaliana (taxid:3702)]

 Score = 125 (49.1 bits), Expect = 9.3e-09, Sum P(2) = 9.3e-09
 Identities = 33/91 (36%), Positives = 49/91 (53%)

Query:   140 LQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAA 199
             ++ W+RRE+QAV+ + D  ++VH    +    L+R   R Q G      ED    VS + 
Sbjct:   204 IEPWIRRELQAVLGDPDPSVIVHFASALFIKRLERENNR-QTGQTGMLVEDE---VS-SL 258

Query:   200 RPFLMARTDRFVNEMQLFLASALNIEAYDAV 230
             R FL  + D F +E++ F  S L +E YDAV
Sbjct:   259 RKFLSDKVDIFWHELRCFAESILTMETYDAV 289

GO:0005634 "nucleus" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00022850001 SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (280 aa) (Vitis vinifera)

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	272
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-09
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-08
smart00184	40	smart00184, RING, Ring finger	2e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-06
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	4e-04

>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 = 51.3 bits (123), Expect = 3e-09
 Identities = 20/52 (38%), Positives = 22/52 (42%), Gaps = 9/52 (17%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL    E   L  C H FC +CI  W K              CPLC+T 
Sbjct: 2  CPICLEEFREPVVLLPCGHVFCRSCIDKWLK---------SGKNTCPLCRTP 44

Length = 45

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

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 9/49 (18%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC 69
          CPICL    +   +  C H FC  CI+ W +           +V CPLC
Sbjct: 1  CPICLEEPKDPVTILPCGHLFCSKCILSWLES---------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|214546 smart00184, RING, Ring finger

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 9/49 (18%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC 69
          CPICL   ++D  +  C H FC +CI  W +           +  CP+C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWLE---------SGNNTCPIC 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 42.9 bits (101), Expect = 3e-06
 Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 10/51 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          CPICL  + +   L  C H FC  CI+ +          L    KCP+C+T
Sbjct: 5  CPICLDLLRDPVVLTPCGHVFCRECILRY----------LKKKSKCPICRT 45

Length = 45

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

 Score = 42.8 bits (101), Expect = 4e-06
 Identities = 17/54 (31%), Positives = 20/54 (37%), Gaps = 12/54 (22%)

Query: 21 CPICLGPVVEDS--YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL          +  C H F   C+  W          L SS  CPLC+  
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKW----------LRSSNTCPLCRAP 46

Length = 46

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

 Score = 40.5 bits (95), Expect = 4e-04
 Identities = 19/64 (29%), Positives = 25/64 (39%), Gaps = 17/64 (26%)

Query: 21  CPICLGPVVEDSY-------LDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN 73
           C IC+  V +          L  C H FC  CI  W K              CP+C+T  
Sbjct: 177 CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK----------EKNTCPVCRTPF 226

Query: 74  VSII 77
           +S+I
Sbjct: 227 ISVI 230

Length = 238

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	272
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.1
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.08
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.04
KOG4430	553	consensus Topoisomerase I-binding arginine-serine-	99.04
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.99
PHA02929	238	N1R/p28-like protein; Provisional	98.99
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.95
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.95
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.92
PHA02926	242	zinc finger-like protein; Provisional	98.89
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.84
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.83
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.82
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.69
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.66
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.64
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.5
PF14634	44	zf-RING_5: zinc-RING finger domain	98.45
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.41
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.37
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.37
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.34
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.33
KOG2660	331	consensus Locus-specific chromosome binding protei	98.29
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.27
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.24
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	98.22
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.21
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.18
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.13
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.1
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.04
PF01480	77	PWI: PWI domain; InterPro: IPR002483 The PWI domai	98.01
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.0
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	97.99
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.59
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.5
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.37
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	97.34
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.3
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.26
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.24
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.06
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.0
COG5152	259	Uncharacterized conserved protein, contains RING a	97.0
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.99
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.98
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.93
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.91
COG5219	1525	Uncharacterized conserved protein, contains RING Z	96.88
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.82
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	96.82
KOG4430	553	consensus Topoisomerase I-binding arginine-serine-	96.77
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.66
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.57
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.42
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.31
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.29
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	96.28
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	96.23
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.18
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.08
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	95.8
KOG4739	233	consensus Uncharacterized protein involved in syna	95.78
smart00311	74	PWI PWI, domain in splicing factors.	95.43
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.05
PF04641	260	Rtf2: Rtf2 RING-finger	95.01
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.96
KOG3039	303	consensus Uncharacterized conserved protein [Funct	94.7
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.53
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.93
PHA03096	284	p28-like protein; Provisional	93.71
KOG3002	299	consensus Zn finger protein [General function pred	93.56
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.33
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.2
KOG2146	354	consensus Splicing coactivator SRm160/300, subunit	93.12
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.69
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	92.55
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.99
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.84
PHA02862	156	5L protein; Provisional	91.78
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	91.74
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	91.66
KOG4367	699	consensus Predicted Zn-finger protein [Function un	91.51
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.39
PHA02825	162	LAP/PHD finger-like protein; Provisional	91.04
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.48
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.23
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	90.09
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	89.86
KOG4445	368	consensus Uncharacterized conserved protein, conta	89.65
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	89.52
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	89.35
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	88.65
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	88.16
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	87.69
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	87.49
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	87.29
KOG3039	303	consensus Uncharacterized conserved protein [Funct	87.0
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	86.52
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	86.0
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	84.2
KOG0825	1134	consensus PHD Zn-finger protein [General function	83.48
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	83.0
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	81.9

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

Probab=99.10  E-value=4.8e-11  Score=79.25  Aligned_cols=42  Identities=38%  Similarity=0.808  Sum_probs=30.8

Q ss_pred             ccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        21 CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      ||||++.+.+|+.+ +|||+||..||..|++.      ..+....||.|
T Consensus         1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~------~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKE------PSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCC------SSSST---SSS
T ss_pred             CCccchhhCCcccc-CCcCHHHHHHHHHHHHc------cCCcCCCCcCC
Confidence            89999999999887 79999999999999873      12223789988

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.08  E-value=1.7e-10  Score=99.93  Aligned_cols=60  Identities=32%  Similarity=0.674  Sum_probs=44.7

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcc------cCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKH------SSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~------~~~~~~~~CPlCr~~~~   74 (272)
                      ...+...|+||++.+.+|+.+ +|||.||..||..|+...+...      ...+....||+||..+.
T Consensus        14 ~~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            444578999999999999665 7999999999999987421100      01234579999999883

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

Probab=99.04  E-value=1.8e-10  Score=101.66  Aligned_cols=52  Identities=31%  Similarity=0.711  Sum_probs=44.1

Q ss_pred             CCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ......|.|||+..++|++. .|||-||..||.+|+...       .....||+||+.++
T Consensus        44 ~~~~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~-------~~~~~cPVCK~~Vs   95 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTR-------PNSKECPVCKAEVS   95 (230)
T ss_pred             CCCceeeeeeccccCCCEEe-ecccceehHHHHHHHhhc-------CCCeeCCccccccc
Confidence            56678999999999999665 699999999999999852       24578999999873

>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]

Probab=99.04  E-value=3.8e-11  Score=117.42  Aligned_cols=85  Identities=22%  Similarity=0.411  Sum_probs=64.1

Q ss_pred             hhHHHHHHHHHhHhhccc--chHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccchhhhHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEE--DVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQ  215 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~~t~~F~HEl~  215 (272)
                      ||+++|++|||.+++++.  ++..|.+.|++++    .|+...         ...|.    ..+++||+..|+||+||++
T Consensus        61 hr~~~W~~r~i~~l~~t~~s~v~~~~~~~~~~~----~~~~l~---------~~~f~----~~l~~fl~~~t~hfihe~~  123 (553)
T KOG4430|consen   61 HRLMQWKKRDISVLNRTRGSDVNDLQDLIMNLL----PRLSLE---------SLAFR----RELEEFLYACTDHFIHELI  123 (553)
T ss_pred             cccccchhhHHHHHhhhccccccceeehhcccc----cchhhc---------cHHHH----HHHHHHHhhccchhhhhhh
Confidence            899999999999998755  4566655555443    333322         34554    4469999999999999999


Q ss_pred             HHHhCCCChHHHHHHhhhccCCCCCCcccc
Q 045854          216 LFLASALNIEAYDAVYMQRLGWNTPRVTME  245 (272)
Q Consensus       216 ~Fa~Sp~~~~~yD~~~~~~~~~~~~~~~~~  245 (272)
                      +|++|||+|.+||+      ++++|++...
T Consensus       124 ~farSpft~~~~~~------~~~~~~~~~~  147 (553)
T KOG4430|consen  124 NFARSPFTMNGYKR------NCSCSTRRLT  147 (553)
T ss_pred             ccccCccchhhHhc------ccCcchhhhh
Confidence            99999999999996      5666654444

>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=98.99  E-value=3e-10  Score=73.94  Aligned_cols=39  Identities=38%  Similarity=1.025  Sum_probs=33.7

Q ss_pred             ccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        21 CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      |+||++.+.+|+++.+|||.||..|+.+|++.          ..+||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~----------~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK----------NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC----------TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC----------cCCCcCC
Confidence            89999999999778899999999999999983          4799987

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.99  E-value=4.5e-10  Score=100.76  Aligned_cols=53  Identities=36%  Similarity=0.894  Sum_probs=43.4

Q ss_pred             CCCCcccccccCCCCc-------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceee
Q 045854           16 ENPNPCPICLGPVVED-------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH   78 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p-------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~   78 (272)
                      +.+..|+||++.+.++       ..+.+|+|.||..||.+|++.          ...||+||.++.+++.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----------~~tCPlCR~~~~~v~~  231 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----------KNTCPVCRTPFISVIK  231 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----------CCCCCCCCCEeeEEee
Confidence            3467899999987653       256689999999999999983          5799999998877654

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

Probab=98.95  E-value=5.4e-10  Score=101.42  Aligned_cols=50  Identities=32%  Similarity=0.842  Sum_probs=41.8

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .......|.+|++...+|. .+||||.||..||.+|...          ...||+||..+.
T Consensus       235 i~~a~~kC~LCLe~~~~pS-aTpCGHiFCWsCI~~w~~e----------k~eCPlCR~~~~  284 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSNPS-ATPCGHIFCWSCILEWCSE----------KAECPLCREKFQ  284 (293)
T ss_pred             CCCCCCceEEEecCCCCCC-cCcCcchHHHHHHHHHHcc----------ccCCCcccccCC
Confidence            3445688999999999994 4599999999999999884          457999998753

>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=98.95  E-value=3.5e-10  Score=75.44  Aligned_cols=42  Identities=38%  Similarity=0.873  Sum_probs=33.9

Q ss_pred             CcccccccCCC--CceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCC
Q 045854           19 NPCPICLGPVV--EDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCK   70 (272)
Q Consensus        19 ~~CpICl~~~~--~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr   70 (272)
                      +.|+||++.+.  +.+...+|||.||..||.+|++.          ..+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~----------~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR----------NNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH----------SSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh----------CCcCCccC
Confidence            36999999984  45556689999999999999984          46999996

...

>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=98.92  E-value=9.5e-10  Score=75.37  Aligned_cols=47  Identities=34%  Similarity=0.745  Sum_probs=38.9

Q ss_pred             CCcccccccCCCCceeecCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +..|+||++...+++.+ ||||. ||..|+.+|++          ....||+||+++..
T Consensus         2 ~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~----------~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPRDVVLL-PCGHLCFCEECAERLLK----------RKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHH----------TTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCCceEEe-CCCChHHHHHHhHHhcc----------cCCCCCcCChhhcC
Confidence            46899999999887555 89998 99999999998          36899999998764

...

>PHA02926 zinc finger-like protein; Provisional

Probab=98.89  E-value=1.5e-09  Score=95.56  Aligned_cols=60  Identities=32%  Similarity=0.656  Sum_probs=44.7

Q ss_pred             CCCCCcccccccCCCC--------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceee
Q 045854           15 SENPNPCPICLGPVVE--------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH   78 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~--------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~   78 (272)
                      .+.+..|+||++....        ...+.+|+|.||..||..|.+...    ..+....||+||..+..+++
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~----~~~~~rsCPiCR~~f~~I~p  234 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRR----ETGASDNCPICRTRFRNITM  234 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhcc----ccCcCCcCCCCcceeeeecc
Confidence            3557899999987633        235779999999999999987421    23456789999998765543

>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=98.84  E-value=2.4e-09  Score=70.08  Aligned_cols=41  Identities=49%  Similarity=1.146  Sum_probs=36.4

Q ss_pred             ccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        21 CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      |+||++.+.++..+.+|||.||..|+.+|++.        .....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~--------~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN--------SGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH--------TSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHh--------cCCccCCcC
Confidence            89999999999867799999999999999984        146789998

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 ....

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

Probab=98.83  E-value=2.8e-09  Score=90.73  Aligned_cols=49  Identities=41%  Similarity=0.802  Sum_probs=40.9

Q ss_pred             CCCCcccccccCCCCce-eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDS-YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~-~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +....|||||+.+...+ +.++|||.||..||+.-++.          ..+||+|++.++
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----------~~~CP~C~kkIt  178 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----------TNKCPTCRKKIT  178 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHHh----------CCCCCCcccccc
Confidence            34578999999997754 55799999999999999984          689999998653

>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=98.82  E-value=4.5e-09  Score=68.57  Aligned_cols=44  Identities=45%  Similarity=0.979  Sum_probs=38.2

Q ss_pred             cccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           20 PCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        20 ~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      .|+||++.+.++..+.+|||.||..|+..|++.         ....||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~---------~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS---------GKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHh---------CcCCCCCCCCc
Confidence            499999999888788789999999999999884         35789999975

>smart00504 Ubox Modified RING finger domain

Probab=98.69  E-value=2e-08  Score=71.39  Aligned_cols=44  Identities=18%  Similarity=0.231  Sum_probs=39.0

Q ss_pred             CcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ..||||.+.+.+|+.+ +|||+||..||..|++.          ...||.|+.++
T Consensus         2 ~~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~----------~~~cP~~~~~~   45 (63)
T smart00504        2 FLCPISLEVMKDPVIL-PSGQTYERRAIEKWLLS----------HGTDPVTGQPL   45 (63)
T ss_pred             cCCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHH----------CCCCCCCcCCC
Confidence            5799999999999665 89999999999999983          46899999875

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

>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=98.66  E-value=1.9e-08  Score=74.52  Aligned_cols=43  Identities=35%  Similarity=0.921  Sum_probs=34.1

Q ss_pred             CCcccccccCCCC------------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCC
Q 045854           18 PNPCPICLGPVVE------------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCK   70 (272)
Q Consensus        18 ~~~CpICl~~~~~------------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr   70 (272)
                      ...|+||++.+.+            ++.+.+|||.|+..||.+|++.          ...||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~----------~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ----------NNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT----------SSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc----------CCcCCCCC
Confidence            4459999999933            3455689999999999999984          56999997

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.64  E-value=2.4e-08  Score=95.68  Aligned_cols=51  Identities=29%  Similarity=0.610  Sum_probs=43.2

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+....|+||++.+.+|+. ++|||.||..||..|+..          ...||+|+..+.
T Consensus        21 ~~Le~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~~----------~~~CP~Cr~~~~   71 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLSN----------QPKCPLCRAEDQ   71 (397)
T ss_pred             cccccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHhC----------CCCCCCCCCccc
Confidence            445677899999999999965 589999999999999873          458999998764

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

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

Probab=98.62  E-value=2.1e-08  Score=97.22  Aligned_cols=52  Identities=29%  Similarity=0.708  Sum_probs=42.9

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +..||||+++...|..+ .|||.||+.||.+++...     .......||+|+..+..
T Consensus       186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s-----~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYS-----AIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhh-----cccCCccCCchhhhccc
Confidence            78899999999999666 599999999999987752     23356899999987754

>smart00184 RING Ring finger

Probab=98.50  E-value=1.4e-07  Score=59.16  Aligned_cols=39  Identities=44%  Similarity=1.131  Sum_probs=32.5

Q ss_pred             ccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        21 CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      |+||++...++..+ +|||.||..|+..|++.         ....||+|
T Consensus         1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~~---------~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLKS---------GNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEe-cCCChHHHHHHHHHHHh---------CcCCCCCC
Confidence            89999997776555 89999999999999873         35689987

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.45  E-value=1.4e-07  Score=62.99  Aligned_cols=42  Identities=36%  Similarity=0.863  Sum_probs=35.0

Q ss_pred             cccccccCC--CCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCc
Q 045854           20 PCPICLGPV--VEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT   71 (272)
Q Consensus        20 ~CpICl~~~--~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~   71 (272)
                      .|+||...+  ..+..+++|||+||..|+..+..          ....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~----------~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG----------KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC----------CCCCCcCCCC
Confidence            489999999  44567789999999999999872          3689999984

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

Probab=98.41  E-value=1.3e-07  Score=63.10  Aligned_cols=39  Identities=36%  Similarity=0.815  Sum_probs=22.1

Q ss_pred             ccccccCCCC----ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCC
Q 045854           21 CPICLGPVVE----DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCP   67 (272)
Q Consensus        21 CpICl~~~~~----p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CP   67 (272)
                      ||||.+ +.+    |+.+ +|||+||..|+.++++...      ....+||
T Consensus         1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~~------~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKSD------RNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH-S-------S-B--T
T ss_pred             CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcCC------CCeeeCc
Confidence            899999 766    7666 6999999999999988411      2356787

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

Probab=98.37  E-value=3e-07  Score=82.85  Aligned_cols=48  Identities=33%  Similarity=0.722  Sum_probs=40.1

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHH-HHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVH-WTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~-w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ..+..|+||++....|..+ +|||.||..||.. |.+.         ..-.||+||+.+
T Consensus       213 ~~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~---------k~~~CplCRak~  261 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKK---------KYEFCPLCRAKV  261 (271)
T ss_pred             ccccceeeeecccCCcccc-cccchhhHHHHHHHHHhh---------ccccCchhhhhc
Confidence            4578899999999999766 7999999999999 8764         234599999854

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

Probab=98.37  E-value=2.4e-07  Score=87.09  Aligned_cols=47  Identities=34%  Similarity=0.750  Sum_probs=39.0

Q ss_pred             CcccccccCCCC--ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           19 NPCPICLGPVVE--DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        19 ~~CpICl~~~~~--p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ..|+||++.+..  ..++.||.|.|+..||..|+..         ....||+||..+.
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~---------~r~~CPvCK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQ---------TRTFCPVCKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhh---------cCccCCCCCCcCC
Confidence            699999999974  5667799999999999999984         2345999998653

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

Probab=98.34  E-value=1.4e-07  Score=87.44  Aligned_cols=48  Identities=25%  Similarity=0.601  Sum_probs=41.6

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +..+.|.||.+.|..| +++||+|+||.-||..++..          .+.||+|..++.
T Consensus        21 D~lLRC~IC~eyf~ip-~itpCsHtfCSlCIR~~L~~----------~p~CP~C~~~~~   68 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP-MITPCSHTFCSLCIRKFLSY----------KPQCPTCCVTVT   68 (442)
T ss_pred             HHHHHHhHHHHHhcCc-eeccccchHHHHHHHHHhcc----------CCCCCceecccc
Confidence            4567899999999999 45589999999999999984          689999988763

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

Probab=98.33  E-value=4.2e-07  Score=69.02  Aligned_cols=49  Identities=31%  Similarity=0.730  Sum_probs=36.7

Q ss_pred             CCcccccccCCCC------------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           18 PNPCPICLGPVVE------------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        18 ~~~CpICl~~~~~------------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +..|+||...|..            |...-.|+|.|+..||.+|+...+       +...||+||++.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~-------~~~~CPmCR~~w   81 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS-------SKGQCPMCRQPW   81 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc-------CCCCCCCcCCee
Confidence            4556666665542            556668999999999999998532       346999999875

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

Probab=98.29  E-value=6.6e-08  Score=89.41  Aligned_cols=90  Identities=18%  Similarity=0.453  Sum_probs=64.6

Q ss_pred             CCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce--eecccCCcceeccccc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI--IHGYDGTYFQRNYISQ   92 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~--~~~~~~~~~~~~y~~~   92 (272)
                      .....+|.+|.+.+.++.+++.|.|+||..||...+..          ...||.|...+...  .+++..+...+..+.+
T Consensus        12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~----------~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyK   81 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE----------SKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYK   81 (331)
T ss_pred             cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH----------hccCCccceeccCccccccCCcchHHHHHHHH
Confidence            34567899999999999999999999999999999884          68999999877544  4555554433444433


Q ss_pred             CCCCcccccccccccccccccCCCC
Q 045854           93 IFGDSFFFSKAHRYRLQSYYTEPGI  117 (272)
Q Consensus        93 ~~~~s~~~~~~~~~R~r~~~~~~g~  117 (272)
                      ..+   .+......|++.||...|+
T Consensus        82 LVP---gl~erE~k~~rdFy~~~~~  103 (331)
T KOG2660|consen   82 LVP---GLQEREMKRRRDFYKSRPL  103 (331)
T ss_pred             Hcc---hHHHHHHHHHHHHHHhCCC
Confidence            333   2233444566778877664

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

Probab=98.27  E-value=2.9e-07  Score=83.86  Aligned_cols=48  Identities=25%  Similarity=0.552  Sum_probs=41.5

Q ss_pred             CCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .+..+.|-||...+..|+. ++|||+||.-||...+..          .+.||+|+.+.
T Consensus        22 LDs~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~~----------qp~CP~Cr~~~   69 (391)
T COG5432          22 LDSMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLGT----------QPFCPVCREDP   69 (391)
T ss_pred             chhHHHhhhhhheeeccee-cccccchhHHHHHHHhcC----------CCCCccccccH
Confidence            4556889999999999954 489999999999999883          78999999865

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

Probab=98.24  E-value=3.8e-07  Score=92.25  Aligned_cols=47  Identities=26%  Similarity=0.581  Sum_probs=40.9

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +.++||.|-..+++.+. ..|||.||..|+.+.+..         +..+||.|.+.|
T Consensus       642 ~~LkCs~Cn~R~Kd~vI-~kC~H~FC~~Cvq~r~et---------RqRKCP~Cn~aF  688 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDAVI-TKCGHVFCEECVQTRYET---------RQRKCPKCNAAF  688 (698)
T ss_pred             hceeCCCccCchhhHHH-HhcchHHHHHHHHHHHHH---------hcCCCCCCCCCC
Confidence            56899999999998744 479999999999999886         578999999865

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

Probab=98.22  E-value=1.2e-06  Score=79.24  Aligned_cols=60  Identities=30%  Similarity=0.601  Sum_probs=48.4

Q ss_pred             CCCCCCCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854            8 GGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus         8 ~~~s~~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +..+++....+.+||+|.+....|..+.+|||.||+.||..-....        .++.||.|..+...
T Consensus       229 p~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~--------asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  229 PKFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWD--------ASFTCPLCGENVEP  288 (298)
T ss_pred             CCcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcch--------hhcccCccCCCCcc
Confidence            4445566778899999999999999998999999999998854432        26899999987543

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

Probab=98.21  E-value=6.8e-07  Score=66.07  Aligned_cols=48  Identities=17%  Similarity=0.244  Sum_probs=37.3

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +.+.||||.+.+.+|+.+ +|||+|+..||..|++.         ....||+|+.++.
T Consensus         3 ~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~---------~~~~~P~t~~~l~   50 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQ---------NGGTDPFTRQPLS   50 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCT---------TSSB-TTT-SB-S
T ss_pred             cccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHc---------CCCCCCCCCCcCC
Confidence            457899999999999777 89999999999999983         3689999988764

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 ....

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

Probab=98.19  E-value=3.7e-07  Score=63.36  Aligned_cols=54  Identities=30%  Similarity=0.694  Sum_probs=43.4

Q ss_pred             CCcccccccCCCCceeecCCCC-cccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeeccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFH-KFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYD   81 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH-~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~   81 (272)
                      ...|.||.+...+. ++-.||| ..|+.|-.+.++.         ....||+||+++..+|..+.
T Consensus         7 ~dECTICye~pvds-VlYtCGHMCmCy~Cg~rl~~~---------~~g~CPiCRapi~dvIkTY~   61 (62)
T KOG4172|consen    7 SDECTICYEHPVDS-VLYTCGHMCMCYACGLRLKKA---------LHGCCPICRAPIKDVIKTYR   61 (62)
T ss_pred             ccceeeeccCcchH-HHHHcchHHhHHHHHHHHHHc---------cCCcCcchhhHHHHHHHhhc
Confidence            37899999999887 4447999 6899999886662         46799999999988776543

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

Probab=98.18  E-value=5.5e-07  Score=79.79  Aligned_cols=48  Identities=31%  Similarity=0.721  Sum_probs=40.8

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT   71 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~   71 (272)
                      ....+...|+||++.+..| .+.+|||+||..|+..++.          ....||.|+.
T Consensus         8 ~~~~~~~~C~iC~~~~~~p-~~l~C~H~~c~~C~~~~~~----------~~~~Cp~cr~   55 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREP-VLLPCGHNFCRACLTRSWE----------GPLSCPVCRP   55 (386)
T ss_pred             hhccccccChhhHHHhhcC-ccccccchHhHHHHHHhcC----------CCcCCcccCC
Confidence            3456788999999999999 6668999999999999875          2479999993

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

Probab=98.18  E-value=1.4e-06  Score=81.79  Aligned_cols=47  Identities=23%  Similarity=0.738  Sum_probs=38.7

Q ss_pred             CCCCcccccccCCCC-------------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVE-------------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~-------------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .++..|.||++.+..             |..+ ||||.++..|++.|++.          +.+||+||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ER----------qQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLER----------QQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHh----------ccCCCcccCcc
Confidence            456789999998433             2455 89999999999999994          67999999985

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.13  E-value=2.1e-06  Score=79.59  Aligned_cols=48  Identities=27%  Similarity=0.535  Sum_probs=35.1

Q ss_pred             CCcccccccC-CCCce---eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           18 PNPCPICLGP-VVEDS---YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        18 ~~~CpICl~~-~~~p~---~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +..||+|... +.+|.   .+.+|||.||..|+...+..         +...||.|+.++.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~---------~~~~CP~C~~~lr   54 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR---------GSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC---------CCCCCCCCCCccc
Confidence            4579999984 23332   33379999999999996542         3568999998653

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).

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

Probab=98.10  E-value=5.3e-07  Score=64.78  Aligned_cols=44  Identities=34%  Similarity=0.769  Sum_probs=24.5

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      +...|++|.+.+..|+.+..|.|.||..||..-+.            ..||+|..+
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~------------~~CPvC~~P   49 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG------------SECPVCHTP   49 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT------------TB-SSS--B
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC------------CCCCCcCCh
Confidence            35789999999999998899999999999976433            469999986

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

Probab=98.04  E-value=4.8e-07  Score=84.37  Aligned_cols=50  Identities=32%  Similarity=0.812  Sum_probs=42.3

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ....|+|||+.+...++...|+|.||+.||..-++.         +...||.||+...+
T Consensus        42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~---------gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS---------GNNECPTCRKKLVS   91 (381)
T ss_pred             hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh---------cCCCCchHHhhccc
Confidence            467899999999998788899999999999887664         56899999987643

>PF01480 PWI: PWI domain; InterPro: IPR002483 The PWI domain, named after a highly conserved PWI tri-peptide located within its N-terminal region, is a ~80 amino acid module, which is found either at the N terminus or at the C terminus of eukaryotic proteins involved in pre-mRNA processing []

Probab=98.01  E-value=4.7e-06  Score=62.31  Aligned_cols=68  Identities=22%  Similarity=0.523  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccchhhhHHHHHHHHH
Q 045854          139 WLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLFL  218 (272)
Q Consensus       139 Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~~t~~F~HEl~~Fa  218 (272)
                      .+.|||.+.|.-+++.+| +++++||++.|++-      .   .....+..+    +.+.|.+||++.|..|+++|+..+
T Consensus         3 ~lk~WI~~kl~e~lG~ed-d~lvdyI~~~l~~~------~---~~~~~~~~~----l~~~L~~fL~~~a~~Fv~~Lw~~l   68 (77)
T PF01480_consen    3 KLKPWISKKLEEILGFED-DVLVDYIVALLKSH------K---SSNEPDPKE----LQEQLEDFLDEEAEEFVDELWRLL   68 (77)
T ss_dssp             HHHHHHHHHHHHHHSS---CHHHHHHHHHCCTT-----------SSS--HHH----HHHHHTTTTGHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCc-HHHHHHHHHHHHhc------c---ccccccHHH----HHHHHHHHHHhhHHHHHHHHHHHH
Confidence            589999999999999644 57889999886531      0   001112333    456789999999999999999987


Q ss_pred             hC
Q 045854          219 AS  220 (272)
Q Consensus       219 ~S  220 (272)
                      -|
T Consensus        69 ~~   70 (77)
T PF01480_consen   69 IS   70 (77)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

It is generally found in association with other domains such as RRM and RS. The PWI domain is a RNA/DNA-binding domain that has an equal preference for single- and double-stranded nucleic acids and is likely to have multiple important functions in pre-mRNA processing []. Proteins containing this domain include the SR-related nuclear matrix protein of 160kDa (SRm160) splicing and 3'-end cleavage-stimulatory factor, and the mammalian splicing factor PRP3. The PWI domain is a soluble, globular and independently folded domain which consists of a four-helix bundle, with structured N- and C-terminal elements [].; GO: 0006397 mRNA processing; PDB: 1MP1_A 1X4Q_A.

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

Probab=98.00  E-value=4.4e-06  Score=76.72  Aligned_cols=49  Identities=29%  Similarity=0.679  Sum_probs=40.3

Q ss_pred             CCCcccccccCCC--CceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVV--EDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~--~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....|+||+..+.  +..+.+||.|.|+..|+..|+..         -..+||+||+++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~---------y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG---------YSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh---------hcccCCccCCCCC
Confidence            4578999999885  35666799999999999999873         3579999998764

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

Probab=97.99  E-value=2.8e-06  Score=84.93  Aligned_cols=46  Identities=30%  Similarity=0.673  Sum_probs=39.8

Q ss_pred             CCCCcccccccCCCC-----ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           16 ENPNPCPICLGPVVE-----DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        16 ~~~~~CpICl~~~~~-----p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      .....|+||++.+..     +..+ +|+|.||..|+..|++.          ...||+||..
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er----------~qtCP~CR~~  339 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFER----------QQTCPTCRTV  339 (543)
T ss_pred             hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHH----------hCcCCcchhh
Confidence            347889999999988     5555 89999999999999995          5799999983

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

Probab=97.93  E-value=8.7e-06  Score=76.29  Aligned_cols=51  Identities=25%  Similarity=0.640  Sum_probs=42.0

Q ss_pred             CCCCcccccccCCCCceeecCCCC-cccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccccee
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFH-KFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSII   77 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH-~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~   77 (272)
                      +....|.||+....+.+.+ ||.| ..|..|.+...-+          ...||+||+++...+
T Consensus       288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q----------~n~CPICRqpi~~ll  339 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQ----------TNNCPICRQPIEELL  339 (349)
T ss_pred             cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHh----------hcCCCccccchHhhh
Confidence            4567899999999998666 8999 7899999887632          578999999886554

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

Probab=97.91  E-value=4.7e-06  Score=76.45  Aligned_cols=50  Identities=36%  Similarity=0.657  Sum_probs=41.2

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccccee
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSII   77 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~   77 (272)
                      ...|+||+....-|+.+ +|+|.||+-||+--.+.         ....|++||.+|.+.|
T Consensus         7 ~~eC~IC~nt~n~Pv~l-~C~HkFCyiCiKGsy~n---------dk~~CavCR~pids~i   56 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNL-YCFHKFCYICIKGSYKN---------DKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CCcceeeeccCCcCccc-cccchhhhhhhcchhhc---------CCCCCceecCCCCcch
Confidence            45799999999999666 79999999999886654         3567999999986543

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

Probab=97.59  E-value=2.5e-05  Score=55.15  Aligned_cols=45  Identities=29%  Similarity=0.541  Sum_probs=32.1

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCC
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPL   68 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPl   68 (272)
                      .-...|||.+..+.+|+....|||+|....|.+|++.        .....||.
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~--------~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQR--------NGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTT--------TS-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHh--------cCCCCCCC
Confidence            3467899999999999998899999999999999942        14678998

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

Probab=97.50  E-value=6.3e-05  Score=71.09  Aligned_cols=61  Identities=28%  Similarity=0.716  Sum_probs=45.1

Q ss_pred             CCCCcccccccCCCCce-------eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeec
Q 045854           16 ENPNPCPICLGPVVEDS-------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHG   79 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~-------~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~   79 (272)
                      ..+..|.||++......       .+.+|.|.||..||..|....+   ....-.+.||.||.....+++.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q---~~~~~sksCP~CRv~s~~v~pS  226 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQ---FESKTSKSCPFCRVPSSFVNPS  226 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhc---cccccccCCCcccCcccccccc
Confidence            45788999999887654       2357999999999999986421   1223468999999876655544

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

Probab=97.37  E-value=0.00012  Score=54.82  Aligned_cols=34  Identities=29%  Similarity=0.577  Sum_probs=28.2

Q ss_pred             ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           31 DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        31 p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      |+....|.|.|+..||.+|+..          ...||++++++.
T Consensus        48 ~v~wG~CnHaFH~HCI~rWL~T----------k~~CPld~q~w~   81 (88)
T COG5194          48 PVVWGVCNHAFHDHCIYRWLDT----------KGVCPLDRQTWV   81 (88)
T ss_pred             eEEEEecchHHHHHHHHHHHhh----------CCCCCCCCceeE
Confidence            4455579999999999999984          579999998753

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

Probab=97.34  E-value=3.1e-05  Score=57.37  Aligned_cols=37  Identities=27%  Similarity=0.713  Sum_probs=29.7

Q ss_pred             ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           31 DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        31 p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      |.++-.|.|.|...||.+|+...+       +...||+||+.+.
T Consensus        45 PLv~G~C~h~fh~hCI~~wl~~~t-------sq~~CPmcRq~~~   81 (84)
T KOG1493|consen   45 PLVWGYCLHAFHAHCILKWLNTPT-------SQGQCPMCRQTWQ   81 (84)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCcc-------ccccCCcchheeE
Confidence            555667999999999999998533       4579999998753

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

Probab=97.30  E-value=0.00015  Score=69.93  Aligned_cols=51  Identities=27%  Similarity=0.708  Sum_probs=43.9

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ..+++..|++|..++.+|...+.|||.||..|+..|...          ...||.|+....
T Consensus        17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~----------~~~cp~~~~~~~   67 (391)
T KOG0297|consen   17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN----------HQKCPVCRQELT   67 (391)
T ss_pred             CCcccccCccccccccCCCCCCCCCCcccccccchhhcc----------CcCCcccccccc
Confidence            367789999999999999775589999999999999883          579999987654

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

Probab=97.26  E-value=0.00016  Score=69.58  Aligned_cols=49  Identities=27%  Similarity=0.638  Sum_probs=41.7

Q ss_pred             CCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...++.|.||...+..|+.+ ||||.||..||.+-+.          ....||+||.++.
T Consensus        81 ~~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld----------~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLD----------QETECPLCRDELV  129 (398)
T ss_pred             ccchhhhhhhHhhcCCCccc-cccccccHHHHHHHhc----------cCCCCcccccccc
Confidence            35678899999999999777 9999999999988554          3679999998775

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

Probab=97.24  E-value=0.00016  Score=69.74  Aligned_cols=48  Identities=25%  Similarity=0.714  Sum_probs=38.5

Q ss_pred             CCCCCCCcccccccCCCCce---eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           13 CSSENPNPCPICLGPVVEDS---YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~---~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      ....+-.+||+||+.+...+   ....|.|+|...|+..|..            .+||+||-.
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~------------~scpvcR~~  220 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD------------SSCPVCRYC  220 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc------------CcChhhhhh
Confidence            34556789999999887643   5558999999999999965            589999853

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

Probab=97.06  E-value=0.00033  Score=68.26  Aligned_cols=51  Identities=29%  Similarity=0.779  Sum_probs=38.8

Q ss_pred             CCCCCcccccccCCCC-----c-----------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           15 SENPNPCPICLGPVVE-----D-----------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~-----p-----------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ......|+||+.++.-     +           ..++||.|.|+..|+.+|+..         ....||.||.++.
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~---------ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT---------YKLICPVCRCPLP  634 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh---------hcccCCccCCCCC
Confidence            3445679999987632     1           234599999999999999984         2468999998753

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

Probab=97.00  E-value=0.0002  Score=72.94  Aligned_cols=52  Identities=25%  Similarity=0.575  Sum_probs=39.3

Q ss_pred             CCCcccccccCCCCceee--cCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceee
Q 045854           17 NPNPCPICLGPVVEDSYL--DKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH   78 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l--~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~   78 (272)
                      ....||+|+..+.+....  .+|+|.||..|+..|.+.          ..+||+||.+|..++.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~----------aqTCPiDR~EF~~v~V  175 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC----------AQTCPVDRGEFGEVKV  175 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh----------cccCchhhhhhheeee
Confidence            345688888776553222  379999999999999985          5699999999865543

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

Probab=97.00  E-value=0.00037  Score=60.79  Aligned_cols=47  Identities=23%  Similarity=0.528  Sum_probs=39.3

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .-.+.|.||...+..|++. .|||.||..|..+-.+          ....|-+|.+..
T Consensus       194 ~IPF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~----------kg~~C~~Cgk~t  240 (259)
T COG5152         194 KIPFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQ----------KGDECGVCGKAT  240 (259)
T ss_pred             CCceeehhchhhccchhhh-hcchhHHHHHHHHHhc----------cCCcceecchhh
Confidence            3467899999999999666 7999999999988766          368999998753

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

Probab=96.99  E-value=8.4e-05  Score=68.08  Aligned_cols=49  Identities=24%  Similarity=0.657  Sum_probs=38.8

Q ss_pred             CCCcccccccCCCCceeecCCCC-cccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeecc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFH-KFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY   80 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH-~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~   80 (272)
                      ....|.||++...+-++| +||| +-|..|-.+              ...||+||+.+..+++-+
T Consensus       299 ~~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkr--------------m~eCPICRqyi~rvvrif  348 (350)
T KOG4275|consen  299 TRRLCAICMDAPRDCVFL-ECGHMVTCTKCGKR--------------MNECPICRQYIVRVVRIF  348 (350)
T ss_pred             HHHHHHHHhcCCcceEEe-ecCcEEeehhhccc--------------cccCchHHHHHHHHHhhh
Confidence            367899999999998666 7999 779999655              358999999776665543

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

Probab=96.98  E-value=0.00031  Score=51.60  Aligned_cols=57  Identities=21%  Similarity=0.483  Sum_probs=25.5

Q ss_pred             CCcccccccCCC-C---ceee---cCCCCcccHHHHHHHHHHhhhcccCC-CCCCCCCCCCcccc
Q 045854           18 PNPCPICLGPVV-E---DSYL---DKCFHKFCYNCIVHWTKVVASKHSSL-LSSVKCPLCKTENV   74 (272)
Q Consensus        18 ~~~CpICl~~~~-~---p~~l---~~CgH~FC~~Ci~~w~~~~~~k~~~~-~~~~~CPlCr~~~~   74 (272)
                      +..|+||..... +   |...   ..|+..|+..||.+|+.......... .....||.|++++.
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            457999998765 2   2111   27899999999999998533221111 12246999998764

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

Probab=96.93  E-value=0.00047  Score=64.91  Aligned_cols=52  Identities=21%  Similarity=0.590  Sum_probs=39.4

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeec
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHG   79 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~   79 (272)
                      .......|.||++...+.+.+ ||||.-|  |..-..+           ...||+||..+...+..
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fv-pcGh~cc--ct~cs~~-----------l~~CPvCR~rI~~~~k~  352 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFV-PCGHVCC--CTLCSKH-----------LPQCPVCRQRIRLVRKR  352 (355)
T ss_pred             ccCCCCceEEecCCccceeee-cCCcEEE--chHHHhh-----------CCCCchhHHHHHHHHHH
Confidence            344567899999999997666 8999877  7665544           46799999987655443

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

Probab=96.91  E-value=0.00055  Score=64.35  Aligned_cols=48  Identities=31%  Similarity=0.789  Sum_probs=41.1

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +++..||||.....+.++. ||+|.-|+.||.+.+.+          .+.|-.|++.+.
T Consensus       420 sEd~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlmN----------~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLMN----------CKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceecccchhhcc-CCCCchHHHHHHHHHhc----------CCeeeEecceee
Confidence            5778999999988887555 89999999999998884          679999998654

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

Probab=96.88  E-value=0.00037  Score=72.36  Aligned_cols=52  Identities=25%  Similarity=0.610  Sum_probs=38.9

Q ss_pred             CCCCcccccccCCCC-----c-eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           16 ENPNPCPICLGPVVE-----D-SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        16 ~~~~~CpICl~~~~~-----p-~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +....|+||...+..     | .+-..|.|.|+..|+..|.+.        ++..+||+||.+++.
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~S--------s~~s~CPlCRseitf 1524 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS--------SARSNCPLCRSEITF 1524 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHh--------cCCCCCCcccccccc
Confidence            345689999976641     1 123369999999999999984        246799999987653

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

Probab=96.82  E-value=0.0005  Score=65.54  Aligned_cols=47  Identities=26%  Similarity=0.700  Sum_probs=38.3

Q ss_pred             cccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           20 PCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        20 ~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      .|.||-+.-++. .+.||||..|..|+..|...        ..+..||.||.++..
T Consensus       371 LCKICaendKdv-kIEPCGHLlCt~CLa~WQ~s--------d~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAENDKDV-KIEPCGHLLCTSCLAAWQDS--------DEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhccCCCc-ccccccchHHHHHHHhhccc--------CCCCCCCceeeEecc
Confidence            599999987775 66799999999999999752        126789999998743

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

Probab=96.82  E-value=0.0004  Score=54.39  Aligned_cols=45  Identities=31%  Similarity=0.765  Sum_probs=33.7

Q ss_pred             CCcccccccCCCC----------------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           18 PNPCPICLGPVVE----------------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        18 ~~~CpICl~~~~~----------------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      -+.|+||..-+-+                .+.-..|.|.|++.||.+|+++          ...||+|.++
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt----------r~vCPLdn~e  106 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT----------RNVCPLDNKE  106 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh----------cCcCCCcCcc
Confidence            3579998754422                1222379999999999999995          6799999875

>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]

Probab=96.77  E-value=0.00035  Score=69.20  Aligned_cols=253  Identities=20%  Similarity=0.147  Sum_probs=147.7

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc-ceeecccCCcceecccccC--
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV-SIIHGYDGTYFQRNYISQI--   93 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~-~~~~~~~~~~~~~~y~~~~--   93 (272)
                      ....|++|.+.+..-.....|.|.||..|+.+|.+..-+.-...-....|++|-.... ..+....+..|.+....-.  
T Consensus        34 l~s~~~~~~g~fr~~s~~~~r~np~~ihr~~~W~~r~i~~l~~t~~s~v~~~~~~~~~~~~~~~l~~~~f~~~l~~fl~~  113 (553)
T KOG4430|consen   34 LYSLPYPESGRFRRESREIFRFNPFCIHRLMQWKKRDISVLNRTRGSDVNDLQDLIMNLLPRLSLESLAFRRELEEFLYA  113 (553)
T ss_pred             ccCCCcccccchhccchhhhccChhhhcccccchhhHHHHHhhhccccccceeehhcccccchhhccHHHHHHHHHHHhh
Confidence            3467899999887755656799999999999997743222111112223333321100 0000000111111110000  


Q ss_pred             -----------CCCc-cccccccc-ccccccccCCCCcccchhhhhhhhcccccchhhhHHHHHHHHHhHhhcccchHHH
Q 045854           94 -----------FGDS-FFFSKAHR-YRLQSYYTEPGILNDVFNVSRYWKSRKYLQSNQWLQSWLRREIQAVMQEEDVEIV  160 (272)
Q Consensus        94 -----------~~~s-~~~~~~~~-~R~r~~~~~~g~~~~~~~~~r~~~~~~~~~~~~Rl~~Wl~REL~~l~~~~~~~~~  160 (272)
                                 ...+ |......+ +-..--+...|...++.+.+.+|+...+.....-+..|+++|++.....++|.+.
T Consensus       114 ~t~hfihe~~~farSpft~~~~~~~~~~~~~~~~eg~~~d~~~ta~~~d~~~~le~~~~~~~~~~a~~~~d~pgp~v~V~  193 (553)
T KOG4430|consen  114 CTDHFIHELINFARSPFTMNGYKRNCSCSTRRLTEGDLRDVRNTAKSVDDRDFLENDLCLAARLKAETSSDRPGPRVHVP  193 (553)
T ss_pred             ccchhhhhhhccccCccchhhHhcccCcchhhhhhhcccccccccccccccccccccchhhhhhccccCcCCCCCcceec
Confidence                       0000 00000000 0000011245667788888888888777777788899999999998887788888


Q ss_pred             HHHHHH---HHHHHHH--hhhhcccCCCC---CCchHHHHHHHHhh--ccccccchhhhHHHHHHHHHhCCCChHHHHHH
Q 045854          161 VHHILG---VVDSFLK--RNKQRCQMGTP---ETKEEDFKALVSDA--ARPFLMARTDRFVNEMQLFLASALNIEAYDAV  230 (272)
Q Consensus       161 ~~~i~~---~l~~~~~--~~~~~~~~~~~---~~~~~ef~~~~~~~--~~~fl~~~t~~F~HEl~~Fa~Sp~~~~~yD~~  230 (272)
                      ..++++   ....+.+  ...|-...++.   .+.+..+.+.+...  ++|+..+++..++-|.+++..+...+..+|..
T Consensus       194 ~~~ll~t~~sdeef~~~~~i~Q~r~vgt~s~~~~~s~~~~a~v~~~~~~sp~~~~~s~~~~deq~~~~~~~~~~~~~~~~  273 (553)
T KOG4430|consen  194 SDSLLQTGESDEEFTISIEIKQIRNVGTKSSRNNLSSIVQATVVKKAPVSPVKKPHSKRELDEQENKNACGLCLSEADAK  273 (553)
T ss_pred             chhhhcccccchhhcchhhhhhhhhccchhHHhhhhhhhccccccccccCccCcccchhhhhhhhcccchhhchhhHhHH
Confidence            888877   3333322  11111111111   11355666667777  88999999999999999999999999999998


Q ss_pred             hhhccCCCCC------CccccCCCCCCCCCCcccceEEeecCCCCC
Q 045854          231 YMQRLGWNTP------RVTMESGEGETSGQTPVIPYLHIFDEDSDG  270 (272)
Q Consensus       231 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  270 (272)
                      .+.++-=.+-      +.-.++.+ +..-..++++|..|+.+..+|
T Consensus       274 eqk~l~~~~~~~~g~tsl~~e~~~-~~v~~~~~tk~~~~~~e~r~G  318 (553)
T KOG4430|consen  274 EQKGLEGNNQRQTGATSLMEEEAV-ESVCPLRVTKVRTISKEARQG  318 (553)
T ss_pred             Hhhhhhhcccchhhhhhhhhhhhh-hhhhhcccccccccccccccC
Confidence            8885433332      22222223 455578899999998887663

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

Probab=96.66  E-value=0.00065  Score=62.44  Aligned_cols=48  Identities=27%  Similarity=0.508  Sum_probs=39.8

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      .+.|-||...+..|++. .|+|.||..|...-++          ....|++|.+....+
T Consensus       241 Pf~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~q----------k~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQ----------KGEKCYVCSQQTHGS  288 (313)
T ss_pred             Cccccccccccccchhh-cCCceeehhhhccccc----------cCCcceecccccccc
Confidence            46799999999999776 7999999999988766          367999998865433

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

Probab=96.57  E-value=0.0038  Score=52.67  Aligned_cols=62  Identities=26%  Similarity=0.503  Sum_probs=39.6

Q ss_pred             CCCcccccccCCCCceeec-----------CCCCcc-cHHHHHHHHHHhhhcccC---------------------CCCC
Q 045854           17 NPNPCPICLGPVVEDSYLD-----------KCFHKF-CYNCIVHWTKVVASKHSS---------------------LLSS   63 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~-----------~CgH~F-C~~Ci~~w~~~~~~k~~~---------------------~~~~   63 (272)
                      ++.+||||++.+.+.+.|.           -|+..+ ...|+.++.+........                     ....
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            3578999999999986664           132222 568999887643322111                     1125


Q ss_pred             CCCCCCCccccceee
Q 045854           64 VKCPLCKTENVSIIH   78 (272)
Q Consensus        64 ~~CPlCr~~~~~~~~   78 (272)
                      ..||+||..+..++-
T Consensus        81 L~CPLCRG~V~GWtv   95 (162)
T PF07800_consen   81 LACPLCRGEVKGWTV   95 (162)
T ss_pred             ccCccccCceeceEE
Confidence            689999998755543

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.

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

Probab=96.42  E-value=0.0025  Score=60.99  Aligned_cols=47  Identities=32%  Similarity=0.755  Sum_probs=37.2

Q ss_pred             CCcccccccCCCCc----eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           18 PNPCPICLGPVVED----SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        18 ~~~CpICl~~~~~p----~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      ..+||||++.+.-+    +....|||.|-..||..|+. +.       ....||.|...
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~-------~~~~cp~c~~k   54 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KK-------TKMQCPLCSGK   54 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hh-------hhhhCcccCCh
Confidence            46899999988653    34458999999999999996 22       35789999865

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

Probab=96.31  E-value=0.0021  Score=59.34  Aligned_cols=44  Identities=32%  Similarity=0.605  Sum_probs=38.5

Q ss_pred             CcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT   71 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~   71 (272)
                      +.||.|...+.+|+...-|+|.||..||..-+-.         +.+.||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d---------sDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD---------SDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhh---------ccccCCCccc
Confidence            7899999999999888779999999999986542         4689999976

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

Probab=96.29  E-value=0.002  Score=63.46  Aligned_cols=53  Identities=26%  Similarity=0.625  Sum_probs=42.0

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+...|.+|.++-++++.. .|.|.||..|+.+++....     .+...+||.|...+.
T Consensus       534 k~~~~C~lc~d~aed~i~s-~ChH~FCrlCi~eyv~~f~-----~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIES-SCHHKFCRLCIKEYVESFM-----ENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChhhhhHhh-hhhHHHHHHHHHHHHHhhh-----cccCCCCcccccccc
Confidence            4567899999999998555 7999999999999987432     234589999986653

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

Probab=96.28  E-value=0.0016  Score=59.21  Aligned_cols=50  Identities=28%  Similarity=0.572  Sum_probs=37.6

Q ss_pred             CCCCCcccccccCCCCce---------eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           15 SENPNPCPICLGPVVEDS---------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~---------~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      .-++..|+||-+.+....         ....|+|+|+-.||.-|.-.        |...+||-||..
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWciv--------GKkqtCPYCKek  279 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIV--------GKKQTCPYCKEK  279 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheee--------cCCCCCchHHHH
Confidence            345678999998775422         33379999999999999753        235799999975

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

Probab=96.23  E-value=0.0056  Score=41.78  Aligned_cols=42  Identities=21%  Similarity=0.612  Sum_probs=30.7

Q ss_pred             ccccccc--CCCCceeecCCC-----CcccHHHHHHHHHHhhhcccCCCCCCCCCCCC
Q 045854           20 PCPICLG--PVVEDSYLDKCF-----HKFCYNCIVHWTKVVASKHSSLLSSVKCPLCK   70 (272)
Q Consensus        20 ~CpICl~--~~~~p~~l~~Cg-----H~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr   70 (272)
                      .|.||++  .-.++ ...||.     |.++..|+.+|+...        +...||+|+
T Consensus         1 ~CrIC~~~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~--------~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDP-LVSPCRCKGSLKYVHQECLERWINES--------GNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCe-eEeccccCCchhHHHHHHHHHHHHHc--------CCCcCCCCC
Confidence            4889997  33344 455885     679999999999742        245899995

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

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

Probab=96.18  E-value=0.0041  Score=58.03  Aligned_cols=47  Identities=26%  Similarity=0.584  Sum_probs=39.9

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      .....||+|+....+|.++..-|-+||+.|+..++..          ...||+-..+
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~----------~~~CPVT~~p  344 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN----------YGHCPVTGYP  344 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHh----------cCCCCccCCc
Confidence            3456899999999999999888999999999999883          6899975443

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

Probab=96.08  E-value=0.0029  Score=60.17  Aligned_cols=46  Identities=26%  Similarity=0.649  Sum_probs=33.5

Q ss_pred             CCcccccccCCCC---ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCC
Q 045854           18 PNPCPICLGPVVE---DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCK   70 (272)
Q Consensus        18 ~~~CpICl~~~~~---p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr   70 (272)
                      ...|.||.+...+   -..+..|||+|+..|+.+|+....       ....||+|+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~P-------s~R~cpic~   52 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDP-------SNRGCPICQ   52 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCC-------ccCCCCcee
Confidence            3579999665533   122336999999999999998521       337999998

>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=95.80  E-value=0.0083  Score=41.14  Aligned_cols=48  Identities=19%  Similarity=0.514  Sum_probs=25.8

Q ss_pred             CcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      +.|||....+..|+....|.|.-|++ +..|+.....+     +...||+|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~-----~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRT-----PKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS--------B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhcc-----CCeECcCCcCc
Confidence            57999999999999999999987775 33455432222     34789999863

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.

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

Probab=95.78  E-value=0.0024  Score=57.22  Aligned_cols=42  Identities=31%  Similarity=0.709  Sum_probs=30.5

Q ss_pred             cccccccCC-CCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           20 PCPICLGPV-VEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        20 ~CpICl~~~-~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .|--|..-. .++-+++.|+|+||..|...-.            ...||+|+.++
T Consensus         5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~------------~~~C~lCkk~i   47 (233)
T KOG4739|consen    5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS------------PDVCPLCKKSI   47 (233)
T ss_pred             EeccccccCCCCceeeeechhhhhhhhcccCC------------cccccccccee
Confidence            465565433 5678899999999999975421            23899999873

>smart00311 PWI PWI, domain in splicing factors

Probab=95.43  E-value=0.053  Score=40.03  Aligned_cols=63  Identities=14%  Similarity=0.299  Sum_probs=44.7

Q ss_pred             hhHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccchhhhHHHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLF  217 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~~t~~F~HEl~~F  217 (272)
                      ..+.+|+.+.+.-++|-+| +.++.||++.+++.          ..|    ++    +...+..++...|+.|+-||+.-
T Consensus         7 ~~lk~WI~~kv~e~LG~~d-~~vvd~i~~~l~~~----------~~~----~~----l~~~L~~~~f~da~~Fv~~Lw~~   67 (74)
T smart00311        7 DEIKPWITKKVIEFLGFEE-DTLVEFILSQIRQH----------KGP----QA----KLLQINLTGFEDAEEFVDKLWRL   67 (74)
T ss_pred             HHHHHHHHHHHHHHHCCCh-HHHHHHHHHHHHhC----------CCh----HH----HHHHHHhhcchhHHHHHHHHHHH
Confidence            5688999999999998665 46778888887641          111    22    22345666666799999999876


Q ss_pred             Hh
Q 045854          218 LA  219 (272)
Q Consensus       218 a~  219 (272)
                      +-
T Consensus        68 l~   69 (74)
T smart00311       68 LI   69 (74)
T ss_pred             HH
Confidence            53

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

Probab=95.05  E-value=0.019  Score=47.21  Aligned_cols=53  Identities=28%  Similarity=0.544  Sum_probs=42.0

Q ss_pred             CCCcccccccCCCCceeecC---CCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           17 NPNPCPICLGPVVEDSYLDK---CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~---CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      .-..|-||.+...+.-++.|   ||-..|..|-...++..+       -.+.||.|++.+.+.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~-------~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN-------LYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc-------cCCCCCccccccccc
Confidence            35689999998888767654   899999999999777533       468999999987553

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.01  E-value=0.024  Score=51.69  Aligned_cols=50  Identities=28%  Similarity=0.423  Sum_probs=39.5

Q ss_pred             CCCCCCcccccccCCCC---ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVE---DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~---p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .......|||....+..   -+.+.+|||+|+..++.+.-.           ...||+|..++.
T Consensus       109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~-----------~~~Cp~c~~~f~  161 (260)
T PF04641_consen  109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKK-----------SKKCPVCGKPFT  161 (260)
T ss_pred             cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcc-----------cccccccCCccc
Confidence            34567899999998853   456779999999999988731           357999998864

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

Probab=94.96  E-value=0.037  Score=52.27  Aligned_cols=55  Identities=29%  Similarity=0.658  Sum_probs=40.1

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      ...++...|.||-+.+.-...+ ||+|..|-.|..+.-..-        ....||+||++...+
T Consensus        56 dtDEen~~C~ICA~~~TYs~~~-PC~H~~CH~Ca~RlRALY--------~~K~C~~CrTE~e~V  110 (493)
T COG5236          56 DTDEENMNCQICAGSTTYSARY-PCGHQICHACAVRLRALY--------MQKGCPLCRTETEAV  110 (493)
T ss_pred             ccccccceeEEecCCceEEEec-cCCchHHHHHHHHHHHHH--------hccCCCccccccceE
Confidence            3445667899999988766444 999999999987742211        247999999876443

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.70  E-value=0.025  Score=51.11  Aligned_cols=48  Identities=13%  Similarity=0.248  Sum_probs=40.6

Q ss_pred             CCCCcccccccCCCCc---eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVED---SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p---~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +....||+|.+.+.+.   +++.+|||++|..|+...+..          ...||+|-.++
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~----------D~v~pv~d~pl  269 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK----------DMVDPVTDKPL  269 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc----------cccccCCCCcC
Confidence            3567899999999874   457799999999999999873          67999998776

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

Probab=94.53  E-value=0.023  Score=38.76  Aligned_cols=44  Identities=23%  Similarity=0.570  Sum_probs=20.6

Q ss_pred             ccccccCCCCc-eee--cCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           21 CPICLGPVVED-SYL--DKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        21 CpICl~~~~~p-~~l--~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ||+|.+.+... ..+  =+||+..|..|....++.         ....||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~---------~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN---------EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS---------S-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc---------cCCCCCCCCCCC
Confidence            78898887321 111  268999999998776542         367999999864

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

Probab=93.93  E-value=0.019  Score=59.07  Aligned_cols=45  Identities=27%  Similarity=0.788  Sum_probs=35.6

Q ss_pred             CcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ..|.||++  .+..+++.|+|.||..|+...+...        ....||+|+..+
T Consensus       455 ~~c~ic~~--~~~~~it~c~h~~c~~c~~~~i~~~--------~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD--LDSFFITRCGHDFCVECLKKSIQQS--------ENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc--cccceeecccchHHHHHHHhccccc--------cCCCCcHHHHHH
Confidence            78999999  4455777999999999999977641        233799999764

>PHA03096 p28-like protein; Provisional

Probab=93.71  E-value=0.031  Score=51.80  Aligned_cols=51  Identities=22%  Similarity=0.296  Sum_probs=33.9

Q ss_pred             CcccccccCCCCc-------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           19 NPCPICLGPVVED-------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        19 ~~CpICl~~~~~p-------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ..|.||++.....       ..+..|.|.||..|+..|.....    .....+.||.|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~----~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL----YKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh----hcccCccccchhhHH
Confidence            5799999876532       34558999999999999987422    122334555555443

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

Probab=93.56  E-value=0.054  Score=50.53  Aligned_cols=48  Identities=27%  Similarity=0.557  Sum_probs=38.1

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      .+-+.||||.+.+..|+..-.=||.-|..|-.+.             ..+||.|+.++..+
T Consensus        46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~-------------~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV-------------SNKCPTCRLPIGNI   93 (299)
T ss_pred             hhhccCchhhccCcccceecCCCcEehhhhhhhh-------------cccCCccccccccH
Confidence            3457899999999999776344999999997643             46899999987643

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.33  E-value=0.037  Score=38.72  Aligned_cols=44  Identities=30%  Similarity=0.548  Sum_probs=32.5

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...|-.|...-...+.+ +|||..|..|..-+-            -..||+|.+++.
T Consensus         7 ~~~~~~~~~~~~~~~~~-pCgH~I~~~~f~~~r------------YngCPfC~~~~~   50 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTVL-PCGHLICDNCFPGER------------YNGCPFCGTPFE   50 (55)
T ss_pred             ceeEEEccccccccccc-cccceeeccccChhh------------ccCCCCCCCccc
Confidence            34577777766666455 899999999976553            368999998764

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

Probab=93.20  E-value=0.025  Score=52.64  Aligned_cols=45  Identities=29%  Similarity=0.564  Sum_probs=34.3

Q ss_pred             CcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ..|.-|--++..--++.+|.|+||++|...-            ..+.||.|-..+..
T Consensus        91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~------------~dK~Cp~C~d~Vqr  135 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSD------------SDKICPLCDDRVQR  135 (389)
T ss_pred             EeecccCCcceeeecccccchhhhhhhhhcC------------ccccCcCcccHHHH
Confidence            4578888877766677799999999997542            24689999876643

>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]

Probab=93.12  E-value=0.14  Score=47.31  Aligned_cols=66  Identities=18%  Similarity=0.388  Sum_probs=48.3

Q ss_pred             hhHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccc-hhhhHHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMA-RTDRFVNEMQL  216 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~-~t~~F~HEl~~  216 (272)
                      .=|.|||---|.-||+=+| ++|+++|++.|+.. +.  ...+.             ++=-|..||-+ +|..|+-||++
T Consensus        43 eVlkPWItkrvneilgfED-dVViefvynqLee~-k~--ldpkk-------------mQiNlTGFLngrnAreFmgeLW~  105 (354)
T KOG2146|consen   43 EVLKPWITKRVNEILGFED-DVVIEFVYNQLEEA-KN--LDPKK-------------MQINLTGFLNGRNAREFMGELWS  105 (354)
T ss_pred             hhhhHHHHHHHHHhhcccc-chhHHHHHHHHhhh-cC--CCchh-------------eeeeeehhcccccHHHHHHHHHH
Confidence            4478999999999998655 68889999887753 11  11111             11135889985 69999999999


Q ss_pred             HHhC
Q 045854          217 FLAS  220 (272)
Q Consensus       217 Fa~S  220 (272)
                      -|-|
T Consensus       106 LliS  109 (354)
T KOG2146|consen  106 LLIS  109 (354)
T ss_pred             HHHh
Confidence            9977

>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=92.69  E-value=0.09  Score=48.50  Aligned_cols=45  Identities=22%  Similarity=0.658  Sum_probs=34.1

Q ss_pred             cccccccCC-CCc---eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           20 PCPICLGPV-VED---SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        20 ~CpICl~~~-~~p---~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .||+|.... .+|   ..+.+|+|..|-+|+...+..         +...||.|...+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~---------g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL---------GPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhc---------CCCCCCcccchh
Confidence            599998633 343   234499999999999998764         578999998754

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

Probab=92.55  E-value=0.079  Score=48.76  Aligned_cols=46  Identities=30%  Similarity=0.657  Sum_probs=36.0

Q ss_pred             CCcccccccCCCC------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           18 PNPCPICLGPVVE------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        18 ~~~CpICl~~~~~------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ...|-||-+.+..      |..+ .|||++|..|+......         ....||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~---------~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGN---------SRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcC---------ceeeccCCCCcc
Confidence            3569999887754      5444 69999999999988774         457889999874

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

Probab=91.99  E-value=0.052  Score=54.90  Aligned_cols=51  Identities=27%  Similarity=0.502  Sum_probs=36.9

Q ss_pred             CCCcccccccCCCC----ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeeccc
Q 045854           17 NPNPCPICLGPVVE----DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYD   81 (272)
Q Consensus        17 ~~~~CpICl~~~~~----p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~   81 (272)
                      +-+.|+||+..+..    |+.+ .|||+.|..|+.....            ..|| |+..-+++.+..+
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn------------~scp-~~~De~~~~~~~~   64 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYN------------ASCP-TKRDEDSSLMQLK   64 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhh------------ccCC-CCccccchhcChh
Confidence            45689999887754    6566 6999999999987654            5899 7655455544443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.84  E-value=0.12  Score=48.69  Aligned_cols=51  Identities=22%  Similarity=0.593  Sum_probs=35.0

Q ss_pred             CCCCCCcccccccCCCC--c-eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           14 SSENPNPCPICLGPVVE--D-SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~--p-~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +.++++.||.|.+++..  . ..--+||-..|.-|....-+.         -...||-||...
T Consensus        10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~---------lngrcpacrr~y   63 (480)
T COG5175          10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN---------LNGRCPACRRKY   63 (480)
T ss_pred             cccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh---------ccCCChHhhhhc
Confidence            34455569999998753  2 122368888888887776553         357899999764

>PHA02862 5L protein; Provisional

Probab=91.78  E-value=0.21  Score=41.69  Aligned_cols=45  Identities=27%  Similarity=0.527  Sum_probs=33.9

Q ss_pred             CcccccccCCCCceeecCCCCc-----ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHK-----FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~-----FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ..|-||.+.-.+.  ..||...     -+..|+.+|+..        .+...|++|+.++
T Consensus         3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~--------S~k~~CeLCkteY   52 (156)
T PHA02862          3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINY--------SKKKECNLCKTKY   52 (156)
T ss_pred             CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhc--------CCCcCccCCCCeE
Confidence            5799999986544  3577652     488999999973        2467999999875

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

Probab=91.74  E-value=0.24  Score=47.37  Aligned_cols=34  Identities=21%  Similarity=0.652  Sum_probs=23.5

Q ss_pred             cccHHHHHHHHHHhhhccc---CCCCCCCCCCCCccc
Q 045854           40 KFCYNCIVHWTKVVASKHS---SLLSSVKCPLCKTEN   73 (272)
Q Consensus        40 ~FC~~Ci~~w~~~~~~k~~---~~~~~~~CPlCr~~~   73 (272)
                      .-|..|+-+|+...+.++.   .-++...||+||+.|
T Consensus       314 mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F  350 (358)
T PF10272_consen  314 MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF  350 (358)
T ss_pred             hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence            4489999999875432221   234567899999975

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

>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=91.66  E-value=0.07  Score=41.17  Aligned_cols=32  Identities=25%  Similarity=0.566  Sum_probs=25.8

Q ss_pred             CCCCcccccccCCCCc-eeecCCCCcccHHHHH
Q 045854           16 ENPNPCPICLGPVVED-SYLDKCFHKFCYNCIV   47 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p-~~l~~CgH~FC~~Ci~   47 (272)
                      ++...|++|...+.+. ....||||.|+..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            4567799999999864 3455999999999975

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 [].

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

Probab=91.51  E-value=0.094  Score=50.95  Aligned_cols=35  Identities=29%  Similarity=0.563  Sum_probs=30.6

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHH
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTK   51 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~   51 (272)
                      ++++.|+||..-+.+|+.+ +|+|+.|..|....+.
T Consensus         2 eeelkc~vc~~f~~epiil-~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIIL-PCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccCceEe-ecccHHHHHHHHhhcc
Confidence            5678999999999999777 7999999999987654

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

Probab=91.39  E-value=0.053  Score=58.56  Aligned_cols=47  Identities=30%  Similarity=0.689  Sum_probs=39.4

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      .....|+||++.+.+...+..|||.+|..|...|+..          +..||+|+..
T Consensus      1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~----------~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA----------SSRCPICKSI 1197 (1394)
T ss_pred             hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH----------hccCcchhhh
Confidence            3566899999999865566679999999999999984          6799999854

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=91.04  E-value=0.37  Score=40.87  Aligned_cols=48  Identities=19%  Similarity=0.409  Sum_probs=34.7

Q ss_pred             CCCCcccccccCCCCceeecCCCCc-----ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHK-----FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~-----FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ..+..|-||.+.-..  ...||...     -+.+|+.+|+..        ++...|++|++++
T Consensus         6 ~~~~~CRIC~~~~~~--~~~PC~CkGs~k~VH~sCL~rWi~~--------s~~~~CeiC~~~Y   58 (162)
T PHA02825          6 LMDKCCWICKDEYDV--VTNYCNCKNENKIVHKECLEEWINT--------SKNKSCKICNGPY   58 (162)
T ss_pred             CCCCeeEecCCCCCC--ccCCcccCCCchHHHHHHHHHHHhc--------CCCCcccccCCeE
Confidence            345679999987643  23467653     289999999984        2467899999863

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

Probab=90.48  E-value=0.11  Score=53.99  Aligned_cols=44  Identities=25%  Similarity=0.472  Sum_probs=37.5

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...|.+|-..+.-|.+--.|||.|+..|+..             +...||.|+.+..
T Consensus       840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~-------------~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLED-------------KEDKCPKCLPELR  883 (933)
T ss_pred             eeeecccCCccccceeeeecccHHHHHhhcc-------------CcccCCccchhhh
Confidence            3589999999999988889999999999972             3679999998543

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

Probab=90.23  E-value=0.1  Score=50.06  Aligned_cols=49  Identities=20%  Similarity=0.400  Sum_probs=36.4

Q ss_pred             CCcccccccCCC---CceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           18 PNPCPICLGPVV---EDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        18 ~~~CpICl~~~~---~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+.|..|-+.+-   ......||.|.|+..|+.+++.+.        ...+||-||+-..
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n--------~~rsCP~CrklrS  416 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN--------GTRSCPNCRKLRS  416 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC--------CCCCCccHHHHHh
Confidence            567999987663   223445999999999999998742        4679999995433

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

Probab=90.09  E-value=0.23  Score=54.62  Aligned_cols=56  Identities=21%  Similarity=0.447  Sum_probs=39.3

Q ss_pred             CCCCCCcccccccCC--CCceeecCCCCcccHHHHHHHHHHhhhcccCCCC-----CCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPV--VEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLS-----SVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~--~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~-----~~~CPlCr~~~~   74 (272)
                      .-+.++.|-||...-  ..|.....|+|.|++.|..+.++.     ...|.     -..||+|+.++.
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~-----RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLEN-----RWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHh-----cccCCeeEEeeeecccccchhh
Confidence            345678899998743  346565689999999999887763     11111     257999998764

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

Probab=89.86  E-value=0.23  Score=47.95  Aligned_cols=53  Identities=25%  Similarity=0.475  Sum_probs=36.7

Q ss_pred             CCcccccccCCCC--ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           18 PNPCPICLGPVVE--DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        18 ~~~CpICl~~~~~--p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      ...|.||.+....  -....||+|.||..|+..+......  .-..+..+||-++..
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~--eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQ--EGQVSCLKCPDPKCG  238 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhh--cceeeeecCCCCCCc
Confidence            4679999987754  3455699999999999998764321  111234688877654

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

Probab=89.65  E-value=0.13  Score=47.82  Aligned_cols=64  Identities=19%  Similarity=0.396  Sum_probs=40.5

Q ss_pred             CCCcccccccCCCC-c-eeecCCCCcccHHHHHHHHHHhh----------hc---ccCCCCCCCCCCCCccccceeecc
Q 045854           17 NPNPCPICLGPVVE-D-SYLDKCFHKFCYNCIVHWTKVVA----------SK---HSSLLSSVKCPLCKTENVSIIHGY   80 (272)
Q Consensus        17 ~~~~CpICl~~~~~-p-~~l~~CgH~FC~~Ci~~w~~~~~----------~k---~~~~~~~~~CPlCr~~~~~~~~~~   80 (272)
                      ....|.|||--|.. + .+.++|.|-|++.|+.+++...-          .+   |..-.-...||+|+..+..-...+
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~sl  192 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSL  192 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccce
Confidence            34579999988864 3 45669999999999977654211          00   111123456999998764433333

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

Probab=89.52  E-value=0.45  Score=42.62  Aligned_cols=62  Identities=21%  Similarity=0.543  Sum_probs=44.8

Q ss_pred             CCCCcccccccCCCC--ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeecc
Q 045854           16 ENPNPCPICLGPVVE--DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY   80 (272)
Q Consensus        16 ~~~~~CpICl~~~~~--p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~   80 (272)
                      +....|..|-..+..  .+.+ .|.|.|+..|+.+|..+..  .......-.||.|..++...+.-+
T Consensus        48 DY~pNC~LC~t~La~gdt~RL-vCyhlfHW~ClneraA~lP--anTAPaGyqCP~Cs~eiFPp~Nlv  111 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRL-VCYHLFHWKCLNERAANLP--ANTAPAGYQCPCCSQEIFPPINLV  111 (299)
T ss_pred             CCCCCCceeCCccccCcceee-hhhhhHHHHHhhHHHhhCC--CcCCCCcccCCCCCCccCCCcccc
Confidence            345579999998864  4455 6999999999999976421  234456778999999876555444

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

Probab=89.35  E-value=0.22  Score=45.95  Aligned_cols=36  Identities=28%  Similarity=0.750  Sum_probs=30.4

Q ss_pred             CCCCcccccccCCCCceeecCC----CCcccHHHHHHHHHH
Q 045854           16 ENPNPCPICLGPVVEDSYLDKC----FHKFCYNCIVHWTKV   52 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~C----gH~FC~~Ci~~w~~~   52 (272)
                      ...+.|.+|.+.+++.-+. .|    .|.|||.|-.+.+|.
T Consensus       266 ~apLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             CCceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHh
Confidence            4568999999999997666 46    789999999998885

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

Probab=88.65  E-value=0.15  Score=45.09  Aligned_cols=43  Identities=26%  Similarity=0.542  Sum_probs=32.2

Q ss_pred             ccccccCCCCceeecCCCC-cccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceee
Q 045854           21 CPICLGPVVEDSYLDKCFH-KFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH   78 (272)
Q Consensus        21 CpICl~~~~~p~~l~~CgH-~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~   78 (272)
                      |-.|...-.. +.+.||.| .+|..|-..              ...||+|+.+..+-++
T Consensus       161 Cr~C~~~~~~-VlllPCrHl~lC~~C~~~--------------~~~CPiC~~~~~s~~~  204 (207)
T KOG1100|consen  161 CRKCGEREAT-VLLLPCRHLCLCGICDES--------------LRICPICRSPKTSSVE  204 (207)
T ss_pred             ceecCcCCce-EEeecccceEeccccccc--------------CccCCCCcChhhceee
Confidence            8888887666 46669999 889999543              3579999987655443

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

Probab=88.16  E-value=0.25  Score=51.71  Aligned_cols=37  Identities=24%  Similarity=0.557  Sum_probs=30.0

Q ss_pred             CCCCCcccccccCCC-CceeecCCCCcccHHHHHHHHH
Q 045854           15 SENPNPCPICLGPVV-EDSYLDKCFHKFCYNCIVHWTK   51 (272)
Q Consensus        15 ~~~~~~CpICl~~~~-~p~~l~~CgH~FC~~Ci~~w~~   51 (272)
                      .+....|.+|..++. .|-.+.+|||.|+..|+.+-..
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            345678999999775 5667779999999999988654

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

Probab=87.69  E-value=0.14  Score=46.22  Aligned_cols=48  Identities=21%  Similarity=0.684  Sum_probs=34.6

Q ss_pred             CCCcccccccCC-CCc---eeecC-CCCcccHHHHHHHHHHhhhcccCCCCCCCCC--CCCccc
Q 045854           17 NPNPCPICLGPV-VED---SYLDK-CFHKFCYNCIVHWTKVVASKHSSLLSSVKCP--LCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~-~~p---~~l~~-CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CP--lCr~~~   73 (272)
                      .+..||+|...- -+|   ..+.| |.|..|-+|+.+.+..         +...||  -|.+.+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~---------GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR---------GPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC---------CCCCCCCccHHHHH
Confidence            345899998633 333   22334 9999999999998874         567899  786644

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

Probab=87.49  E-value=0.4  Score=50.12  Aligned_cols=54  Identities=24%  Similarity=0.672  Sum_probs=39.0

Q ss_pred             CCCcccccccCCCCcee---ecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSY---LDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~---l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ....|.||.+.+....-   -..|-|+|+..||..|-.. +.  ........||.|....
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs-~e--k~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARS-SE--KTGQDGWRCPACQSVS  246 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHH-hh--hccCccccCCcccchh
Confidence            45689999998864211   2368999999999999875 22  2333578999998543

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

Probab=87.29  E-value=0.53  Score=31.68  Aligned_cols=41  Identities=32%  Similarity=0.793  Sum_probs=24.8

Q ss_pred             ccccccCCCCc-eeecCCCCc-----ccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           21 CPICLGPVVED-SYLDKCFHK-----FCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        21 CpICl~~~~~p-~~l~~CgH~-----FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      |-||++.-... ..+.||.-.     .+..|+.+|+...        +..+|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~--------~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRES--------GNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHH--------T-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhc--------CCCcCCCC
Confidence            67888765532 245577653     4789999999852        35679887

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.00  E-value=0.57  Score=42.49  Aligned_cols=38  Identities=16%  Similarity=0.110  Sum_probs=31.4

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHH
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTK   51 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~   51 (272)
                      .+..+-+.|..||.++.+|+.. +=||.||..||.+++-
T Consensus        38 DsiK~FdcCsLtLqPc~dPvit-~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   38 DSIKPFDCCSLTLQPCRDPVIT-PDGYLFDREAILEYIL   75 (303)
T ss_pred             cccCCcceeeeecccccCCccC-CCCeeeeHHHHHHHHH
Confidence            3445668899999999999554 8999999999998754

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

Probab=86.52  E-value=0.48  Score=45.75  Aligned_cols=48  Identities=27%  Similarity=0.552  Sum_probs=33.6

Q ss_pred             CCCcccccccCCCCc---eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCC
Q 045854           17 NPNPCPICLGPVVED---SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPL   68 (272)
Q Consensus        17 ~~~~CpICl~~~~~p---~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPl   68 (272)
                      ....|.||......+   .....|+|.||..|+.+.++..    ...+....||-
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~----~~~~~~~~C~~  195 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK----LLSGTVIRCPH  195 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh----hccCCCccCCC
Confidence            467899999433221   1234799999999999998852    44556778875

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

Probab=86.00  E-value=0.55  Score=45.14  Aligned_cols=49  Identities=22%  Similarity=0.378  Sum_probs=35.3

Q ss_pred             CCCcccccccCC--CCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           17 NPNPCPICLGPV--VEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        17 ~~~~CpICl~~~--~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      .-..|||=.+.-  .+|.....|||+.|..-+.+..+..       ..+++||-|-..
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng-------~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNG-------SQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCC-------CeeeeCCCCCcc
Confidence            346899866544  3455555899999999999987741       125899999654

>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=84.20  E-value=0.5  Score=39.02  Aligned_cols=34  Identities=21%  Similarity=0.513  Sum_probs=26.7

Q ss_pred             CCcccccccCCCC--ceeecCCCC------cccHHHHHHHHH
Q 045854           18 PNPCPICLGPVVE--DSYLDKCFH------KFCYNCIVHWTK   51 (272)
Q Consensus        18 ~~~CpICl~~~~~--p~~l~~CgH------~FC~~Ci~~w~~   51 (272)
                      ...|.||++.+.+  -++..+||-      .||..|+.+|-.
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            5679999998877  555556764      699999999954

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.

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

Probab=83.48  E-value=0.89  Score=47.35  Aligned_cols=61  Identities=13%  Similarity=0.194  Sum_probs=40.3

Q ss_pred             CCcccccccCCCCc------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeecccC
Q 045854           18 PNPCPICLGPVVED------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDG   82 (272)
Q Consensus        18 ~~~CpICl~~~~~p------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~~   82 (272)
                      ..+|++|...+.++      ..+..|+|.||..||..|....-    .......|++|..-|.++-.....
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~----~~~k~c~H~FC~~Ci~sWsR~aqT  162 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLE----ESEKHTAHYFCEECVGSWSRCAQT  162 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhh----ccccccccccHHHHhhhhhhhccc
Confidence            45677777666552      12235999999999999987422    112346789998887666555543

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

Probab=83.00  E-value=0.24  Score=50.76  Aligned_cols=49  Identities=37%  Similarity=0.660  Sum_probs=37.2

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      -...|+||...+..|+.+ .|.|.||..|+..-+..+.       ....||+|+..+
T Consensus        20 k~lEc~ic~~~~~~p~~~-kc~~~~l~~~~n~~f~~~~-------~~~~~~lc~~~~   68 (684)
T KOG4362|consen   20 KILECPICLEHVKEPSLL-KCDHIFLKFCLNKLFESKK-------GPKQCALCKSDI   68 (684)
T ss_pred             hhccCCceeEEeeccchh-hhhHHHHhhhhhceeeccC-------ccccchhhhhhh
Confidence            357899999999999555 7999999999877443211       257899998654

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

Probab=81.90  E-value=1.4  Score=38.16  Aligned_cols=59  Identities=19%  Similarity=0.407  Sum_probs=35.2

Q ss_pred             CCcccccccCCCCc------eeecCCCCcccHHHHHHHHHHhhhcccCCC-CCCCCCCCCccccce
Q 045854           18 PNPCPICLGPVVED------SYLDKCFHKFCYNCIVHWTKVVASKHSSLL-SSVKCPLCKTENVSI   76 (272)
Q Consensus        18 ~~~CpICl~~~~~p------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~-~~~~CPlCr~~~~~~   76 (272)
                      ...|.||...--+-      .--..||..|+.-|+..|+..-.....+.. --..||.|..++...
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            34577776432221      112279999999999999975332211111 114799999887543

---

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	272
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	5e-15
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-09
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-09
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	9e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-08
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	9e-08
2ect_A	78	Ring finger protein 126; metal binding protein, st	7e-07
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-06
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-06
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	5e-06
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	6e-06
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	7e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-05
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	3e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-05
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	7e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	8e-05
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	8e-05
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-04
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	3e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	5e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	6e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	6e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	7e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-04

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

 Score = 67.0 bits (164), Expect = 5e-15
 Identities = 21/67 (31%), Positives = 27/67 (40%), Gaps = 10/67 (14%)

Query: 15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV 74
          +     CPICL      S    C H FCY CI  W +           +  CPLCK    
Sbjct: 2  ATVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ----------NPTCPLCKVPVE 51

Query: 75 SIIHGYD 81
          S++H  +
Sbjct: 52 SVVHTIE 58

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

 Score = 52.8 bits (127), Expect = 1e-09
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C IC G +++ + + +C H FC +CIV               S +CP C   
Sbjct: 18 CSICKGYLIDATTITECLHTFCKSCIVRH----------FYYSNRCPKCNIV 59

>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 = 52.5 bits (126), Expect = 1e-09
 Identities = 15/70 (21%), Positives = 24/70 (34%), Gaps = 16/70 (22%)

Query: 9  GSSSCSSENPNPCPICLGPVVEDSYLD------KCFHKFCYNCIVHWTKVVASKHSSLLS 62
          G++         CPIC+    E           +C H FC  C+    K          +
Sbjct: 1  GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK----------N 50

Query: 63 SVKCPLCKTE 72
          +  CP C+ +
Sbjct: 51 ANTCPTCRKK 60

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

 Score = 50.3 bits (120), Expect = 9e-09
 Identities = 19/75 (25%), Positives = 26/75 (34%), Gaps = 21/75 (28%)

Query: 9  GSSSCSSENPNP-----CPICLGPVVEDSYLD------KCFHKFCYNCIVHWTKVVASKH 57
          GSS  S     P     CPIC+    E           +C H FC  C+    K      
Sbjct: 1  GSSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK------ 54

Query: 58 SSLLSSVKCPLCKTE 72
              ++  CP C+ +
Sbjct: 55 ----NANTCPTCRKK 65

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

 Score = 50.2 bits (120), Expect = 1e-08
 Identities = 18/68 (26%), Positives = 24/68 (35%), Gaps = 13/68 (19%)

Query: 7  SGGSSSCSSENPNP--CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSV 64
          S GSS  S E   P  C IC           KC H FC +C +              ++ 
Sbjct: 2  SSGSSGGSEEEEIPFRCFICRQAFQNPVVT-KCRHYFCESCALEH----------FRATP 50

Query: 65 KCPLCKTE 72
          +C +C   
Sbjct: 51 RCYICDQP 58

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

 Score = 49.8 bits (119), Expect = 1e-08
 Identities = 20/69 (28%), Positives = 26/69 (37%), Gaps = 15/69 (21%)

Query: 8  GGSSSCSSENPN----PCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSS 63
          G S S  +  P+     C ICL   V    L  C H FCY C+   +             
Sbjct: 1  GSSGSSGNTAPSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASW----------LG 49

Query: 64 VKCPLCKTE 72
           +C LC+ E
Sbjct: 50 KRCALCRQE 58

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

 Score = 47.8 bits (114), Expect = 6e-08
 Identities = 14/58 (24%), Positives = 21/58 (36%), Gaps = 16/58 (27%)

Query: 21 CPICLGPVVEDSYLD------KCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPIC+    E           +C H FC  C+             L ++  CP C+ +
Sbjct: 6  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDS----------LKNANTCPTCRKK 53

>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 = 48.3 bits (115), Expect = 9e-08
 Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 9/52 (17%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C IC+  + +      C    C++CI  W   +  + +       CP C+  
Sbjct: 25 CFICMEKLRDARLCPHCSKLCCFSCIRRW---LTEQRAQ------CPHCRAP 67

>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 = 45.1 bits (107), Expect = 7e-07
 Identities = 18/71 (25%), Positives = 26/71 (36%), Gaps = 16/71 (22%)

Query: 8  GGSSSCSSE----NPNPCPICLGPVVEDSYLDK--CFHKFCYNCIVHWTKVVASKHSSLL 61
          G S S  +E    +   CP+C         + +  C H F  +CIV W          L 
Sbjct: 1  GSSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPW----------LE 50

Query: 62 SSVKCPLCKTE 72
              CP+C+  
Sbjct: 51 QHDSCPVCRKS 61

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

 Score = 44.3 bits (105), Expect = 1e-06
 Identities = 15/55 (27%), Positives = 19/55 (34%), Gaps = 18/55 (32%)

Query: 21 CPICLGPVVEDSYLDK---CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C IC+     D   D    C H FC  CI  W                CP+C+ +
Sbjct: 18 CCICM-----DGRADLILPCAHSFCQKCIDKW----------SDRHRNCPICRLQ 57

>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 = 44.5 bits (105), Expect = 1e-06
 Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 13/69 (18%)

Query: 9  GSSSCSS-----ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSS 63
          GSS  S      +    C IC   +++    + C  +    C+  + +  A         
Sbjct: 1  GSSGSSGRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP------- 53

Query: 64 VKCPLCKTE 72
           +CP C   
Sbjct: 54 -RCPHCNDY 61

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

 Score = 44.6 bits (106), Expect = 1e-06
 Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 12/61 (19%)

Query: 14 SSENPNPCPICLGPVVEDSYLDK--CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          +      CPIC    V+     +  C H F   C+  W +    K  +      CP+C+ 
Sbjct: 36 AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ----KSGT------CPVCRC 85

Query: 72 E 72
           
Sbjct: 86 M 86

>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 = 44.8 bits (106), Expect = 2e-06
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C +C G  ++ + + +C H FC  CIV +          L +S  CP+C  +
Sbjct: 18 CVLCGGYFIDATTIIECLHSFCKTCIVRY----------LETSKYCPICDVQ 59

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

 Score = 44.4 bits (105), Expect = 2e-06
 Identities = 12/52 (23%), Positives = 17/52 (32%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C IC         + +C H +C  CI  +          L    +CP C   
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKF----------LSYKTQCPTCCVT 66

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

 Score = 45.0 bits (106), Expect = 3e-06
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 11/71 (15%)

Query: 2   ENKDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLL 61
             K++     +   EN   C IC    +E   L+ C H FC  CI  W K          
Sbjct: 48  AQKEEVLSHMNDVLENELQCIICSEYFIEAVTLN-CAHSFCSYCINEWMK---------- 96

Query: 62  SSVKCPLCKTE 72
             ++CP+C+ +
Sbjct: 97  RKIECPICRKD 107

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

 Score = 42.5 bits (100), Expect = 5e-06
 Identities = 13/52 (25%), Positives = 19/52 (36%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C  C   V+      +C H+FC +C+               SS KC  C+  
Sbjct: 18 CEKCHL-VLCSPKQTECGHRFCESCMAALLSS---------SSPKCTACQES 59

>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 = 42.4 bits (100), Expect = 6e-06
 Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 12/66 (18%)

Query: 9  GSSSCSSENPNPCPICLGPVVEDSYLDK--CFHKFCYNCIVHWTKVVASKHSSLLSSVKC 66
          G      +    C ICL  + E   + +  C H F   C+  W          L+++ KC
Sbjct: 5  GEEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQW----------LITNKKC 54

Query: 67 PLCKTE 72
          P+C+ +
Sbjct: 55 PICRVD 60

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

 Score = 42.4 bits (100), Expect = 7e-06
 Identities = 18/69 (26%), Positives = 22/69 (31%), Gaps = 13/69 (18%)

Query: 7  SGGSSSCSSENPNP-CPICLGPVVEDSYLDK--CFHKFCYNCIVHWTKVVASKHSSLLSS 63
          SG S      N +  C +CL        L    C H F   C++ W          L   
Sbjct: 3  SGSSGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKW----------LEVR 52

Query: 64 VKCPLCKTE 72
            CPLC   
Sbjct: 53 KVCPLCNMP 61

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

 Score = 42.0 bits (99), Expect = 9e-06
 Identities = 20/74 (27%), Positives = 28/74 (37%), Gaps = 17/74 (22%)

Query: 9  GSSSCSSENPNP-----CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSS 63
          GSS  S E+        C IC   + +   +  C + +C  CI             LL S
Sbjct: 1  GSSGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA----------LLES 50

Query: 64 VK--CPLCKTENVS 75
           +  CP C   +VS
Sbjct: 51 DEHTCPTCHQNDVS 64

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

 Score = 41.7 bits (98), Expect = 2e-05
 Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 12/57 (21%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVK--CPLCKTENVS 75
          C IC   + +   +  C + +C  CI             LL S +  CP C   +VS
Sbjct: 16 CLICKDIMTDAVVIPCCGNSYCDECIRTA----------LLESDEHTCPTCHQNDVS 62

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

 Score = 41.0 bits (96), Expect = 2e-05
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 13/63 (20%)

Query: 13 CSSENPNPCPICLGPVVEDSY---LDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC 69
          C  +  + C  C     ++       +C H F   C+  W          +  + +CPLC
Sbjct: 21 CRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLW----------VKQNNRCPLC 70

Query: 70 KTE 72
          + +
Sbjct: 71 QQD 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 = 41.8 bits (97), Expect = 3e-05
 Identities = 16/70 (22%), Positives = 24/70 (34%), Gaps = 22/70 (31%)

Query: 19 NPCPICLGPVVEDSY-----------------LDKCFHKFCYNCIVHWTKVVASKHSSLL 61
            C IC+  +   S                  L KC H F   C++         + +  
Sbjct: 26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAM-----YCNGNKD 80

Query: 62 SSVKCPLCKT 71
           S++CP CKT
Sbjct: 81 GSLQCPSCKT 90

>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 = 41.0 bits (96), Expect = 3e-05
 Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 4/66 (6%)

Query: 15 SENPNPCPICLG--PVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          S   + C +CLG  PV + + + +C   FC  C+  + +++  +      ++ CP     
Sbjct: 2  SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLET--AISCPDAACP 59

Query: 73 NVSIIH 78
              + 
Sbjct: 60 KQGHLQ 65

>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 = 42.3 bits (99), Expect = 3e-05
 Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 9/51 (17%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          CPICL  +       +C H+FC +CI+   +           + +CP C+ 
Sbjct: 57 CPICLDMLKNTMTTKECLHRFCADCIITALRS---------GNKECPTCRK 98

>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 = 41.4 bits (97), Expect = 4e-05
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 12/52 (23%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C  C   + E   L  C H FC NC+                   CP+C T 
Sbjct: 25 CSRCTNILREPVCLGGCEHIFCSNCVSDC------------IGTGCPVCYTP 64

>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 = 43.2 bits (101), Expect = 4e-05
 Identities = 14/82 (17%), Positives = 24/82 (29%), Gaps = 14/82 (17%)

Query: 4   KDQSGGSSSCSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSS 63
             +              C IC      D  ++ C H  C +C+  W +            
Sbjct: 318 TQEQYELYCEMGSTFQLCKICAENDK-DVKIEPCGHLMCTSCLTSWQES---------EG 367

Query: 64  VKCPLCKTE----NVSIIHGYD 81
             CP C+ E       ++  +D
Sbjct: 368 QGCPFCRCEIKGTEPIVVDPFD 389

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

 Score = 40.2 bits (93), Expect = 7e-05
 Identities = 14/56 (25%), Positives = 18/56 (32%), Gaps = 9/56 (16%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI 76
          C  C  P+     +  C H FCY+C +   K              CP C      I
Sbjct: 4  CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKK---------GDKMCPGCSDPVQRI 50

>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 = 40.6 bits (95), Expect = 8e-05
 Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 10/51 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          CPICL   + ++    C H+FC  CI+   +          +  KCP+   
Sbjct: 21 CPICLM-ALREAVQTPCGHRFCKACIIKSIRD---------AGHKCPVDNE 61

>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 = 38.4 bits (90), Expect = 8e-05
 Identities = 16/66 (24%), Positives = 21/66 (31%), Gaps = 19/66 (28%)

Query: 8  GGSSSCSSENPNPCPICLGPV---VEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSV 64
          G S S        CPICL  +      +++  C H     C              L    
Sbjct: 1  GSSGSSG------CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEM----------LKEGY 44

Query: 65 KCPLCK 70
          +CPLC 
Sbjct: 45 RCPLCS 50

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

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 12/54 (22%)

Query: 21 CPICLGPVVEDSYLDK--CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C +C+        L    C H+F   C+  W          L ++  CP+C+ +
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKW----------LKANRTCPICRAD 69

>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 = 40.0 bits (93), Expect = 1e-04
 Identities = 10/52 (19%), Positives = 15/52 (28%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C  C   V        C H  C +C+    +              CP C+ +
Sbjct: 55 CICCQELVFRPITT-VCQHNVCKDCLDRSFRA---------QVFSCPACRYD 96

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

 Score = 38.0 bits (89), Expect = 1e-04
 Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 13/61 (21%)

Query: 14 SSENPNPCPICLGPVVEDSY---LDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCK 70
          + ++   C +CL  + +      L +C H F   C+  W          L S   CPLC+
Sbjct: 1  AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMW----------LGSHSTCPLCR 50

Query: 71 T 71
           
Sbjct: 51 L 51

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

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 11/52 (21%), Positives = 16/52 (30%), Gaps = 14/52 (26%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C  C         L  C H  C  C+               S ++CP+C+  
Sbjct: 9  CQQCQAEAKCPKLLP-CLHTLCSGCLEA-------------SGMQCPICQAP 46

>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 = 38.7 bits (90), Expect = 2e-04
 Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C IC+  +VE   L  C H  C  C     +          +S+ CP C+  
Sbjct: 18 CGICMEILVEPVTLP-CNHTLCKPCFQSTVE---------KASLCCPFCRRR 59

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

 Score = 40.5 bits (94), Expect = 3e-04
 Identities = 9/57 (15%), Positives = 19/57 (33%), Gaps = 8/57 (14%)

Query: 16  ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
           +    C IC   +++    + C  +    C+  + +  A          +CP C   
Sbjct: 178 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--------RCPHCNDY 226

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

 Score = 37.8 bits (87), Expect = 3e-04
 Identities = 14/66 (21%), Positives = 24/66 (36%), Gaps = 12/66 (18%)

Query: 10 SSSCSSENPNPCPICLGPVVEDS---YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKC 66
           S  + E+P  CP+C+ P+  D    +   C ++ C  C                 +  C
Sbjct: 3  RSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRI---------RTDENGLC 53

Query: 67 PLCKTE 72
          P C+  
Sbjct: 54 PACRKP 59

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

 Score = 40.6 bits (94), Expect = 3e-04
 Identities = 15/76 (19%), Positives = 24/76 (31%), Gaps = 8/76 (10%)

Query: 5   DQSGGSSSCSSENPNPCPICLGPVVEDSYL-------DKCFHKFCYNCIVHW-TKVVASK 56
              G            C IC    ++   +        KC  K    C+  W   ++  K
Sbjct: 295 WSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGK 354

Query: 57  HSSLLSSVKCPLCKTE 72
               +S  +CP CK +
Sbjct: 355 TFLEVSFGQCPFCKAK 370

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

 Score = 37.3 bits (87), Expect = 3e-04
 Identities = 20/56 (35%), Positives = 21/56 (37%), Gaps = 16/56 (28%)

Query: 21 CPICLG----PVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL     PV  D     C H FC  CI    +              CPLCKT 
Sbjct: 23 CPICLDILQKPVTID-----CGHNFCLKCITQIGETSCGFFK-------CPLCKTS 66

>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 = 37.6 bits (88), Expect = 3e-04
 Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)

Query: 21 CPICLG----PVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL     P+     LD C H  C  CI    K      +S+     CP+C   
Sbjct: 15 CPICLELLTEPLS----LD-CGHSLCRACITVSNK---EAVTSMGGKSSCPVCGIS 62

>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 = 38.9 bits (90), Expect = 5e-04
 Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 10/51 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          CPICL   + ++    C H+FC  CI+   +          +  KCP+   
Sbjct: 21 CPICLM-ALREAVQTPCGHRFCKACIIKSIRD---------AGHKCPVDNE 61

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

 Score = 38.6 bits (89), Expect = 5e-04
 Identities = 10/52 (19%), Positives = 16/52 (30%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C  C   V+   +  +C H++C  C+                   C  C  E
Sbjct: 34 CSACRN-VLRRPFQAQCGHRYCSFCLASILSSGPQ---------NCAACVHE 75

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

 Score = 36.9 bits (86), Expect = 6e-04
 Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 15/56 (26%)

Query: 21 CPICLG----PVVEDSYLDKCFHKFCYNCI-VHWTKVVASKHSSLLSSVKCPLCKT 71
          CPICL     P+     LD C H FC  C+  +  K +  K         CP+C+ 
Sbjct: 22 CPICLELLTQPLS----LD-CGHSFCQACLTANHKKSMLDK-----GESSCPVCRI 67

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

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 15/57 (26%)

Query: 21 CPICLG----PVVEDSYLDKCFHKFCYNCI-VHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL     PV  D     C H FC  CI +++     +          CP+C+  
Sbjct: 22 CPICLELLKEPVSAD-----CNHSFCRACITLNYESNRNTD-----GKGNCPVCRVP 68

>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 = 38.1 bits (88), Expect = 7e-04
 Identities = 15/56 (26%), Positives = 20/56 (35%), Gaps = 18/56 (32%)

Query: 21  CPICLG----PVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
           C  C      PV  +     CFH  C +C+    K  A   S       CP C+ +
Sbjct: 81  CVCCQELVYQPVTTE-----CFHNVCKDCLQRSFK--AQVFS-------CPACRHD 122

>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 = 37.4 bits (87), Expect = 7e-04
 Identities = 17/56 (30%), Positives = 20/56 (35%), Gaps = 16/56 (28%)

Query: 21 CPICLG----PVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL     PV        C H FC  C++                  CPLCK +
Sbjct: 24 CPICLELIKEPVSTK-----CDHIFCKFCMLKLLNQKKGPSQ-------CPLCKND 67

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

 Score = 37.2 bits (86), Expect = 8e-04
 Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 10/50 (20%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCK 70
          C IC   +  D     C H FC  CI+   KV+ S          CP C+
Sbjct: 26 CQICEHIL-ADPVETSCKHLFCRICILRCLKVMGS---------YCPSCR 65

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	272
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.32
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.32
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.27
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.25
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.25
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.23
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.22
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.22
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.21
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.19
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.18
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.18
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.17
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.17
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.16
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.16
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.15
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.13
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.13
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.13
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.12
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.12
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.11
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.1
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.1
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.1
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.09
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.09
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.08
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.07
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.03
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.03
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.02
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.02
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.0
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.0
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.99
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.97
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.97
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.96
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.94
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.93
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.92
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.91
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.9
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.89
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.89
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.89
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.84
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.83
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.82
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.77
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.75
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.75
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.72
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.72
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.7
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.69
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.63
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.57
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.52
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.47
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.42
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.37
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.29
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.82
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.75
1x4q_A	92	U4/U6 small nuclear ribonucleoprotein PRP3; PWI do	97.23
1mp1_A	111	Ser/Arg-related nuclear matrix protein; four helix	96.62
3nw0_A	238	Non-structural maintenance of chromosomes element	96.47
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	95.9
3v53_A	119	RNA-binding protein 25; PWI, RNA-binding domain; 2	95.31
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.23
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	87.61
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	87.26
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	87.01
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	81.57

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

Probab=99.32  E-value=1.9e-12  Score=93.75  Aligned_cols=51  Identities=29%  Similarity=0.680  Sum_probs=44.3

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+...|+||++.+.+|+.+.+|||.||..||..|++.          ...||+||+.+.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----------~~~CP~Cr~~~~   61 (72)
T 2djb_A           11 ELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY----------SNRCPKCNIVVH   61 (72)
T ss_dssp             CCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHH----------CSSCTTTCCCCC
T ss_pred             hcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHc----------CCcCCCcCcccC
Confidence            344568899999999999887799999999999999984          579999998764

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

Probab=99.32  E-value=1.8e-12  Score=92.50  Aligned_cols=58  Identities=36%  Similarity=0.855  Sum_probs=49.5

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeecccCC
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGT   83 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~~~   83 (272)
                      +....|+||++.+.++....+|||.||..|+..|++.          ...||+||+++..+++.+.++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~----------~~~CP~Cr~~~~~~~~~~~~d   60 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ----------NPTCPLCKVPVESVVHTIESD   60 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH----------SCSTTTTCCCCCCEECCCCSC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhC----------cCcCcCCChhhHhhhhccccc
Confidence            3456899999999998777799999999999999984          579999999998887777653

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

Probab=99.27  E-value=6.4e-12  Score=92.87  Aligned_cols=50  Identities=26%  Similarity=0.593  Sum_probs=43.0

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .......|+||++.+.+|+. ++|||.||..||..|++.          ...||+||+++.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~----------~~~CP~Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQNPVV-TKCRHYFCESCALEHFRA----------TPRCYICDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBCCSEEE-CTTSCEEEHHHHHHHHHH----------CSBCSSSCCBCC
T ss_pred             cCCCCCCCcCCCchhcCeeE-ccCCCHhHHHHHHHHHHC----------CCcCCCcCcccc
Confidence            34457889999999999966 489999999999999984          579999999865

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

Probab=99.25  E-value=2.1e-12  Score=92.64  Aligned_cols=53  Identities=26%  Similarity=0.585  Sum_probs=42.9

Q ss_pred             CCCCCCCCcccccccCCCCce------eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           12 SCSSENPNPCPICLGPVVEDS------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        12 ~~~~~~~~~CpICl~~~~~p~------~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...++...|+||++.+.++.      .+.+|||.||..||.+|++.          ...||+||+++.
T Consensus         4 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~   62 (71)
T 3ng2_A            4 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----------ANTCPTCRKKIN   62 (71)
T ss_dssp             --CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH----------CSBCTTTCCBCC
T ss_pred             CCCCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc----------CCCCCCCCCccC
Confidence            445567889999999988762      55589999999999999984          479999998754

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

Probab=99.25  E-value=3.5e-12  Score=92.07  Aligned_cols=51  Identities=33%  Similarity=0.690  Sum_probs=43.4

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.+++.+ +|||.||..||..|+..          ...||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~----------~~~CP~Cr~~~~   60 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASWL----------GKRCALCRQEIP   60 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSEEEE-TTTEEEEHHHHHHCTTC----------SSBCSSSCCBCC
T ss_pred             ccCCCCCCCccCCcccCCCEEc-cCCCHHHHHHHHHHHHC----------CCcCcCcCchhC
Confidence            3445678999999999999776 79999999999999873          579999999764

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

Probab=99.23  E-value=5.6e-12  Score=89.66  Aligned_cols=52  Identities=27%  Similarity=0.593  Sum_probs=42.9

Q ss_pred             CCCCCCCcccccccCCCCce------eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVEDS------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~------~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.++.      .+.+|||.||..||..|++.          ...||+||+++.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~   67 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----------ANTCPTCRKKIN   67 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH----------CSSCTTTCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc----------CCCCCCCCCccC
Confidence            44566789999999987762      45589999999999999984          579999998764

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

Probab=99.22  E-value=1.9e-11  Score=87.42  Aligned_cols=55  Identities=27%  Similarity=0.675  Sum_probs=43.6

Q ss_pred             CCCCCCCcccccccCCCC--ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccccee
Q 045854           13 CSSENPNPCPICLGPVVE--DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSII   77 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~--p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~   77 (272)
                      ........|+||++.+..  .....+|||.||..||..|++.          ...||+||+.+...+
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~----------~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT----------NKKCPICRVDIEAQL   65 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH----------CSBCTTTCSBSCSCC
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc----------CCCCcCcCccccCcC
Confidence            345567789999998853  3455689999999999999984          467999999876543

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

Probab=99.22  E-value=9.4e-12  Score=93.93  Aligned_cols=53  Identities=19%  Similarity=0.463  Sum_probs=44.3

Q ss_pred             CCCCCCCCcccccccCCCCceeecC-CCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           12 SCSSENPNPCPICLGPVVEDSYLDK-CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        12 ~~~~~~~~~CpICl~~~~~p~~l~~-CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .....+...|+||++.+.+|+.+ + |||+||..||..|+...        ....||+||.++
T Consensus         7 ~~~~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~--------~~~~CP~Cr~~~   60 (92)
T 3ztg_A            7 DDPIPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLES--------DEHTCPTCHQND   60 (92)
T ss_dssp             CCCCCTTTEETTTTEECSSCEEC-TTTCCEECHHHHHHHHHHC--------TTCCCTTTCCSS
T ss_pred             cccCCcCCCCCCCChhhcCceEC-CCCCCHHHHHHHHHHHHhc--------CCCcCcCCCCcC
Confidence            34556789999999999999776 6 99999999999998731        247999999875

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

Probab=99.21  E-value=9e-12  Score=91.21  Aligned_cols=52  Identities=15%  Similarity=0.278  Sum_probs=44.4

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.+|+.+ +|||+||..||..|++.         +...||+|++++.
T Consensus         3 ~~~~~~~~C~IC~~~~~~Pv~~-~CgH~fc~~Ci~~~~~~---------~~~~CP~C~~~~~   54 (78)
T 1t1h_A            3 PEFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDA---------GHKTCPKSQETLL   54 (78)
T ss_dssp             CCCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTT---------TCCBCTTTCCBCS
T ss_pred             cCCcccCCCCCccccccCCEEc-CCCCeecHHHHHHHHHH---------CcCCCCCCcCCCC
Confidence            3456788999999999999776 79999999999999973         2578999998763

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

Probab=99.19  E-value=1.6e-11  Score=89.39  Aligned_cols=51  Identities=20%  Similarity=0.498  Sum_probs=42.4

Q ss_pred             CCCCCCcccccccCCCCceeecC-CCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDK-CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~-CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ...+...|+||++.+.+|+.+ + |||.||..||..|++..        ....||+||+++
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~--------~~~~CP~Cr~~~   62 (74)
T 2yur_A           11 PIPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLES--------DEHTCPTCHQND   62 (74)
T ss_dssp             CSCGGGSCSSSCCCCTTCEEC-SSSCCEECTTHHHHHHHHS--------SSSCCSSSCCSS
T ss_pred             cCCCCCCCcCCChHHhCCeEc-CCCCCHHHHHHHHHHHHhc--------CCCcCCCCCCcC
Confidence            345678999999999999776 6 99999999999999841        236899999863

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

Probab=99.18  E-value=1.7e-11  Score=87.07  Aligned_cols=51  Identities=27%  Similarity=0.573  Sum_probs=43.0

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+...|+||++.+.+|+.+ +|||.||..||..|++.         ....||+||+++.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~   61 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCSPKQT-ECGHRFCESCMAALLSS---------SSPKCTACQESIV   61 (66)
T ss_dssp             SCCCCEECTTTCCEESSCCCC-SSSCCCCHHHHHHHHTT---------SSCCCTTTCCCCC
T ss_pred             cCCcCCCCCCCChHhcCeeEC-CCCCHHHHHHHHHHHHh---------CcCCCCCCCcCCC
Confidence            345678999999999999775 89999999999999952         3578999998754

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

Probab=99.18  E-value=2.7e-11  Score=87.33  Aligned_cols=53  Identities=34%  Similarity=0.715  Sum_probs=43.5

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+...|+||++.+.+|+.+ +|||.||..||..|++.       .+....||+||+++.
T Consensus        16 ~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~-------~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           16 KLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGET-------SCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCCBCTTTCSBCSSEEEC-TTCCEEEHHHHHHHCSS-------SCSCCCCSSSCCCCC
T ss_pred             hCccCCEeccCCcccCCeEEc-CCCChhhHHHHHHHHHc-------CCCCCCCCCCCCcCC
Confidence            345678999999999999777 89999999999999862       113579999998764

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

Probab=99.17  E-value=4.1e-11  Score=86.78  Aligned_cols=53  Identities=25%  Similarity=0.647  Sum_probs=42.6

Q ss_pred             CCCCCCcccccccCCCCce--eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           14 SSENPNPCPICLGPVVEDS--YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~--~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      .......|+||++.+..+.  ...+|+|.||..||.+|++.          ...||+||+++..+
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~----------~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV----------RKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHH----------CSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHc----------CCcCCCcCcccccc
Confidence            4456789999999997653  33489999999999999984          46899999987554

>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=1.8e-11  Score=94.36  Aligned_cols=48  Identities=23%  Similarity=0.690  Sum_probs=42.1

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +...|+||++.+.+|+.+.+|||.||..||..|++.         ....||+||+++
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~---------~~~~CP~Cr~~~   68 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTE---------QRAQCPHCRAPL   68 (100)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHH---------TCSBCTTTCCBC
T ss_pred             CCCCCccCCccccCccccCCCCChhhHHHHHHHHHH---------CcCCCCCCCCcC
Confidence            568899999999999875699999999999999985         126999999976

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

Probab=99.16  E-value=2.1e-11  Score=89.22  Aligned_cols=52  Identities=25%  Similarity=0.540  Sum_probs=41.9

Q ss_pred             CCCCCCCcccccccCCCCc--eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVED--SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p--~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ........|+||++.+..+  +...+|+|.||..||.+|++.          ...||+||+.+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~----------~~~CP~Cr~~~~   63 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ----------HDSCPVCRKSLT   63 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTT----------TCSCTTTCCCCC
T ss_pred             ccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHc----------CCcCcCcCCccC
Confidence            3445678999999999754  344589999999999999973          579999998754

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

Probab=99.16  E-value=1.4e-11  Score=100.21  Aligned_cols=49  Identities=35%  Similarity=0.819  Sum_probs=42.1

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccccee
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSII   77 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~   77 (272)
                      ...|+||++.+.+|+.+ +|||+||..||..|+..          ...||+||+++....
T Consensus        53 ~~~C~iC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           53 ELQCIICSEYFIEAVTL-NCAHSFCSYCINEWMKR----------KIECPICRKDIKSKT  101 (138)
T ss_dssp             HSBCTTTCSBCSSEEEE-TTSCEEEHHHHHHHTTT----------CSBCTTTCCBCCCEE
T ss_pred             cCCCcccCcccCCceEC-CCCCCccHHHHHHHHHc----------CCcCCCCCCcCCCCC
Confidence            46799999999999766 89999999999999873          578999999875443

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

Probab=99.15  E-value=6.8e-11  Score=83.07  Aligned_cols=48  Identities=33%  Similarity=0.785  Sum_probs=40.2

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      ...+...|+||++.+.+|+.+ +|||+||..||.+|++..       +....||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~-------~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETS-------CGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCEEC-TTSSEECHHHHHHHHHHC-------SSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCCeEEe-CCCCcchHHHHHHHHHcC-------CCCCcCcCC
Confidence            345678999999999999777 899999999999999831       135789998

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

Probab=99.13  E-value=2.1e-11  Score=94.94  Aligned_cols=49  Identities=29%  Similarity=0.760  Sum_probs=43.2

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+...|+||++.+.+|+.+.+|||+||..||..|+..          ...||+|+..+.
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----------~~~CP~Cr~~~~   61 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET----------SKYCPICDVQVH   61 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTS----------CSBCTTTCCBSC
T ss_pred             CCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHh----------CCcCcCCCcccc
Confidence            4578899999999999887799999999999999973          579999998754

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

Probab=99.13  E-value=6.9e-11  Score=87.06  Aligned_cols=56  Identities=27%  Similarity=0.552  Sum_probs=44.4

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+...|+||++.+.+|+.+ +|||.||..|+..|+....    ..+....||+||..+.
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~----~~~~~~~CP~Cr~~~~   70 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKEPVSA-DCNHSFCRACITLNYESNR----NTDGKGNCPVCRVPYP   70 (85)
T ss_dssp             CCCTTTSCTTTCSCCSSCEEC-TTSCCBCHHHHHHHHHHSB----CTTSCBCCTTTCCCCC
T ss_pred             hCccCCCCcCCChhhCcceeC-CCCCHHHHHHHHHHHHhcc----CCCCCCCCCCCCCcCC
Confidence            345678999999999999765 8999999999999998411    1223679999998764

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=99.13  E-value=5.2e-11  Score=81.14  Aligned_cols=48  Identities=27%  Similarity=0.586  Sum_probs=40.1

Q ss_pred             CCCcccccccCCCC---ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVE---DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~---p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....|+||++.+.+   +..+.+|||.||..||.+|++.          ...||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE----------GYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHH----------TCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHc----------CCcCCCCCCcCC
Confidence            45689999999865   3566689999999999999985          479999998753

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

Probab=99.12  E-value=1.4e-11  Score=90.13  Aligned_cols=58  Identities=29%  Similarity=0.603  Sum_probs=45.3

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.+|+.+ +|||.||..||..|++...   ...+....||+||.++.
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~---~~~~~~~~CP~Cr~~~~   64 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSL-DCGHSLCRACITVSNKEAV---TSMGGKSSCPVCGISYS   64 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCC-SSSCCCCHHHHSCCCCCCS---SSCCCCCCCSSSCCCCC
T ss_pred             hhcccCCCCcCCCcccCCeeEC-CCCCHHHHHHHHHHHHhcc---cCCCCCCcCCCCCCcCC
Confidence            4556788999999999999776 8999999999999986310   11123679999998764

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

Probab=99.12  E-value=2.8e-11  Score=82.61  Aligned_cols=49  Identities=29%  Similarity=0.796  Sum_probs=39.9

Q ss_pred             CCCCcccccccCCCC---ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVE---DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~---p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ++...|+||++.+.+   +..+..|||.||..||.+|++.          ...||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~----------~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS----------HSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT----------CCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc----------CCcCcCCCCEeE
Confidence            456789999999976   5455359999999999999873          578999998753

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

Probab=99.12  E-value=8e-11  Score=87.64  Aligned_cols=54  Identities=26%  Similarity=0.665  Sum_probs=43.6

Q ss_pred             CCCCCCCcccccccCCCC----ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVE----DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~----p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.+    |..+ +|||.||..|+..|++..       +....||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~-------~~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLL-HCGHTICRQCLEKLLASS-------INGVRCPFCSKITR   67 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEEC-SSSCEEEHHHHHHHHHHC-------SSCBCCTTTCCCBC
T ss_pred             hhccCCCCCccCCccccccCCCeEEC-CCCChhhHHHHHHHHHcC-------CCCcCCCCCCCccc
Confidence            445667899999999988    7555 899999999999999841       12479999998753

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

Probab=99.11  E-value=3.9e-11  Score=91.86  Aligned_cols=48  Identities=23%  Similarity=0.586  Sum_probs=42.2

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...|+||++.+.+|+.+.+|||.||..||..|+..          ...||+||+.+.
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----------~~~CP~Cr~~~~   68 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY----------KTQCPTCCVTVT   68 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT----------CCBCTTTCCBCC
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHC----------CCCCCCCCCcCC
Confidence            457899999999999777789999999999999973          579999998754

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

Probab=99.10  E-value=4.1e-11  Score=84.83  Aligned_cols=49  Identities=24%  Similarity=0.520  Sum_probs=39.8

Q ss_pred             CCCccccccc-CCCCce---eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLG-PVVEDS---YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~-~~~~p~---~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ++..|+||++ .+.+|.   .+.+|||+||..||.+|+..         ....||+||+++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~   54 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR---------GAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT---------TSSSCTTTCCCCS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHc---------CCCcCCCCCCccc
Confidence            3568999999 787774   35689999999999999763         3568999998763

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

Probab=99.10  E-value=2.7e-11  Score=84.80  Aligned_cols=48  Identities=29%  Similarity=0.628  Sum_probs=40.2

Q ss_pred             CCCcccccccCCCCce------eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDS------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~------~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...|+||++.+.++.      .+.+|||.||..|+.+|++.          ...||+||+++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----------ANTCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH----------CSBCTTTCCBCT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc----------CCCCCCCCccCC
Confidence            4578999999988762      55589999999999999984          579999998764

>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=99.10  E-value=4.9e-11  Score=95.06  Aligned_cols=49  Identities=20%  Similarity=0.486  Sum_probs=42.0

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +...|+||++.+.+|+.+ +|||+||..||..|+..         ....||+||+++..
T Consensus        51 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           51 ETFQCICCQELVFRPITT-VCQHNVCKDCLDRSFRA---------QVFSCPACRYDLGR   99 (124)
T ss_dssp             HHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHT---------TCCBCTTTCCBCCT
T ss_pred             cCCCCCcCChHHcCcEEe-eCCCcccHHHHHHHHhH---------CcCCCCCCCccCCC
Confidence            457899999999999776 89999999999999973         35699999998643

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

Probab=99.09  E-value=1.1e-10  Score=85.92  Aligned_cols=56  Identities=27%  Similarity=0.595  Sum_probs=44.5

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+...|+||++.+.+|+.+ +|||.||..|+..|+.....    .+....||+||..+.
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~----~~~~~~CP~Cr~~~~   70 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQPLSL-DCGHSFCQACLTANHKKSML----DKGESSCPVCRISYQ   70 (85)
T ss_dssp             CCCCCCCCTTTCSCCSSCBCC-SSSCCBCTTHHHHHHHHHHH----TTSCCCCTTTCCSSC
T ss_pred             HccCCCCCCCCCcccCCceeC-CCCCHHHHHHHHHHHHHhhc----CCCCCcCCCCCCccC
Confidence            345678999999999999766 89999999999999874211    123679999998764

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

Probab=99.09  E-value=6e-11  Score=93.92  Aligned_cols=52  Identities=31%  Similarity=0.606  Sum_probs=43.7

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.+|+.+ +|||+||..||..|++.         ....||+||.++.
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~   64 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRD---------AGHKCPVDNEILL   64 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH---------HCSBCTTTCCBCC
T ss_pred             cCCCCCCCCCcCChhhcCeEEC-CcCChhhHHHHHHHHhh---------CCCCCCCCCCCcC
Confidence            4556678999999999999666 89999999999999985         1349999998764

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

Probab=99.08  E-value=5.8e-11  Score=89.96  Aligned_cols=51  Identities=27%  Similarity=0.574  Sum_probs=40.6

Q ss_pred             CCCCCcccccccCCCC--ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           15 SENPNPCPICLGPVVE--DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~--p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ..+...|+||++.+..  .....+|||.||..||..|++.          ...||+||+.+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~----------~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK----------SGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTT----------TCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHc----------CCcCcCcCccCCC
Confidence            3456789999998876  2233479999999999999973          5699999987654

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

Probab=99.07  E-value=6.4e-11  Score=86.16  Aligned_cols=50  Identities=22%  Similarity=0.664  Sum_probs=41.1

Q ss_pred             CCCCCcccccccCCCCc--eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           15 SENPNPCPICLGPVVED--SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p--~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ..+...|+||++.+..+  +...+|+|.||..||..|++.          ...||+||+++.
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~----------~~~CP~Cr~~~~   71 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA----------NRTCPICRADSG   71 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH----------CSSCTTTCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc----------CCcCcCcCCcCC
Confidence            44567899999998775  344489999999999999984          468999998764

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

Probab=99.05  E-value=1.5e-10  Score=79.62  Aligned_cols=48  Identities=31%  Similarity=0.816  Sum_probs=39.2

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCC
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLC   69 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlC   69 (272)
                      ...+...|+||++.+.+|+.+ +|||.||..||..|+..       ......||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-------~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKEPVII-ECGHNFCKACITRWWED-------LERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSSCCCC-SSCCCCCHHHHHHHTTS-------SCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCccEeC-CCCCccCHHHHHHHHHh-------cCCCCCCCCC
Confidence            445678999999999999665 89999999999999652       1135789998

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

Probab=99.04  E-value=1.1e-10  Score=97.44  Aligned_cols=49  Identities=31%  Similarity=0.814  Sum_probs=42.5

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...|+||++.+.+|+.+.+|||.||..||..|+..         ....||+||.++.
T Consensus        53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRS---------GNKECPTCRKKLV  101 (165)
T ss_dssp             HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHT---------TCCBCTTTCCBCC
T ss_pred             CCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHh---------CcCCCCCCCCcCC
Confidence            345899999999999888799999999999999983         2578999998764

>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=99.04  E-value=2e-11  Score=95.95  Aligned_cols=52  Identities=31%  Similarity=0.643  Sum_probs=43.4

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ...+...|+||++.+.+|+.+ +|||+||..||..|+..         +...||+||..+..
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVTL-PCNHTLCKPCFQSTVEK---------ASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEEC-TTSCEECHHHHCCCCCT---------TTSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCceeEc-CCCCHHhHHHHHHHHhH---------CcCCCCCCCcccCc
Confidence            344568899999999999777 89999999999999862         35789999997643

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

Probab=99.03  E-value=5.9e-11  Score=85.02  Aligned_cols=51  Identities=25%  Similarity=0.764  Sum_probs=42.2

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ....+...|+||++.+.+  .+.+|||.||..||..|++          ....||+||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~--~~~~CgH~fc~~Ci~~~~~----------~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD--LILPCAHSFCQKCIDKWSD----------RHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS--EEETTTEEECHHHHHHSSC----------CCSSCHHHHHCTTC
T ss_pred             hcCCCCCCCeeCCcCccC--cccCCCCcccHHHHHHHHH----------CcCcCCCcCCcccC
Confidence            344567899999999988  4458999999999999987          36799999987653

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

Probab=99.03  E-value=2.4e-10  Score=85.75  Aligned_cols=50  Identities=10%  Similarity=-0.037  Sum_probs=43.3

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+.+.||||++.+.+|+.+ +|||+||..||..|+..          ...||+|+.++.
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~----------~~~cP~~~~~l~   59 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRL-PSGTVMDRSIILRHLLN----------SPTDPFNRQMLT   59 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH----------CSBCTTTCCBCC
T ss_pred             cCchheECcccCchhcCCeEC-CCCCEECHHHHHHHHhc----------CCCCCCCcCCCC
Confidence            345689999999999999777 69999999999999983          579999998753

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

Probab=99.02  E-value=2.7e-10  Score=84.36  Aligned_cols=53  Identities=25%  Similarity=0.555  Sum_probs=40.1

Q ss_pred             CCCCCCCcccccccCCCC-ceeecC--CCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVVE-DSYLDK--CFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~-p~~l~~--CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...||||++++.. +....+  |||+||..|+..++..         ....||.||+++.
T Consensus         6 ~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~---------~~~~CP~CR~~~~   61 (78)
T 1e4u_A            6 DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD---------ENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTS---------SCSBCTTTCCBCS
T ss_pred             cccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhc---------CCCCCCCCCCccC
Confidence            445678899999998852 223334  9999999999998642         3578999999864

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

Probab=99.02  E-value=3.3e-10  Score=88.65  Aligned_cols=55  Identities=29%  Similarity=0.477  Sum_probs=41.6

Q ss_pred             CCCcccccccCCCCce-----------------eecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           17 NPNPCPICLGPVVEDS-----------------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~-----------------~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      .+..|+||++.+..+.                 .+.+|+|.||..||..|+...     .......||+||+.+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~-----~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNG-----NKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHT-----CCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcc-----cCCCCCcCCCCCCccCCC
Confidence            3468999999997643                 266899999999999999631     112357999999976543

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

Probab=99.00  E-value=2.3e-10  Score=84.94  Aligned_cols=50  Identities=30%  Similarity=0.707  Sum_probs=40.7

Q ss_pred             CCCCcccccccCCCC--------------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           16 ENPNPCPICLGPVVE--------------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        16 ~~~~~CpICl~~~~~--------------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      .+...|+||++.+.+              +..+.+|+|.||..||.+|++.          ...||+||+++..
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~----------~~~CP~CR~~~~~   76 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ----------NNRCPLCQQDWVV   76 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT----------CCBCTTTCCBCCE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh----------CCCCCCcCCCcch
Confidence            356789999999966              4455579999999999999983          5699999998643

>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=99.00  E-value=2e-10  Score=95.04  Aligned_cols=49  Identities=24%  Similarity=0.594  Sum_probs=41.7

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +...|+||++.+.+|+.+ +|||+||..||..|+..         ....||+||.++..
T Consensus        77 ~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTT-ECFHNVCKDCLQRSFKA---------QVFSCPACRHDLGQ  125 (150)
T ss_dssp             HHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHT---------TCCBCTTTCCBCCT
T ss_pred             cCCEeecCChhhcCCEEc-CCCCchhHHHHHHHHHh---------CCCcCCCCCccCCC
Confidence            356899999999999775 89999999999999983         24689999997643

>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=98.99  E-value=3.6e-10  Score=87.45  Aligned_cols=50  Identities=10%  Similarity=-0.007  Sum_probs=43.1

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+.+.||||++.+.+|+.+ +|||+||..||..|+.          ....||.|+.++.
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~----------~~~~cP~~~~~l~   74 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRL-PSGTIMDRSIILRHLL----------NSPTDPFNRQTLT   74 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEE-TTTEEEEHHHHHHHTT----------SCSBCSSSCCBCC
T ss_pred             cCcHhhCCcCccCcccCCeEC-CCCCEEchHHHHHHHH----------cCCCCCCCCCCCC
Confidence            345678999999999999877 6999999999999987          2579999998754

>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=98.97  E-value=4.1e-10  Score=87.51  Aligned_cols=50  Identities=34%  Similarity=0.714  Sum_probs=41.0

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...|+||++.+.+|+.+ +|||.||..||..|+...       .+...||+|+.++.
T Consensus        20 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~-------~~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           20 KILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQK-------KGPSQCPLCKNDIT   69 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBC-TTSCCCCSHHHHHHHHSS-------SSSCCCTTTSCCCC
T ss_pred             CCCCCcccChhhcCeEEC-CCCCHHHHHHHHHHHHhC-------CCCCCCcCCCCcCC
Confidence            356899999999999765 899999999999999831       12368999998754

>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=98.97  E-value=6.4e-10  Score=85.75  Aligned_cols=48  Identities=10%  Similarity=-0.032  Sum_probs=41.9

Q ss_pred             CCCCcccccccCCCCceeecCCC-CcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCF-HKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~Cg-H~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+.+.||||++.+.+|+++ +|| |+||..||..|+..          ...||+|+.++.
T Consensus        20 p~~~~CpI~~~~m~dPV~~-~cG~htf~r~cI~~~l~~----------~~~cP~~~~~l~   68 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPVVL-PSSRVTVDRSTIARHLLS----------DQTDPFNRSPLT   68 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHTTT----------SCBCTTTCSBCC
T ss_pred             cHhcCCcCccccccCCeEC-CCCCeEECHHHHHHHHHh----------CCCCCCCCCCCC
Confidence            4578999999999999776 799 99999999999872          568999998754

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

Probab=98.96  E-value=1.4e-10  Score=80.20  Aligned_cols=47  Identities=21%  Similarity=0.552  Sum_probs=39.2

Q ss_pred             CCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ..+...|+||++.+.+|+.+ +|||+||..|+..|             ...||+||+.+..
T Consensus         3 e~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~-------------~~~CP~Cr~~~~~   49 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEAS-------------GMQCPICQAPWPL   49 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSSS-------------SSSCSSCCSSSSC
T ss_pred             cccCCCceEeCCccCCeEEc-CCCCcccHHHHccC-------------CCCCCcCCcEeec
Confidence            35678899999999999665 79999999999773             4689999997654

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.94  E-value=8.3e-10  Score=84.20  Aligned_cols=55  Identities=20%  Similarity=0.323  Sum_probs=43.0

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCC--CCcc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPL--CKTE   72 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPl--Cr~~   72 (272)
                      +....+.||||++.+.+|+.+..|||+||..||..|+....    ..+....||+  |+..
T Consensus         3 ~~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~----~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            3 SGSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQ----KRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHH----TTTCCBCCCSTTCCCC
T ss_pred             CCCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHcc----CcCCCCCCCcCcCccc
Confidence            34567899999999999988745999999999999998421    1113568999  8854

>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=98.93  E-value=6.4e-10  Score=87.46  Aligned_cols=48  Identities=29%  Similarity=0.618  Sum_probs=41.4

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...|+||++.+.+|+.+ +|||.||..||..|+..         ....||+||.++.
T Consensus        22 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~   69 (116)
T 1rmd_A           22 KSISCQICEHILADPVET-SCKHLFCRICILRCLKV---------MGSYCPSCRYPCF   69 (116)
T ss_dssp             HHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH---------TCSBCTTTCCBCC
T ss_pred             CCCCCCCCCcHhcCcEEc-CCCCcccHHHHHHHHhH---------CcCcCCCCCCCCC
Confidence            467899999999999775 89999999999999984         2468999998754

>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=98.92  E-value=4.9e-10  Score=79.64  Aligned_cols=55  Identities=25%  Similarity=0.549  Sum_probs=44.8

Q ss_pred             CCCCCcccccccCCCCceee-cCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeec
Q 045854           15 SENPNPCPICLGPVVEDSYL-DKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHG   79 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l-~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~   79 (272)
                      ..+...|+||++...+++.+ .||||. ||..|+..|.+.          ...||+||+++..++..
T Consensus         5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~----------~~~CPiCR~~i~~~i~i   61 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKR----------NKPCPVCRQPIQMIVLT   61 (64)
T ss_dssp             CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHT----------TCCCTTTCCCCCEEEEE
T ss_pred             CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHc----------CCcCCCcCcchhceEee
Confidence            34566899999999998653 389998 899999999873          57899999998776554

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

Probab=98.91  E-value=3.7e-10  Score=89.73  Aligned_cols=49  Identities=29%  Similarity=0.633  Sum_probs=40.9

Q ss_pred             CCCCcccccccCCCCc------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVED------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+...|+||++.+.+|      .++.+|||.||..||.+|++.          ...||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~   59 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----------ANTCPTCRKKIN   59 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT----------CSBCTTTCCBCT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh----------CCCCCCCCCcCc
Confidence            4568899999999887      144489999999999999973          569999998763

>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=98.90  E-value=1.2e-10  Score=95.42  Aligned_cols=48  Identities=21%  Similarity=0.517  Sum_probs=40.9

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .+...|+||++.+.+|+.+ +|||+||..||..|++.         ....||+||.++
T Consensus        29 ~~~~~C~IC~~~~~~pv~~-~CgH~FC~~Ci~~~~~~---------~~~~CP~Cr~~~   76 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPFQA-QCGHRYCSFCLASILSS---------GPQNCAACVHEG   76 (141)
T ss_dssp             CGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHGGG---------SCEECHHHHHTT
T ss_pred             CcCcCCCCCChhhcCcEEC-CCCCccCHHHHHHHHhc---------CCCCCCCCCCcc
Confidence            4567999999999999665 89999999999999873         245899999864

>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=98.89  E-value=1.2e-09  Score=97.10  Aligned_cols=51  Identities=8%  Similarity=-0.102  Sum_probs=42.7

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .......||||++.+.+|+++ +|||+||..||..|+..         +...||+|+.++.
T Consensus       204 ~~~~~~~c~i~~~~~~dPv~~-~~gh~f~~~~i~~~~~~---------~~~~cP~~~~~~~  254 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQR---------VGHFNPVTRSPLT  254 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHH---------TCSSCTTTCCCCC
T ss_pred             CCCcccCCcCcCCHhcCCeEC-CCCCEECHHHHHHHHHH---------CCCCCcCCCCCCc
Confidence            445678999999999999776 79999999999999974         2345999998764

>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=98.89  E-value=1.2e-09  Score=85.46  Aligned_cols=48  Identities=29%  Similarity=0.639  Sum_probs=40.3

Q ss_pred             CCCcccccccCCCCc-----------------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVED-----------------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p-----------------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +...|+||++.+..+                 +.+.+|+|.||..||..|++.          ...||+||+++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~----------~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT----------RQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT----------CSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc----------CCcCcCCCCcce
Confidence            457899999998865                 455689999999999999983          679999999753

>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=98.89  E-value=2.6e-10  Score=90.12  Aligned_cols=46  Identities=33%  Similarity=0.681  Sum_probs=40.4

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .+...|+||++.+.+|+.+.+|||+||..||..|+.            ..||+||..+
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~------------~~CP~Cr~~~   65 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------------TGCPVCYTPA   65 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT------------TBCSSSCCBC
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc------------CCCcCCCCcC
Confidence            357899999999999977768999999999999964            5899999874

>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=98.84  E-value=1.2e-09  Score=77.36  Aligned_cols=53  Identities=25%  Similarity=0.592  Sum_probs=43.0

Q ss_pred             CCCcccccccCCCCceee-cCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeec
Q 045854           17 NPNPCPICLGPVVEDSYL-DKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHG   79 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l-~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~   79 (272)
                      ....|+||++...+++.+ .||||. ||..|+..|.+.          ...||+||+++..++..
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~----------~~~CPiCR~~i~~~i~i   60 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA----------GASCPICKKEIQLVIKV   60 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT----------TCBCTTTCCBCCEEEEE
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh----------CCcCCCcCchhhceEEE
Confidence            345799999999887543 489997 999999999872          57999999998776654

>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=98.83  E-value=1.6e-09  Score=90.76  Aligned_cols=53  Identities=30%  Similarity=0.596  Sum_probs=44.2

Q ss_pred             CCCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           13 CSSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ....+.+.|+||++.+.+|+.+ +|||+||..||..|+..         +...||+||.++..
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRD---------AGHKCPVDNEILLE   65 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH---------HCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCCCChhhcCcEEC-CCCCHHHHHHHHHHHHh---------CCCCCCCCccCcch
Confidence            3556678999999999999775 89999999999999974         13599999987643

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

Probab=98.82  E-value=1.8e-09  Score=78.74  Aligned_cols=48  Identities=25%  Similarity=0.500  Sum_probs=40.7

Q ss_pred             CCCcccccccCCCCceeecCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeec
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHG   79 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~   79 (272)
                      +...|+||++.+.+++.+ +|||. ||..|+..|              ..||+||+++...+..
T Consensus        23 ~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~--------------~~CP~Cr~~i~~~~~i   71 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV--------------DKCPMCYTVITFKQKI   71 (74)
T ss_dssp             HHTBCTTTSSSBCCEEEE-TTCCBCCCHHHHTTC--------------SBCTTTCCBCSEEEEC
T ss_pred             cCCCCCCCCCCCCCEEEc-CCCChhHHHHhhhcC--------------ccCCCcCcCccCcEEE
Confidence            357899999999999776 89999 999999877              4899999998776543

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

Probab=98.77  E-value=1.2e-08  Score=73.27  Aligned_cols=51  Identities=25%  Similarity=0.557  Sum_probs=41.6

Q ss_pred             CCCCcccccccCCCCceeecCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeeccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYD   81 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~   81 (272)
                      .+...|+||++...+++.+ ||||. ||..|+..              ...||+||+.+...+.-+.
T Consensus        13 ~~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~--------------~~~CP~CR~~i~~~~~i~~   64 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNWVLL-PCRHTCLCDGCVKY--------------FQQCPMCRQFVQESFALSG   64 (68)
T ss_dssp             CCSSCCSSSSSSCCCCEET-TTTBCCSCTTHHHH--------------CSSCTTTCCCCCCEECCCS
T ss_pred             CCCCCCCCcCcCCCCEEEE-CCCChhhhHHHHhc--------------CCCCCCCCcchhceEEeec
Confidence            4567899999999988555 89998 99999973              3689999999877766544

>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=98.75  E-value=5.9e-09  Score=98.46  Aligned_cols=49  Identities=24%  Similarity=0.625  Sum_probs=41.6

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      ...|+||++.+.+|+.+ +|||.||..|+..|+..         ....||+||+++...
T Consensus       332 ~~~C~ICle~~~~pv~l-pCGH~FC~~Ci~~wl~~---------~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQES---------EGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCCEEEE-TTCCEECHHHHHHHHHH---------TCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCCeEEe-CCCChhhHHHHHHHHhc---------CCCCCCCCCCccCCc
Confidence            36899999999998665 89999999999999873         257999999987543

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

Probab=98.75  E-value=5.5e-09  Score=88.99  Aligned_cols=51  Identities=8%  Similarity=-0.114  Sum_probs=42.8

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+.+.||||++.+.+|+++ +|||+||..||..|+..         ....||.|+.++.
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~-~~Ghtfer~~I~~~l~~---------~~~tcP~t~~~l~  152 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQR---------VGHFDPVTRSPLT  152 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH---------TCSBCTTTCCBCC
T ss_pred             CCcHhhcccCccccCCCCeEC-CCCCEECHHHHHHHHHh---------CCCCCCCCcCCCC
Confidence            345678999999999999777 89999999999999974         1237999998753

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

Probab=98.72  E-value=9.4e-09  Score=74.88  Aligned_cols=46  Identities=26%  Similarity=0.559  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCceeecCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceee
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH   78 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~   78 (272)
                      ...|+||++.+.+++.+ +|||. ||..|+..              ...||+||.++...+.
T Consensus        25 ~~~C~IC~~~~~~~~~~-pCgH~~~C~~C~~~--------------~~~CP~Cr~~i~~~~~   71 (75)
T 2ecg_A           25 EKLCKICMDRNIAIVFV-PCGHLVTCKQCAEA--------------VDKCPMCYTVITFKQK   71 (75)
T ss_dssp             HHSCSSSCSSCCCBCCS-SSCCCCBCHHHHHH--------------CSBCTTTCCBCCCCCB
T ss_pred             CCCCCcCCCCCCCEEEe-cCCCHHHHHHHhhC--------------CCCCccCCceecCcEE
Confidence            45799999999998665 89999 99999943              3689999998766544

>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=98.72  E-value=7.1e-09  Score=92.97  Aligned_cols=50  Identities=24%  Similarity=0.438  Sum_probs=42.2

Q ss_pred             CCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCC--CCcc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPL--CKTE   72 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPl--Cr~~   72 (272)
                      ......||||++.+.+|++...|||+||..||..|+..        ++...||+  |+..
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~--------~~~~~CPvtGCr~~  229 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQG--------YTTRDCPQAACSQV  229 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTT--------CSCEECSGGGCSCE
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHh--------CCCCCCCcccccCc
Confidence            34678999999999999887789999999999999862        12468999  9975

>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=98.70  E-value=2.1e-09  Score=85.60  Aligned_cols=48  Identities=29%  Similarity=0.639  Sum_probs=0.8

Q ss_pred             CCCcccccccCCCCc-----------------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVED-----------------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p-----------------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....|+||++.+..+                 +.+.+|+|.||..||.+|++.          ...||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~----------~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT----------RQVCPLDNREWE  111 (117)
T ss_dssp             CC-------------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc----------CCcCCCCCCeee
Confidence            347899999998763                 233489999999999999984          578999999753

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

Probab=98.69  E-value=5.8e-09  Score=82.70  Aligned_cols=49  Identities=29%  Similarity=0.633  Sum_probs=40.7

Q ss_pred             CCCCcccccccCCCCc------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVED------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+...|+||++.+.++      ....+|||.||..||.+|++.          ...||+||+++.
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~  124 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----------ANTCPTCRKKIN  124 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH----------CSBCTTTCCBCC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc----------CCCCCCCCCcCC
Confidence            4567899999998765      244589999999999999984          579999998763

>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=98.63  E-value=1.5e-08  Score=74.86  Aligned_cols=50  Identities=22%  Similarity=0.642  Sum_probs=40.9

Q ss_pred             CCCcccccccCCCCceeecCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeeccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYD   81 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~   81 (272)
                      +...|+||++.+.+++.+ ||||. ||..|+..|              ..||+||+++...+..+.
T Consensus        17 ~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~--------------~~CP~Cr~~i~~~~~i~~   67 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFC-PCGHTVCCESCAAQL--------------QSCPVCRSRVEHVQHVYL   67 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEE-TTCBCCBCHHHHTTC--------------SBCTTTCCBCCEEEECBC
T ss_pred             CCCEeEEeCcccCcEEEE-CCCCHHHHHHHHHhc--------------CcCCCCCchhhCeEEEEe
Confidence            346799999999998666 89998 999999764              489999999877665443

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

Probab=98.57  E-value=7.5e-08  Score=71.47  Aligned_cols=53  Identities=25%  Similarity=0.533  Sum_probs=40.9

Q ss_pred             CCCCCCCcccccccCCC--CceeecCCC-----CcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           13 CSSENPNPCPICLGPVV--EDSYLDKCF-----HKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        13 ~~~~~~~~CpICl~~~~--~p~~l~~Cg-----H~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ....+...|+||++.+.  ++. +.||.     |.|+..||.+|+...        ....||+||..+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~--------~~~~CplCr~~~~   69 (80)
T 2d8s_A           10 ITPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSS--------DTRCCELCKYEFI   69 (80)
T ss_dssp             CCCTTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHH--------CCSBCSSSCCBCC
T ss_pred             CCCCCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhC--------CCCCCCCCCCeee
Confidence            44556678999998774  454 56896     999999999999852        2368999998753

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

Probab=98.52  E-value=1.5e-07  Score=68.92  Aligned_cols=52  Identities=15%  Similarity=0.466  Sum_probs=40.9

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      +....|+||.+.+..-..-..|+|.|+..||.+|++..        ....||+|+++...
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~--------~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN--------AEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTC--------SSCCCTTTCSCCCS
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhc--------CCCCCCCCcCcCCC
Confidence            34578999999997654555899999999999999741        13789999987543

>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=98.47  E-value=9e-08  Score=72.47  Aligned_cols=54  Identities=22%  Similarity=0.683  Sum_probs=40.1

Q ss_pred             CCCcccccccCCCCceee--cCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCC--CCcc
Q 045854           17 NPNPCPICLGPVVEDSYL--DKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPL--CKTE   72 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l--~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPl--Cr~~   72 (272)
                      +...|+||++.+..+..+  .+|||.||..|+..++...-..  .......||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~--g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKE--GLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHH--CSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhc--CCcccccCccccCCCC
Confidence            467899999999877544  4799999999999998753211  0112468999  9976

>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=98.42  E-value=4.9e-08  Score=91.03  Aligned_cols=49  Identities=22%  Similarity=0.675  Sum_probs=41.9

Q ss_pred             CCCcccccccCCCCceeecCCCCc-ccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeecc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHK-FCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY   80 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~-FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~   80 (272)
                      +...|+||++.+.+|+.+ ||||. ||..|+..|              ..||+||+++...++.+
T Consensus       294 ~~~~C~IC~~~~~~~v~l-pCgH~~fC~~C~~~~--------------~~CP~CR~~i~~~~~i~  343 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVFI-PCGHLVVCQECAPSL--------------RKCPICRGIIKGTVRTF  343 (345)
T ss_dssp             TTCBCTTTSSSBCCEEEE-TTCCEEECTTTGGGC--------------SBCTTTCCBCCEEEECC
T ss_pred             CCCCCCccCCcCCceEEc-CCCChhHhHHHHhcC--------------CcCCCCCCCccCeEEee
Confidence            467899999999999777 89999 999999876              48999999987776543

>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=98.37  E-value=2.3e-07  Score=65.29  Aligned_cols=46  Identities=13%  Similarity=0.028  Sum_probs=39.6

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      ...||||++.+.+|+.+.+|||+|+..||.+|++.          ..+||+++.++
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~----------~~~cP~t~~~L   48 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD----------TGNDPITNEPL   48 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH----------HSBCTTTCCBC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHh----------CCCCcCCcCCC
Confidence            46899999999999776579999999999999984          34699999876

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

Probab=98.29  E-value=4.8e-07  Score=69.54  Aligned_cols=50  Identities=28%  Similarity=0.565  Sum_probs=43.1

Q ss_pred             cccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceee
Q 045854           20 PCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIH   78 (272)
Q Consensus        20 ~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~   78 (272)
                      -|++|--++..-.++.||.|.||+.|+..|.+.         +...||.|+.++..+-.
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~---------~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKK---------GDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHT---------TCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhc---------cCCCCcCcCCeeeeeEE
Confidence            599999999988888899999999999999874         35799999998766644

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

Probab=97.82  E-value=2.2e-05  Score=54.89  Aligned_cols=50  Identities=18%  Similarity=0.489  Sum_probs=38.1

Q ss_pred             CCCCcccccccCCCCceeecCCCC-----cccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFH-----KFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH-----~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ++...|.||++...++. +.||.+     .|+..|+.+|+...        +...||+|+.++.
T Consensus         4 ~~~~~CrIC~~~~~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~--------~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELGNER-FRACGCTGELENVHRSCLSTWLTIS--------RNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCC-CCSCCCSSGGGSCCHHHHHHHHHHH--------TCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCCCce-ecCcCCCCchhhhHHHHHHHHHHhC--------CCCccCCCCCeee
Confidence            34568999998766664 468654     79999999999742        2579999998753

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

Probab=97.75  E-value=1.6e-05  Score=73.89  Aligned_cols=61  Identities=25%  Similarity=0.508  Sum_probs=41.3

Q ss_pred             CCCCCcccccccCCCC----ce---eecCCCCcccHHHHHHHHHHhhhcccCC-CCCCCCCCCCccccc
Q 045854           15 SENPNPCPICLGPVVE----DS---YLDKCFHKFCYNCIVHWTKVVASKHSSL-LSSVKCPLCKTENVS   75 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~----p~---~l~~CgH~FC~~Ci~~w~~~~~~k~~~~-~~~~~CPlCr~~~~~   75 (272)
                      .+....|+||+..+.+    |.   ...+|+|.|+..|+.+|++...+..... .....||.|++++..
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            3456789999998765    21   1237999999999999998533111111 112579999998654

>1x4q_A U4/U6 small nuclear ribonucleoprotein PRP3; PWI domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.23  E-value=0.00043  Score=52.49  Aligned_cols=62  Identities=24%  Similarity=0.408  Sum_probs=48.9

Q ss_pred             hhHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccchhhhHHHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLF  217 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~~t~~F~HEl~~F  217 (272)
                      ..+.|||...|.-+++.+| +.|++||++.+++.              .+..+    +.+.|.+||.+.|..|+-||+..
T Consensus        16 ~~lkpWI~kkv~e~LG~eD-~~lVd~i~~~l~~~--------------~dpk~----l~~~L~~fLd~~a~~Fv~eLW~l   76 (92)
T 1x4q_A           16 DELKPWIEKTVKRVLGFSE-PTVVTAALNCVGKG--------------MDKKK----AADHLKPFLDDSTLRFVDKLFEA   76 (92)
T ss_dssp             HHHHHHHHHHHHHHHSSCC-HHHHHHHHHHHHTT--------------CCHHH----HHHHHTTTTGGGTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCc-HHHHHHHHHHHHcC--------------CCHHH----HHHHHHHHhhhhHHHHHHHHHHH
Confidence            5699999999999999766 56778888887631              11222    55678999999999999999988


Q ss_pred             H
Q 045854          218 L  218 (272)
Q Consensus       218 a  218 (272)
                      +
T Consensus        77 L   77 (92)
T 1x4q_A           77 V   77 (92)
T ss_dssp             H
T ss_pred             H
Confidence            7

>1mp1_A Ser/Arg-related nuclear matrix protein; four helix bundle, RNA binding protein; NMR {Homo sapiens} SCOP: a.188.1.1

Probab=96.62  E-value=0.0017  Score=50.87  Aligned_cols=64  Identities=17%  Similarity=0.491  Sum_probs=48.3

Q ss_pred             hhHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhcccccc-chhhhHHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLM-ARTDRFVNEMQL  216 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~-~~t~~F~HEl~~  216 (272)
                      ..+.|||.+.+..++|.+| ++|+.||++.|+.       .    .|.  ..    .+...|.+||. ..|.-|+.||+.
T Consensus        23 ~~ikpWI~kki~e~LG~ED-dvlid~i~~~L~~-------~----~~d--pk----~lqi~L~gFL~~e~a~~Fv~eLW~   84 (111)
T 1mp1_A           23 EVIKPWITKRVTEILGFED-DVVIEFIFNQLEV-------K----NPD--SK----MMQINLTGFLNGKNAREFMGELWP   84 (111)
T ss_dssp             GGGHHHHHHHHHHHHSSCC-SHHHHHHHHHTTS-------S----SCC--HH----HHHHHHTTTSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcc-HHHHHHHHHHhhc-------c----CCC--HH----HHHHHHHHHhCcccHHHHHHHHHH
Confidence            5699999999999998544 6888999888642       0    121  11    14457899998 789999999998


Q ss_pred             HHh
Q 045854          217 FLA  219 (272)
Q Consensus       217 Fa~  219 (272)
                      -+-
T Consensus        85 LLi   87 (111)
T 1mp1_A           85 LLL   87 (111)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            774

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

Probab=96.47  E-value=0.0018  Score=57.07  Aligned_cols=51  Identities=16%  Similarity=0.442  Sum_probs=39.7

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccce
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI   76 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~   76 (272)
                      -..|.||.+....-..-..|+|.|+..|+..|++..        +...||.|+.....-
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~--------~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN--------AEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTC--------SSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhC--------CCCCCCCCCCCCCCC
Confidence            567999999888655554699999999999998731        256999999864433

>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=95.90  E-value=0.016  Score=42.62  Aligned_cols=39  Identities=28%  Similarity=0.726  Sum_probs=31.1

Q ss_pred             CCCCCCcccccccCCCCceeecCC----CCcccHHHHHHHHHHh
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKC----FHKFCYNCIVHWTKVV   53 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~C----gH~FC~~Ci~~w~~~~   53 (272)
                      .....+.|.+|.+.+++.-+. .|    +|.||+.|-...++.+
T Consensus        11 ~~~a~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sIk~q   53 (93)
T 2cs3_A           11 ANSGPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKAQ   53 (93)
T ss_dssp             CSCCSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHHH
T ss_pred             CCCCeeEeecchhhhccCcee-eCCCccCCeeeccccHHHHHhc
Confidence            345678999999999986554 24    7899999999998853

>3v53_A RNA-binding protein 25; PWI, RNA-binding domain; 2.90A {Homo sapiens}

Probab=95.31  E-value=0.015  Score=45.86  Aligned_cols=62  Identities=19%  Similarity=0.404  Sum_probs=45.2

Q ss_pred             hhHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccchhhhHHHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMARTDRFVNEMQLF  217 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~~t~~F~HEl~~F  217 (272)
                      .++.||+.+-+.-++|.++ +.|+++|++.|+.      .    ..|    .    .+.+.|++||-+.|+-|+-+|+..
T Consensus        45 ~~lkPWI~kKI~E~LG~eE-d~LVdfI~~~L~~------~----~~p----k----~l~~~L~~~LDeeA~~FV~kLWrl  105 (119)
T 3v53_A           45 RRIRPWINKKIIEYIGEEE-ATLVDFVCSKVMA------H----SSP----Q----SILDDVAMVLDEEAEVFIVKMWRL  105 (119)
T ss_dssp             HTHHHHHHHHHHHHTC----CHHHHHHHHHHHT------T----CCH----H----HHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCch-HHHHHHHHHHHHc------C----CCH----H----HHHHHHHHHHHhhHHHHHHHHHHH
Confidence            5799999999999999765 3456788777653      1    111    1    255778999999999999999887


Q ss_pred             H
Q 045854          218 L  218 (272)
Q Consensus       218 a  218 (272)
                      +
T Consensus       106 L  106 (119)
T 3v53_A          106 L  106 (119)
T ss_dssp             H
T ss_pred             H
Confidence            5

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

Probab=95.23  E-value=0.01  Score=44.66  Aligned_cols=33  Identities=15%  Similarity=0.369  Sum_probs=25.4

Q ss_pred             CCCcccccccC-CCCceee-cCCCCcccHHHHHHH
Q 045854           17 NPNPCPICLGP-VVEDSYL-DKCFHKFCYNCIVHW   49 (272)
Q Consensus        17 ~~~~CpICl~~-~~~p~~l-~~CgH~FC~~Ci~~w   49 (272)
                      ++..|+||.+. +..++.. ..|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            35789999976 4555441 579999999999983

>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=87.61  E-value=0.41  Score=44.45  Aligned_cols=50  Identities=16%  Similarity=0.414  Sum_probs=37.6

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .+.|||-...+..|+....|.|.-|+.- ..|+.....     .....||+|.+.+
T Consensus       215 SL~CPlS~~ri~~P~Rg~~C~HlqCFDl-~sfL~~~~~-----~~~W~CPiC~k~~  264 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPCRAVTCTHLQCFDA-ALYLQMNEK-----KPTWICPVCDKKA  264 (360)
T ss_dssp             ESBCTTTCSBCSSEEEETTCCCCCCEEH-HHHHHHHHH-----SCCCBCTTTCSBC
T ss_pred             eeeCCCccceeccCCcCCCCCCCccCCH-HHHHHHHhh-----CCCeECCCCCccc
Confidence            4689999999999999999999977753 334443221     2568999999864

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

Probab=87.26  E-value=0.48  Score=44.17  Aligned_cols=50  Identities=20%  Similarity=0.495  Sum_probs=37.4

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .+.||+-...+..|+....|.|.-|+.- ..|+....     ......||+|.+.+
T Consensus       249 SL~CPlS~~ri~~PvRg~~C~HlQCFDl-~sfL~~~~-----~~~~W~CPIC~k~~  298 (371)
T 3i2d_A          249 SLQCPISYTRMKYPSKSINCKHLQCFDA-LWFLHSQL-----QIPTWQCPVCQIDI  298 (371)
T ss_dssp             ESBCTTTSSBCSSEEEETTCCSSCCEEH-HHHHHHHH-----HSCCCBCTTTCCBC
T ss_pred             eecCCCccccccccCcCCcCCCcceECH-HHHHHHhh-----cCCceeCCCCCccc
Confidence            4789999999999999999999877764 23333211     12578999998764

>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=81.57  E-value=1  Score=46.80  Aligned_cols=49  Identities=8%  Similarity=-0.052  Sum_probs=41.3

Q ss_pred             CCCCCcccccccCCCCceeecCCC-CcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           15 SENPNPCPICLGPVVEDSYLDKCF-HKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~p~~l~~Cg-H~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ..+...|||-++.+.+|+.+ +.| ++|-..+|.+|+..          ..+||.-+.+++
T Consensus       888 iP~~F~cPIs~~lM~DPVil-psG~~TydR~~I~~wl~~----------~~tdP~Tr~~L~  937 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKDPVIL-PASKMNIDRSTIKAHLLS----------DSTDPFNRMPLK  937 (968)
T ss_dssp             SCGGGBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHHTT----------CCBCTTTCCBCC
T ss_pred             CcHHhCCcchhhHHhCCeEc-CCCCEEECHHHHHHHHhc----------CCCCCCCCCCCC
Confidence            34578899999999999777 787 59999999999973          568999988764

---

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	272
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-10
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	9e-08
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-06
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-05
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	3e-05
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	5e-04
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.001
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	0.002
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	0.002
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	0.002
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.004

>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 = 53.4 bits (128), Expect = 2e-10
 Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 10/61 (16%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGY 80
          CPICL      S    C H FCY CI  W          +  +  CPLCK    S++H  
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRW----------IRQNPTCPLCKVPVESVVHTI 57

Query: 81 D 81
          +
Sbjct: 58 E 58

>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 = 45.6 bits (108), Expect = 9e-08
 Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 13/55 (23%)

Query: 21 CPICLGPVVEDSY---LDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C +CL  + +      L +C H F   C+  W          L S   CPLC+  
Sbjct: 8  CAVCLAELEDGEEARFLPRCGHGFHAECVDMW----------LGSHSTCPLCRLT 52

>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 = 42.8 bits (100), Expect = 3e-06
 Identities = 15/99 (15%), Positives = 34/99 (34%), Gaps = 13/99 (13%)

Query: 15  SENPNPCPICLGPVVEDS--YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
           S   + C +CLG    +    + +C   FC  C+  + ++       L +++ CP     
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVEL--LIKEGLETAISCPDAACP 59

Query: 73  NVSIIHGYDGTYFQRNYISQIFGDSFFFSKAHRYRLQSY 111
               +        Q N I  +   +    +  + + +  
Sbjct: 60  KQGHL--------QENEIECMV-AAEIMQRYKKLQFERS 89

>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 = 41.5 bits (97), Expect = 5e-06
 Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C IC     +D  ++ C H  C +C+  W +              CP C+ E
Sbjct: 26 CKICAEND-KDVKIEPCGHLMCTSCLTSWQES---------EGQGCPFCRCE 67

>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 = 39.5 bits (92), Expect = 1e-05
 Identities = 10/52 (19%), Positives = 14/52 (26%), Gaps = 14/52 (26%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C  C         L  C H  C  C+                  +CP+C+  
Sbjct: 9  CQQCQAEAKCPKLL-PCLHTLCSGCLEASGM-------------QCPICQAP 46

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 3e-05
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 8/52 (15%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CPICL  + ++    KC H FC  C++                 +CPLCK +
Sbjct: 24 CPICLELI-KEPVSTKCDHIFCKFCMLKLLNQKKGPS-------QCPLCKND 67

>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 = 39.0 bits (90), Expect = 3e-05
 Identities = 15/80 (18%), Positives = 24/80 (30%), Gaps = 24/80 (30%)

Query: 21 CPICLGPVVEDS----YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSI 76
          CP C      +      ++ C H  C +C+                +  CP C T     
Sbjct: 6  CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR---------GAGNCPECGTP---- 52

Query: 77 IHGYDGTYFQRNYISQIFGD 96
                   + N+  Q+F D
Sbjct: 53 -------LRKSNFRVQLFED 65

>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 = 39.1 bits (91), Expect = 5e-05
 Identities = 15/51 (29%), Positives = 18/51 (35%), Gaps = 10/51 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          C IC   +  D     C H FC  CI+   KV             CP C+ 
Sbjct: 26 CQICEHIL-ADPVETSCKHLFCRICILRCLKV---------MGSYCPSCRY 66

>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 = 36.3 bits (83), Expect = 5e-04
 Identities = 10/29 (34%), Positives = 12/29 (41%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHW 49
          C  C   + E   L  C H FC NC+   
Sbjct: 25 CSRCTNILREPVCLGGCEHIFCSNCVSDC 53

>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 = 34.1 bits (77), Expect = 0.001
 Identities = 8/61 (13%), Positives = 14/61 (22%), Gaps = 12/61 (19%)

Query: 16 ENPNPCPICL----GPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKT 71
          E+   C IC                       +C+  W  +  +          C +C  
Sbjct: 4  EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTA--------CQICGV 55

Query: 72 E 72
           
Sbjct: 56 V 56

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.7 bits (79), Expect = 0.002
 Identities = 14/66 (21%), Positives = 20/66 (30%), Gaps = 16/66 (24%)

Query: 13 CSSENPNPCPICLGPVVEDS------YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKC 66
          C +   + C  C       +          C H F ++CI  W          L +   C
Sbjct: 27 CRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRW----------LKTRQVC 76

Query: 67 PLCKTE 72
          PL   E
Sbjct: 77 PLDNRE 82

>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 = 33.9 bits (77), Expect = 0.002
 Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 12/55 (21%)

Query: 21 CPICLGPVVEDS---YLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          CP+C+ P+  D    +   C ++ C  C                 +  CP C+  
Sbjct: 3  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD---------ENGLCPACRKP 48

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.0 bits (79), Expect = 0.002
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 5/40 (12%)

Query: 34 LDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN 73
          L KC H F   C++         + +   S++CP CKT  
Sbjct: 58 LTKCSHAFHLLCLLAMY-----CNGNKDGSLQCPSCKTIY 92

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 32.8 bits (74), Expect = 0.004
 Identities = 6/52 (11%), Positives = 11/52 (21%), Gaps = 10/52 (19%)

Query: 21 CPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE 72
          C I            K    F  + +  + K           +   P+    
Sbjct: 3  CAISGKVPRRPVLSPKSRTIFEKSLLEQYVK----------DTGNDPITNEP 44

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	272
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.46
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.23
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.22
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.18
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.17
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.15
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.15
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.12
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.08
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.06
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.06
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.99
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.96
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.89
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.76
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.6
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.22
d1mp1a_	111	Ser/Arg-related nuclear matrix protein srm160 {Hum	95.44
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	95.34

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.46  E-value=3.1e-14  Score=101.19  Aligned_cols=57  Identities=37%  Similarity=0.870  Sum_probs=49.7

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccceeecccCC
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVSIIHGYDGT   83 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~~~~~~~~~   83 (272)
                      ....|+||++.+.++.++.+|||.||..||.+|++.          ..+||+||+++..+++.+..+
T Consensus         4 ~~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~----------~~~CP~CR~~i~~~~~~~~~~   60 (68)
T d1chca_           4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ----------NPTCPLCKVPVESVVHTIESD   60 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH----------SCSTTTTCCCCCCEECCCCSC
T ss_pred             CCCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh----------CCcCCCCCcchHhhcccccCC
Confidence            345799999999988888899999999999999984          578999999998888877653

>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=99.23  E-value=3.4e-12  Score=93.10  Aligned_cols=48  Identities=25%  Similarity=0.642  Sum_probs=40.5

Q ss_pred             CCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccccc
Q 045854           18 PNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENVS   75 (272)
Q Consensus        18 ~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~~   75 (272)
                      ...|+||++.+.+++.+ +|||.||..||..|+..         +...||+||..+..
T Consensus        23 ~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~wl~~---------~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          23 FQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQES---------EGQGCPFCRCEIKG   70 (79)
T ss_dssp             TTBCTTTSSSBCCEECS-SSCCEECHHHHHHHHHT---------TCCSCTTTCCCCCC
T ss_pred             CCCCccCCCcCCCeEEe-CCCCeeeHHHHHHHHHH---------CcCcCCCCCcCccC
Confidence            45799999999998554 89999999999999973         34689999998754

>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=99.22  E-value=3.6e-12  Score=94.58  Aligned_cols=47  Identities=30%  Similarity=0.631  Sum_probs=40.6

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +...|+||++.+.+|+.+ +|||+||..||.+|++.         ...+||+||.++
T Consensus        22 ~~l~C~IC~~~~~~pv~~-~CgH~FC~~Ci~~~~~~---------~~~~CP~Cr~p~   68 (86)
T d1rmda2          22 KSISCQICEHILADPVET-SCKHLFCRICILRCLKV---------MGSYCPSCRYPC   68 (86)
T ss_dssp             HHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHH---------TCSBCTTTCCBC
T ss_pred             cCcCCccCCcchhcceec-CCCChhhHHHHHHHHhh---------CCCcCcccCCCC
Confidence            346899999999999665 89999999999999974         356899999875

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.18  E-value=5.4e-12  Score=86.06  Aligned_cols=46  Identities=13%  Similarity=0.028  Sum_probs=40.8

Q ss_pred             CcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           19 NPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        19 ~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +.|+||++.+.+|+.+..|||+||..||.+|++.          ...||+|++++.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~----------~~~CP~c~~~l~   46 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD----------TGNDPITNEPLS   46 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH----------HSBCTTTCCBCC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhh----------ccCCCccCCcCC
Confidence            3699999999999888779999999999999984          468999998763

>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=99.17  E-value=5.6e-12  Score=85.82  Aligned_cols=49  Identities=27%  Similarity=0.763  Sum_probs=39.7

Q ss_pred             CCCCCcccccccCCCC---ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           15 SENPNPCPICLGPVVE---DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        15 ~~~~~~CpICl~~~~~---p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .++...|+||++.+..   ...+.+|+|.||..||.+|++.          ...||+||+++
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~----------~~~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS----------HSTCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT----------CCSCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh----------CCcCCCCCCEe
Confidence            3456679999999964   3345579999999999999983          57899999875

>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=99.15  E-value=1.3e-11  Score=86.69  Aligned_cols=49  Identities=22%  Similarity=0.481  Sum_probs=38.1

Q ss_pred             CCCcccccccCCC----CceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVV----EDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~----~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ++..||||++.+.    ....+.+|||.||..||.+|++.         ....||+||+++.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~---------~~~~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR---------GAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHT---------TSSSCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCc---------CcCCCCCCCcCcc
Confidence            4578999998642    23456689999999999999973         2457999998753

>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=99.15  E-value=1.3e-11  Score=93.90  Aligned_cols=49  Identities=35%  Similarity=0.729  Sum_probs=40.6

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +.+.||||++.+.+|+.+ +|||+||..||..|++..       +....||+||.++
T Consensus        20 ~~l~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~-------~~~~~CP~Cr~~~   68 (103)
T d1jm7a_          20 KILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQK-------KGPSQCPLCKNDI   68 (103)
T ss_dssp             HHTSCSSSCCCCSSCCBC-TTSCCCCSHHHHHHHHSS-------SSSCCCTTTSCCC
T ss_pred             cCcCCCccCchhCCeEEc-CCCCchhhHHHHHHHHHC-------CCCCcCcCCCCcC
Confidence            346899999999999765 799999999999999731       1346899999875

>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=99.12  E-value=2e-11  Score=88.31  Aligned_cols=51  Identities=16%  Similarity=0.303  Sum_probs=43.7

Q ss_pred             CCCCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           14 SSENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        14 ~~~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...+++.||||++.+.+|+.+ +|||+||..||..|+..         ....||.|+.++.
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~-~cgh~fc~~ci~~~~~~---------~~~~cP~~~~~l~   54 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDA---------GHKTCPKSQETLL   54 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTT---------TCCBCTTTCCBCS
T ss_pred             CCCccCCCcCcCchhhCceEc-cCCCcchHHHHHHHHHH---------CCCCCCcccccCC
Confidence            456789999999999999876 89999999999999973         3467999998753

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.08  E-value=4.2e-11  Score=87.06  Aligned_cols=49  Identities=8%  Similarity=-0.098  Sum_probs=42.2

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      .+.+.||||++.+.+|+.+ +|||+||..||..|+..         ....||.|+.++.
T Consensus         5 P~~l~CpIc~~l~~dPv~~-~cGhtfc~~ci~~~l~~---------~~~~cP~c~~~l~   53 (80)
T d2c2la2           5 PDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQR---------VGHFNPVTRSPLT   53 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHH---------TCSSCTTTCCCCC
T ss_pred             CccccCcCcCchhhhhccc-CCcCeecHHHHHHHHhc---------CCccCCCcccccc
Confidence            4678999999999999765 89999999999999974         3468999998753

>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=99.06  E-value=2.5e-11  Score=81.51  Aligned_cols=47  Identities=23%  Similarity=0.568  Sum_probs=37.2

Q ss_pred             CcccccccCCCCc---eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           19 NPCPICLGPVVED---SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        19 ~~CpICl~~~~~p---~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ..||||++.+...   ..+.+|||.||..|+.+|++.         ...+||+||+++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~---------~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTD---------ENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTT---------SCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhh---------cCCCCCccCCcCC
Confidence            3699999988542   244589999999999999874         3468999999864

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=1.2e-11  Score=93.29  Aligned_cols=45  Identities=31%  Similarity=0.670  Sum_probs=39.9

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +.+.|+||++.+.+|+.+.+|||+||..||.+|+.            ..||.||.++
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~------------~~CP~Cr~~~   65 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------------TGCPVCYTPA   65 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT------------TBCSSSCCBC
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh------------ccccccCCcC
Confidence            56789999999999988878999999999999975            3699999764

>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=98.99  E-value=3.7e-11  Score=81.98  Aligned_cols=44  Identities=23%  Similarity=0.633  Sum_probs=37.1

Q ss_pred             CCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           17 NPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        17 ~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      +.+.|+||++.+.+|+.+ +|||+||..||.+|             ...||+||+++.
T Consensus         5 ~~l~C~IC~~~~~~p~~l-pCgH~fC~~Ci~~~-------------~~~CP~Cr~~~~   48 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEAS-------------GMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSSS-------------SSSCSSCCSSSS
T ss_pred             CCCCCcccCcccCCCEEe-cCCCHHhHHHHHcC-------------CCcCcCCCCccc
Confidence            457899999999999665 89999999999654             468999998753

>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=98.96  E-value=2.4e-10  Score=88.01  Aligned_cols=51  Identities=29%  Similarity=0.535  Sum_probs=38.9

Q ss_pred             CCcccccccCCCCc-----------------eeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           18 PNPCPICLGPVVED-----------------SYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        18 ~~~CpICl~~~~~p-----------------~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      +..|+||++.+..+                 ..+.+|||.||..||..|++..+     .....+||+||+.+
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~-----~~~~~~CP~CR~~~   92 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN-----KDGSLQCPSCKTIY   92 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTC-----CSSCCBCTTTCCBS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcC-----cCCCCccccccchh
Confidence            55799999987542                 35668999999999999998521     12346899999864

>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=98.89  E-value=5e-10  Score=82.80  Aligned_cols=47  Identities=30%  Similarity=0.697  Sum_probs=37.8

Q ss_pred             CCcccccccCCCC-----------------ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           18 PNPCPICLGPVVE-----------------DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        18 ~~~CpICl~~~~~-----------------p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ...|+||++.+.+                 ++.+.+|||.||..||.+|++.          ..+||+||+++.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~----------~~~CP~CR~~~~   84 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT----------RQVCPLDNREWE   84 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT----------CSBCSSSCSBCC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH----------CCcCCCCCCccc
Confidence            4459999887754                 2355689999999999999984          578999999864

>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=98.76  E-value=4e-09  Score=79.47  Aligned_cols=48  Identities=10%  Similarity=-0.035  Sum_probs=40.2

Q ss_pred             CCCCcccccccCCCCceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTEN   73 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~   73 (272)
                      .+.+.||||++.+.+|+++..|+|+||..||..|++.          ...||+|++++
T Consensus        20 P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~----------~~~~P~~~~~l   67 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS----------DQTDPFNRSPL   67 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT----------SCBCTTTCSBC
T ss_pred             cHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHh----------cCCcccccccc
Confidence            3578999999999999877434568999999999973          56899999875

>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=98.60  E-value=1.8e-08  Score=68.89  Aligned_cols=50  Identities=18%  Similarity=0.557  Sum_probs=38.4

Q ss_pred             CCCCcccccccCCCCceeecCC-----CCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcccc
Q 045854           16 ENPNPCPICLGPVVEDSYLDKC-----FHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTENV   74 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~C-----gH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~~~   74 (272)
                      ++...|+||++.+.++... +|     +|.||..||.+|+...        +..+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~-~c~c~~c~h~~H~~Cl~~W~~~~--------~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFR-ACGCTGELENVHRSCLSTWLTIS--------RNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCC-SCCCSSGGGSCCHHHHHHHHHHH--------TCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeE-ecccCCCCCEEcHHHHHHHHhhC--------CCCCCcccCCeee
Confidence            4566899999988776333 44     5999999999999742        2468999999753

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=4.5e-07  Score=66.78  Aligned_cols=53  Identities=21%  Similarity=0.596  Sum_probs=37.1

Q ss_pred             CCcccccccCCCC--ceeecCCCCcccHHHHHHHHHHhhhcccCCCCCCCCCCCCcc
Q 045854           18 PNPCPICLGPVVE--DSYLDKCFHKFCYNCIVHWTKVVASKHSSLLSSVKCPLCKTE   72 (272)
Q Consensus        18 ~~~CpICl~~~~~--p~~l~~CgH~FC~~Ci~~w~~~~~~k~~~~~~~~~CPlCr~~   72 (272)
                      ...|+||++.+..  ...+.+|+|.||..|+..|++.+-..  ......+||.|+.+
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~--~~~~~i~CP~~~C~   59 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKE--GLETAISCPDAACP   59 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHH--CSCCCEECSCTTCS
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhc--CCccccCCcCCCCC
Confidence            4579999998753  34556899999999999999853211  11124579987643

>d1mp1a_ a.188.1.1 (A:) Ser/Arg-related nuclear matrix protein srm160 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: PWI domain
superfamily: PWI domain
family: PWI domain
domain: Ser/Arg-related nuclear matrix protein srm160
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.44  E-value=0.0085  Score=44.90  Aligned_cols=63  Identities=17%  Similarity=0.468  Sum_probs=46.6

Q ss_pred             hhHHHHHHHHHhHhhcccchHHHHHHHHHHHHHHHHhhhhcccCCCCCCchHHHHHHHHhhccccccc-hhhhHHHHHHH
Q 045854          138 QWLQSWLRREIQAVMQEEDVEIVVHHILGVVDSFLKRNKQRCQMGTPETKEEDFKALVSDAARPFLMA-RTDRFVNEMQL  216 (272)
Q Consensus       138 ~Rl~~Wl~REL~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~ef~~~~~~~~~~fl~~-~t~~F~HEl~~  216 (272)
                      ..+.|||...+..++|.+| ++|+.+|++.|+.       .    .|  +..+    +...|..||.+ .|+-|+-||+.
T Consensus        23 ~~ikpWI~kkI~e~LG~ED-dvvvd~i~~~L~~-------~----~~--dpk~----l~i~L~gfLd~k~a~~Fv~eLW~   84 (111)
T d1mp1a_          23 EVIKPWITKRVTEILGFED-DVVIEFIFNQLEV-------K----NP--DSKM----MQINLTGFLNGKNAREFMGELWP   84 (111)
T ss_dssp             GGGHHHHHHHHHHHHSSCC-SHHHHHHHHHTTS-------S----SC--CHHH----HHHHHTTTSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcch-HHHHHHHHHHHHc-------c----CC--CHHH----HHHHHHHHhCcccHHHHHHHHHH
Confidence            5689999999999999655 4677888877531       1    11  1222    44568999985 79999999998


Q ss_pred             HH
Q 045854          217 FL  218 (272)
Q Consensus       217 Fa  218 (272)
                      -+
T Consensus        85 LL   86 (111)
T d1mp1a_          85 LL   86 (111)
T ss_dssp             HH
T ss_pred             HH
Confidence            77

>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=95.34  E-value=0.017  Score=39.65  Aligned_cols=38  Identities=29%  Similarity=0.732  Sum_probs=30.1

Q ss_pred             CCCCcccccccCCCCceeecCC----CCcccHHHHHHHHHHhh
Q 045854           16 ENPNPCPICLGPVVEDSYLDKC----FHKFCYNCIVHWTKVVA   54 (272)
Q Consensus        16 ~~~~~CpICl~~~~~p~~l~~C----gH~FC~~Ci~~w~~~~~   54 (272)
                      ...+.|.+|.+.+++.-+. .|    +|.||+.|-...++.+.
T Consensus         6 ~~~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sik~q~   47 (80)
T d2cs3a1           6 SGPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKAQG   47 (80)
T ss_dssp             CCSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHHHH
T ss_pred             CCceeeeeehhhhcCCceE-eCCCCcCCceeccccHHHHHhcC
Confidence            3458899999999986554 24    78999999999988543