Citrus Sinensis ID: 046606

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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------
Protein Sequence
MEASSLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEPGRKVKCSSKAA
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccccccEEEccccccccccHHHHHHcccccccccccccccEEEEEEcccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccEEcccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEHHHHHHHHHcccccEEEcccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHcHHHcccccccccccccEHccccccccccccccccHHHHHHHHHHHHHccccccccccccEEEEEEEccccccEEEEEccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccHHHHHHHHHHHHHHHHHcccEEEEcccccccccccHHHHcccHHHHHHHHHHHHHHHHHHHccccccEEEcccEEEEEcccccEEEEccccc
Coil and Loop (DISEMBL)
MEASSLRKSSYHMKREKREREKFVSRvispairgqkcpicldnltdrRTAVLKVCTHAYCLECIEKWSnlkrncplcnapfrswfyrinlsssdFLQQQLQplikdktfisqshssprtphriirrsrdeissdrgrsrplpwrrsfgrpgsvLDEVVSERKLRWRASVYnagfqavplsprrclgqnasgnnfvkgrlvqriDPWIRRELQALlggprsihycscglytfhcepgrkvkcsskaa
Flexible Loop (DISEMBL)
measslrkssyhmkrekrerekfvsrvispairgqkcpicldnLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDktfisqshssprtphriirrsrdeissdrgrsrplpwrrsfgrpgsvldEVVSERKLRWRASVYnagfqavplsprrclgqnasgnnfvkgrlvqridPWIRRELQALLGGPRSIHYCSCGLYTFhcepgrkvkcsskaa
Low Complexity Region (SEG)
MEASSLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINlsssdflqqqlqplIKDKTFISQSHSSPRTPHriirrsrdeissdrgrsrPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEPGRKVKCSSKAA
Disordered region (IsUnstruct)
**********************FVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINL**************************************************************VLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEP***********
Disordered Region (DISOPRED)
*************************************PICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDF*************************************************************************VYNAGFQ************************VQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEPGR**K******
Disordered Region (DISEMBL)
***********************VSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFI***********RIIRRS************PLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEPGR*********
Disordered Region (DISPRO)
*****LRKSSY**********************GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLI********************************************RPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEPGRKVKCS****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEASSLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIHYCSCGLYTFHCEPGRKVKCSSKAA
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	246	2.2.26 [Sep-21-2011]
Q80Z37	1033	E3 ubiquitin-protein liga	yes	no	0.317	0.075	0.370	3e-09
Q9NS56	1045	E3 ubiquitin-protein liga	yes	no	0.317	0.074	0.370	4e-09
Q99590	1463	Protein SCAF11 OS=Homo sa	no	no	0.292	0.049	0.32	4e-06
P29129	410	E3 ubiquitin-protein liga	no	no	0.256	0.153	0.348	6e-06
P29836	676	E3 ubiquitin-protein liga	no	no	0.203	0.073	0.423	8e-06
P29128	676	E3 ubiquitin-protein liga	no	no	0.203	0.073	0.423	8e-06
P84445	532	E3 ubiquitin-protein liga	no	no	0.272	0.125	0.342	1e-05
P28990	532	E3 ubiquitin-protein liga	no	no	0.272	0.125	0.342	1e-05
Q8RXD4	941	Protein BREAST CANCER SUS	no	no	0.414	0.108	0.299	1e-05
Q9LX93	301	E3 ubiquitin-protein liga	no	no	0.199	0.162	0.42	5e-05

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

 Score = 62.0 bits (149), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 42/81 (51%), Gaps = 3/81 (3%)

Query: 22  KFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
           K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPLC  PF
Sbjct: 89  KLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPLCKQPF 146

Query: 82  RSWFYRINLSSSDFLQQQLQP 102
            S F+ +  +  DF +  L+P
Sbjct: 147 DSIFHSVR-AEDDFKEYVLRP 166

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: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

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

 Score = 61.6 bits (148), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 42/81 (51%), Gaps = 3/81 (3%)

Query: 22  KFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
           K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPLC  PF
Sbjct: 88  KLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPLCKQPF 145

Query: 82  RSWFYRINLSSSDFLQQQLQP 102
            S F+ +  +  DF +  L+P
Sbjct: 146 DSIFHSVR-AEDDFKEYVLRP 165

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: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q99590|SCAFB_HUMAN Protein SCAF11 OS=Homo sapiens GN=SCAF11 PE=1 SV=2

 Score = 52.0 bits (123), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 3/75 (4%)

Query: 14 KREKREREKFVSRVISPAI---RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL 70
          K E  E E+     IS  +      +CPICL+ L ++     + C H +C+ CI KW+  
Sbjct: 15 KYEDMEGEENGDNTISTGLLYSEADRCPICLNCLLEKEVGFPESCNHVFCMTCILKWAET 74

Query: 71 KRNCPLCNAPFRSWF 85
            +CP+   PF++ F
Sbjct: 75 LASCPIDRKPFQAVF 89

Plays a role in pre-mRNA alternative splicing by regulating spliceosome assembly.

Homo sapiens (taxid: 9606)

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

 Score = 51.2 bits (121), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 3/66 (4%)

Query: 36  KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDF 95
            CPICLD       A    C H +CL+CI++W+     CPLCNA   S  + ++ S + F
Sbjct: 45  DCPICLDVAATE--AQTLPCMHKFCLDCIQRWTLTSTACPLCNARVTSILHHVD-SDASF 101

Query: 96  LQQQLQ 101
           ++  ++
Sbjct: 102 VETPVE 107

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|P29836|ICP0_BHV1K E3 ubiquitin-protein ligase ICP0 OS=Bovine herpesvirus 1.2 (strain K22) GN=BICP0 PE=3 SV=1

 Score = 50.8 bits (120), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 30/52 (57%), Gaps = 2/52 (3%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRI 88
          C ICLD +T    A+   C HA+CL CI +W   +  CPLC AP +S  + +
Sbjct: 13 CCICLDAITGAARAL--PCLHAFCLACIRRWLEGRPTCPLCKAPVQSLIHSV 62

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.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P29128|ICP0_BHV1J E3 ubiquitin-protein ligase ICP0 OS=Bovine herpesvirus 1.1 (strain Jura) GN=BICP0 PE=3 SV=1

 Score = 50.8 bits (120), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 30/52 (57%), Gaps = 2/52 (3%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRI 88
          C ICLD +T    A+   C HA+CL CI +W   +  CPLC AP +S  + +
Sbjct: 13 CCICLDAITGAARAL--PCLHAFCLACIRRWLEGRPTCPLCKAPVQSLIHSV 62

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.

Bos taurus (taxid: 9913)

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 = 50.4 bits (119), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 31  AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINL 90
           A   ++CPICL++ ++   A+   C HA+C  CI +W      CPLC  P  S  + I  
Sbjct: 2   ATVAERCPICLEDPSNYSMAL--PCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE- 58

Query: 91  SSSDFLQQQL 100
           S S+F + ++
Sbjct: 59  SDSEFKETKV 68

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 = 50.4 bits (119), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 31  AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINL 90
           A   ++CPICL++ ++   A+   C HA+C  CI +W      CPLC  P  S  + I  
Sbjct: 2   ATVAERCPICLEDPSNYSMAL--PCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE- 58

Query: 91  SSSDFLQQQL 100
           S S+F + ++
Sbjct: 59  SDSEFKETKV 68

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|Q8RXD4|BRCA1_ARATH Protein BREAST CANCER SUSCEPTIBILITY 1 homolog OS=Arabidopsis thaliana GN=BRCA1 PE=2 SV=1

 Score = 50.4 bits (119), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 52/107 (48%), Gaps = 5/107 (4%)

Query: 33  RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRI--NL 90
           R  KCPICL   +   +AV   C H +C  CI K   +   CP+C  P+     R   ++
Sbjct: 12  RELKCPICL---SLYNSAVSLSCNHVFCNACIVKSMKMDATCPVCKIPYHRREIRGAPHM 68

Query: 91  SSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGR 137
            S   + + ++     K F+SQ++ SP    + +R +  E +SD+ R
Sbjct: 69  DSLVSIYKNMEDASGIKLFVSQNNPSPSDKEKQVRDASVEKASDKNR 115

May play a role in DNA repair and in cell-cycle control.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LX93|ATL55_ARATH E3 ubiquitin-protein ligase RING1 OS=Arabidopsis thaliana GN=ATL55 PE=1 SV=1

 Score = 48.1 bits (113), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 1/50 (2%)

Query: 32  IRGQKCPICLDNLT-DRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
           I G +C +CL+    D    +L  C+HA+ L CI+ W    +NCPLC AP
Sbjct: 130 IDGTECSVCLNEFEEDESLRLLPKCSHAFHLNCIDTWLLSHKNCPLCRAP 179

E3 ubiquitin-protein ligase that may be involved in positive regulation of programmed cell death (PCD) by facilitating degradation of negative regulators of PCD. May be involved in the early steps of the plant defense signaling pathway. Undergoes auto-ubiquitination.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	246
147789462	321	hypothetical protein VITISV_043444 [Viti	0.788	0.604	0.573	7e-59
225432354	294	PREDICTED: E3 ubiquitin-protein ligase T	0.788	0.659	0.568	1e-58
297736896	308	unnamed protein product [Vitis vinifera]	0.764	0.610	0.565	4e-56
30687775	296	RING/U-box domain-containing protein [Ar	0.906	0.753	0.482	4e-54
3928094	270	putative RING zinc finger protein [Arabi	0.890	0.811	0.473	4e-51
224123078	289	predicted protein [Populus trichocarpa]	0.772	0.657	0.5	8e-47
449450666	288	PREDICTED: E3 ubiquitin-protein ligase T	0.861	0.736	0.485	1e-45
449524840	288	PREDICTED: E3 ubiquitin-protein ligase T	0.861	0.736	0.485	2e-45
297823801	265	zinc finger family protein [Arabidopsis	0.743	0.690	0.432	2e-35
168063938	443	predicted protein [Physcomitrella patens	0.727	0.404	0.337	5e-23

>gi|147789462|emb|CAN77823.1| hypothetical protein VITISV_043444 [Vitis vinifera]

 Score =  233 bits (593), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 113/197 (57%), Positives = 145/197 (73%), Gaps = 3/197 (1%)

Query: 22  KFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
           KFV +V++PAI G+ CPICL ++ DRR AV+  C HAYC  CI +WS+LKR CPLCNA F
Sbjct: 25  KFVKKVMAPAIEGKSCPICLSHVVDRRAAVITACLHAYCFRCIRRWSDLKRKCPLCNAHF 84

Query: 82  RSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPL 141
            S FYRI+LSS  FL+++L+PL +  T      ++ R   R+IRR  DE +SD  R+RPL
Sbjct: 85  DSLFYRISLSSQTFLKEKLRPLAEGGTVNFGGGNAGR---RVIRRYWDEXNSDGRRTRPL 141

Query: 142 PWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQ 201
           PWRRSFGRPGS+  +VV+ER L+WRAS+Y+ G QAVP SPR  L QN SGN+  K R++Q
Sbjct: 142 PWRRSFGRPGSLPSDVVAERILQWRASIYSQGMQAVPFSPRNRLKQNISGNSSAKERILQ 201

Query: 202 RIDPWIRRELQALLGGP 218
           RI+PWI+REL A+L  P
Sbjct: 202 RIEPWIQRELHAILHDP 218

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225432354|ref|XP_002276564.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Vitis vinifera]

 Score =  231 bits (590), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 112/197 (56%), Positives = 145/197 (73%), Gaps = 3/197 (1%)

Query: 22  KFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
           KFV +V++PAI G+ CPICL ++ DRR AV+  C HAYC  CI +WS+LKR CPLCNA F
Sbjct: 27  KFVKKVMAPAIEGKSCPICLSHVVDRRAAVITACLHAYCFRCIRRWSDLKRKCPLCNAHF 86

Query: 82  RSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPL 141
            S FYRI+LSS  FL+++L+PL +  T      ++ R   R++RR  DE +SD  R+RPL
Sbjct: 87  DSLFYRISLSSQTFLKEKLRPLAEGGTVNFGGGNAGR---RVLRRYWDESNSDSRRTRPL 143

Query: 142 PWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQ 201
           PWRRSFGRPGS+  +VV+ER L+WRAS+Y+ G QAVP SPR  L QN SGN+  K R++Q
Sbjct: 144 PWRRSFGRPGSLPSDVVAERILQWRASIYSQGMQAVPFSPRNRLKQNISGNSSAKERILQ 203

Query: 202 RIDPWIRRELQALLGGP 218
           RI+PWI+REL A+L  P
Sbjct: 204 RIEPWIQRELHAILHDP 220

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736896|emb|CBI26097.3| unnamed protein product [Vitis vinifera]

 Score =  223 bits (569), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 108/191 (56%), Positives = 140/191 (73%), Gaps = 3/191 (1%)

Query: 28  ISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYR 87
           ++PAI G+ CPICL ++ DRR AV+  C HAYC  CI +WS+LKR CPLCNA F S FYR
Sbjct: 1   MAPAIEGKSCPICLSHVVDRRAAVITACLHAYCFRCIRRWSDLKRKCPLCNAHFDSLFYR 60

Query: 88  INLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPLPWRRSF 147
           I+LSS  FL+++L+PL +  T      ++ R   R++RR  DE +SD  R+RPLPWRRSF
Sbjct: 61  ISLSSQTFLKEKLRPLAEGGTVNFGGGNAGR---RVLRRYWDESNSDSRRTRPLPWRRSF 117

Query: 148 GRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFVKGRLVQRIDPWI 207
           GRPGS+  +VV+ER L+WRAS+Y+ G QAVP SPR  L QN SGN+  K R++QRI+PWI
Sbjct: 118 GRPGSLPSDVVAERILQWRASIYSQGMQAVPFSPRNRLKQNISGNSSAKERILQRIEPWI 177

Query: 208 RRELQALLGGP 218
           +REL A+L  P
Sbjct: 178 QRELHAILHDP 188

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30687775|ref|NP_850310.1| RING/U-box domain-containing protein [Arabidopsis thaliana] gi|17473924|gb|AAL38373.1| putative RING zinc finger protein [Arabidopsis thaliana] gi|20148385|gb|AAM10083.1| putative RING zinc finger protein [Arabidopsis thaliana] gi|330254541|gb|AEC09635.1| RING/U-box domain-containing protein [Arabidopsis thaliana]

 Score =  217 bits (552), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 111/230 (48%), Positives = 155/230 (67%), Gaps = 7/230 (3%)

Query: 1   MEASSLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTA-VLKVCTHAY 59
           + +S+   SS H+ R      KF  R I PA++G+ CPICL+NLT+RR+A V+ VC H Y
Sbjct: 4   LPSSTAPSSSRHL-RSPESIAKFAGRAIFPALQGKSCPICLENLTERRSAAVITVCKHGY 62

Query: 60  CLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRT 119
           CL CI KWS+ KRNCPLCN  F SWF   + +S  + ++QL P+++D+  ++   ++P  
Sbjct: 63  CLACIRKWSSFKRNCPLCNTRFDSWFIVSDFASRKYHKEQL-PILRDRETLTYHRNNPSD 121

Query: 120 PHRIIRRSRDEISSDRGRSRPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPL 179
             RII+RSRD + +   RSRPLPWRRSFGRPGSV D V+ +RKL+WRAS+Y    +AV L
Sbjct: 122 RRRIIQRSRDVLENSSSRSRPLPWRRSFGRPGSVPDSVIFQRKLQWRASIYTKQLRAVRL 181

Query: 180 SPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRS---IHYCSC 226
             RR L  + + N++ K ++ +RI+PWIRRELQA+LG P     +H+ S 
Sbjct: 182 HSRR-LELSLAVNDYTKAKITERIEPWIRRELQAVLGDPDPSVIVHFASA 230

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3928094|gb|AAC79620.1| putative RING zinc finger protein [Arabidopsis thaliana]

 Score =  207 bits (526), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 109/230 (47%), Positives = 152/230 (66%), Gaps = 11/230 (4%)

Query: 1   MEASSLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTA-VLKVCTHAY 59
           + +S+   SS H+ R      KF  R I PA++G+ CPICL+NLT+RR+A V+ VC H Y
Sbjct: 4   LPSSTAPSSSRHL-RSPESIAKFAGRAIFPALQGKSCPICLENLTERRSAAVITVCKHGY 62

Query: 60  CLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRT 119
           CL CI KWS+ KRNCPLCN  F SWF   + +S  + ++QL P+++D+  ++   ++P  
Sbjct: 63  CLACIRKWSSFKRNCPLCNTRFDSWFIVSDFASRKYHKEQL-PILRDRETLTYHRNNPSD 121

Query: 120 PHRIIRRSRDEISSDRGRSRPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPL 179
                RRSRD + +   RSRPLPWRRSFGRPGSV D V+ +RKL+WRAS+Y    +AV L
Sbjct: 122 R----RRSRDVLENSSSRSRPLPWRRSFGRPGSVPDSVIFQRKLQWRASIYTKQLRAVRL 177

Query: 180 SPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRS---IHYCSC 226
             RR L  + + N++ K ++ +RI+PWIRRELQA+LG P     +H+ S 
Sbjct: 178 HSRR-LELSLAVNDYTKAKITERIEPWIRRELQAVLGDPDPSVIVHFASA 226

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123078|ref|XP_002330333.1| predicted protein [Populus trichocarpa] gi|222871537|gb|EEF08668.1| predicted protein [Populus trichocarpa]

 Score =  192 bits (489), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 103/206 (50%), Positives = 140/206 (67%), Gaps = 16/206 (7%)

Query: 20  REKFVSRVISPAIRGQKCPICLDNLTD----RRTAVLKVCTHAYCLECIEKWSNLKRNCP 75
           +EKF+S+VI PAIRGQ CP+CL +       RR AV++VC HAYCL+CI KWS++KR CP
Sbjct: 17  QEKFLSKVILPAIRGQSCPVCLKDFGGEEDYRRVAVIRVCLHAYCLDCIRKWSDIKRKCP 76

Query: 76  LCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIR-RSRDEISSD 134
           LCN+ F SWF RI LS+ +F  ++L P++++   +        TP  I+  R R  ++  
Sbjct: 77  LCNSEFNSWFCRIILSTRNFSTEKL-PVVRESRRV--------TPLDILSSRQRAGLNVA 127

Query: 135 RGRSRPLPWRRSFGRP--GSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGN 192
             RSRPLP RR FG+P  GSV  +V+++RKL+WRAS+YN    AVP+S R CL Q  S N
Sbjct: 128 NRRSRPLPCRRRFGQPMPGSVGSDVIAQRKLQWRASIYNQRLHAVPISSRNCLKQIISRN 187

Query: 193 NFVKGRLVQRIDPWIRRELQALLGGP 218
             +K R++ RI+PWI+RELQA+L  P
Sbjct: 188 GCMKQRILHRIEPWIQRELQAILEDP 213

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450666|ref|XP_004143083.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Cucumis sativus]

 Score =  189 bits (479), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 104/214 (48%), Positives = 129/214 (60%), Gaps = 2/214 (0%)

Query: 7   RKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEK 66
           R SS      K   E F+++VISPAI G+ CPICL  L DR  AVL  C HAYC+ CI K
Sbjct: 3   RSSSTREPARKLNGENFITKVISPAICGETCPICLRELEDRTAAVLTTCIHAYCISCIRK 62

Query: 67  WSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRR 126
           WSNLKR CPLCNA F SWF +INLSS  F +++L              SS      I++ 
Sbjct: 63  WSNLKRTCPLCNAQFDSWFTKINLSSQSFRKERLTTSNCSDKLKVGVGSSQIDARGILQS 122

Query: 127 SRDEISSDRGRSRPLPWRRSFGR--PGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRC 184
           +R E++ +R   R L WRRSFGR  P S+  +VV  RK +WRAS+YN   QAVP S R C
Sbjct: 123 TRYELNRERRSERSLTWRRSFGRRGPDSLPADVVVRRKRQWRASIYNRCIQAVPSSVRSC 182

Query: 185 LGQNASGNNFVKGRLVQRIDPWIRRELQALLGGP 218
           L  N  G+   K  +++RI PWI+RELQ +L  P
Sbjct: 183 LELNVLGSRGGKEVILERIKPWIQRELQVILEDP 216

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524840|ref|XP_004169429.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Cucumis sativus]

 Score =  188 bits (478), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 104/214 (48%), Positives = 129/214 (60%), Gaps = 2/214 (0%)

Query: 7   RKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEK 66
           R SS      K   E F+++VISPAI G+ CPICL  L DR  AVL  C HAYC+ CI K
Sbjct: 3   RSSSTREPARKLNGENFITKVISPAICGETCPICLRELEDRTAAVLTTCIHAYCISCIRK 62

Query: 67  WSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRR 126
           WSNLKR CPLCNA F SWF +INLSS  F +++L              SS      I++ 
Sbjct: 63  WSNLKRTCPLCNAQFDSWFTKINLSSQSFRKERLTTSNCSDKLKVGVGSSQIDARGILQS 122

Query: 127 SRDEISSDRGRSRPLPWRRSFGR--PGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRC 184
           +R E++ +R   R L WRRSFGR  P S+  +VV  RK +WRAS+YN   QAVP S R C
Sbjct: 123 TRYELNRERRSERSLTWRRSFGRRGPDSLPADVVVRRKRQWRASIYNRCIQAVPSSVRSC 182

Query: 185 LGQNASGNNFVKGRLVQRIDPWIRRELQALLGGP 218
           L  N  G+   K  +++RI PWI+RELQ +L  P
Sbjct: 183 LELNILGSRGGKEVILERIKPWIQRELQVILEDP 216

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823801|ref|XP_002879783.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297325622|gb|EFH56042.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  155 bits (391), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 93/215 (43%), Positives = 130/215 (60%), Gaps = 32/215 (14%)

Query: 21  EKFVSRVISPAIRGQKCPICLDNLTDRRTA-VLKVCTHAYCLECIEKWSNLKRNCPLCNA 79
           EKF  RVI  A+R + C ICL+NLT+RR+A V+ VC H YCL CI KW            
Sbjct: 5   EKFAERVILTALREKSCLICLENLTERRSAAVITVCKHGYCLACIRKWR----------- 53

Query: 80  PFRSWFYRINLSSSDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSR 139
           P+R  +++ +L           P+++D+  ++   ++P    RIIRR RD + +   RSR
Sbjct: 54  PYRLKYHKEHL-----------PILRDRETLTYHRNNPSGRRRIIRRWRDVLENSSSRSR 102

Query: 140 PLPWRRSFGRPGSVLDEVVSERKLRWRASV------YNAGFQAVPLSPRRCLGQNASGNN 193
           PLPWRRSFGRPGSV D ++ +RKL+WRASV      Y+   +AV L  RR L    +GN+
Sbjct: 103 PLPWRRSFGRPGSVPDSIIFQRKLQWRASVGSKCSIYDKQLRAVRLHSRRSLELCLAGND 162

Query: 194 FVKGRLVQRIDPWIRRELQALLGGPRS---IHYCS 225
             + ++ +RI+PWIRRELQA+LG P     +H+ S
Sbjct: 163 QTRAKITERIEPWIRRELQAVLGDPDPSIIVHFAS 197

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168063938|ref|XP_001783924.1| predicted protein [Physcomitrella patens subsp. patens] gi|162664554|gb|EDQ51269.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  113 bits (283), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 73/216 (33%), Positives = 109/216 (50%), Gaps = 37/216 (17%)

Query: 37  CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFL 96
           CPICL N+ +   AVL+ C H +C  CIE+WS ++R CPLC A +R W+Y +  S+++FL
Sbjct: 128 CPICLANIEESTEAVLQWCMHRFCTHCIEEWSRVRRVCPLCKAEYRGWYYSVQ-SNNEFL 186

Query: 97  QQQLQPLIKDKTFISQSHSSPRTPH---------RIIRR-----------SRDEISSDRG 136
           ++ L P+ +  T +SQ     R            R+IR+            R  ++ D  
Sbjct: 187 ERILPPVPESNTQLSQGDVPARQAFSRFHLWRDPRLIRQESGRRRRPLHLGRQGVAPDGA 246

Query: 137 RSR--PLPWRRSFGRPGS--------VLDEVVSERKLRWRASVYNAGFQAVPLSPRRCLG 186
            SR    P +RSFG P            +E  + + LRWR S+Y+   +A P      +G
Sbjct: 247 ASRSGSFPTQRSFGLPRQHQSAEAMRHFEEQAAAKVLRWRRSIYDKNLKARPFE----VG 302

Query: 187 QNASGNNFVKGRLVQRIDPWIRRELQALLGGPRSIH 222
           +        K R  +R++PWIRRELQA++  P S H
Sbjct: 303 KRLMSTKDAKERAERRLEPWIRRELQAVV--PNSDH 336

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

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	246
TAIR|locus:2064905	296	AT2G39100 [Arabidopsis thalian	0.902	0.75	0.423	1.1e-46
ZFIN|ZDB-GENE-030131-6401	846	toporsa "topoisomerase I bindi	0.243	0.070	0.430	8.4e-11
UNIPROTKB|F1PHI0	1043	TOPORS "Uncharacterized protei	0.284	0.067	0.375	4.4e-10
RGD|1305270	1042	Topors "topoisomerase I bindin	0.284	0.067	0.375	1.8e-09
MGI|MGI:2146189	1033	Topors "topoisomerase I bindin	0.284	0.067	0.375	2.3e-09
UNIPROTKB|Q9NS56	1045	TOPORS "E3 ubiquitin-protein l	0.284	0.066	0.375	3.8e-09
UNIPROTKB|F1SE69	1049	TOPORS "Uncharacterized protei	0.284	0.066	0.375	3.8e-09
UNIPROTKB|F1N329	1100	TOPORS "Uncharacterized protei	0.284	0.063	0.375	4.3e-09
TAIR|locus:2123446	192	AT4G10940 "AT4G10940" [Arabido	0.199	0.255	0.450	5.5e-09
DICTYBASE|DDB_G0281183	548	DDB_G0281183 "RING zinc finger	0.284	0.127	0.307	5.5e-09

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

 Score = 489 (177.2 bits), Expect = 1.1e-46, P = 1.1e-46
 Identities = 97/229 (42%), Positives = 134/229 (58%)

Query:     1 MEASSLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTA-VLKVCTHAY 59
             + +S+   SS H+ R      KF  R I PA++G+ CPICL+NLT+RR+A V+ VC H Y
Sbjct:     4 LPSSTAPSSSRHL-RSPESIAKFAGRAIFPALQGKSCPICLENLTERRSAAVITVCKHGY 62

Query:    60 CLECIEKWSNLKRNCPLCNAPFRSWFYRINXXXXXXXXXXXXXXIKDKTFISQSHSSPRT 119
             CL CI KWS+ KRNCPLCN  F SWF  ++              ++D+  ++   ++P  
Sbjct:    63 CLACIRKWSSFKRNCPLCNTRFDSWFI-VSDFASRKYHKEQLPILRDRETLTYHRNNPSD 121

Query:   120 PHXXXXXXXXXXXXXXXXXXPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPL 179
                                 PLPWRRSFGRPGSV D V+ +RKL+WRAS+Y    +AV L
Sbjct:   122 RRRIIQRSRDVLENSSSRSRPLPWRRSFGRPGSVPDSVIFQRKLQWRASIYTKQLRAVRL 181

Query:   180 SPRRCLGQNASGNNFVKGRLVQRIDPWIRRELQALLGGPRS---IHYCS 225
               RR L  + + N++ K ++ +RI+PWIRRELQA+LG P     +H+ S
Sbjct:   182 HSRR-LELSLAVNDYTKAKITERIEPWIRRELQAVLGDPDPSVIVHFAS 229

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 151 (58.2 bits), Expect = 8.4e-11, Sum P(2) = 8.4e-11
 Identities = 28/65 (43%), Positives = 38/65 (58%)

Query:    24 VSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
             +S+  SP     KCPICLD+   +  + L VC H +C  CI +WS  K  CPLC  PF S
Sbjct:    18 ISKGASPE---SKCPICLDHF--KNISYLDVCLHKFCFCCIHEWSKNKAECPLCKQPFNS 72

Query:    84 WFYRI 88
             +++ I
Sbjct:    73 FYHTI 77

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010842 "retina layer formation" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

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

 Score = 144 (55.7 bits), Expect = 4.4e-10, Sum P(2) = 4.4e-10
 Identities = 27/72 (37%), Positives = 36/72 (50%)

Query:    17 KREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
             K    K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPL
Sbjct:    83 KAGTSKLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPL 140

Query:    77 CNAPFRSWFYRI 88
             C  PF S F+ +
Sbjct:   141 CKQPFDSIFHSV 152

GO:0036064 "cilium basal body" evidence=IDA

GO:0016607 "nuclear speck" evidence=IDA

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 = 144 (55.7 bits), Expect = 1.8e-09, Sum P(2) = 1.8e-09
 Identities = 27/72 (37%), Positives = 36/72 (50%)

Query:    17 KREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
             K    K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPL
Sbjct:    84 KAGTSKLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPL 141

Query:    77 CNAPFRSWFYRI 88
             C  PF S F+ +
Sbjct:   142 CKQPFDSIFHSV 153

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 = 144 (55.7 bits), Expect = 2.3e-09, Sum P(2) = 2.3e-09
 Identities = 27/72 (37%), Positives = 36/72 (50%)

Query:    17 KREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
             K    K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPL
Sbjct:    84 KAGTSKLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPL 141

Query:    77 CNAPFRSWFYRI 88
             C  PF S F+ +
Sbjct:   142 CKQPFDSIFHSV 153

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

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

 Score = 144 (55.7 bits), Expect = 3.8e-09, Sum P(2) = 3.8e-09
 Identities = 27/72 (37%), Positives = 36/72 (50%)

Query:    17 KREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
             K    K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPL
Sbjct:    83 KAGTSKLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPL 140

Query:    77 CNAPFRSWFYRI 88
             C  PF S F+ +
Sbjct:   141 CKQPFDSIFHSV 152

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

 Score = 144 (55.7 bits), Expect = 3.8e-09, Sum P(2) = 3.8e-09
 Identities = 27/72 (37%), Positives = 36/72 (50%)

Query:    17 KREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
             K    K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPL
Sbjct:    86 KAGTSKLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPL 143

Query:    77 CNAPFRSWFYRI 88
             C  PF S F+ +
Sbjct:   144 CKQPFDSIFHSV 155

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

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

 Score = 144 (55.7 bits), Expect = 4.3e-09, Sum P(2) = 4.3e-09
 Identities = 27/72 (37%), Positives = 36/72 (50%)

Query:    17 KREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
             K    K    V + A    KCPICLD   +   + L  C H +C  C+++WS  K  CPL
Sbjct:   146 KAGTSKLQQTVPADASPDSKCPICLDRFDN--VSYLDRCLHKFCFRCVQEWSKNKAECPL 203

Query:    77 CNAPFRSWFYRI 88
             C  PF S F+ +
Sbjct:   204 CKQPFDSIFHSV 215

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

TAIR|locus:2123446 AT4G10940 "AT4G10940" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 5.5e-09, P = 5.5e-09
 Identities = 23/51 (45%), Positives = 31/51 (60%)

Query:    32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR 82
             I G++C IC+D + DR   VL  C H +C ECI+ WS +   CPLC   F+
Sbjct:    26 IEGERCGICMDIIIDR--GVLDCCQHWFCFECIDNWSTIMNLCPLCQREFQ 74

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS

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

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

 Score = 118 (46.6 bits), Expect = 5.5e-09, Sum P(2) = 5.5e-09
 Identities = 24/78 (30%), Positives = 38/78 (48%)

Query:    14 KREKREREKFVSRVISPAIRGQKCPICL---DNLTDRRTAVLKVCTHAYCLECIEKWSNL 70
             + E    ++ V + +        C ICL   +NLT      L +C H +C  CI +WS L
Sbjct:    77 EEEYNNDDEEVDKPLKLICEDSTCSICLSPFENLT-----FLDICFHQFCFVCILQWSEL 131

Query:    71 KRNCPLCNAPFRSWFYRI 88
              + CPLC + + S  Y++
Sbjct:   132 NQRCPLCKSEYHSLIYQV 149

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	AT2G39100	zinc finger (C3HC4-type RING finger) family protein; zinc finger (C3HC4-type RING finger) family protein; FUNCTIONS IN- protein binding, zinc ion binding; EXPRESSED IN- leaf; EXPRESSED DURING- LP.04 four leaves visible; CONTAINS InterPro DOMAIN/s- Zinc finger, RING-type, conserved site (InterPro-IPR017907), Zinc finger, RING-type (InterPro-IPR001841), Zinc finger, RING/FYVE/PHD-type (InterPro-IPR013083); Has 1339 Blast hits to 1337 proteins in 176 species- Archae - 0; Bacteria - 0; Metazoa - 547; Fungi - 101; Plants - 370; Viruses - 126; Other Eukaryotes - 195 (source- NCBI BLink). (296 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	ATMAP70-5	ATMAP70-5 (microtubule-associated proteins 70-5); microtubule binding; Encodes a microtubule as [...] (513 aa)					•				0.923
	APC8	APC8 (ANAPHASE-PROMOTING COMPLEX SUBUNIT 8); binding; anaphase-promoting complex or cyclosome s [...] (579 aa)					•				0.923
	OBE1	OBE1 (OBERON1); protein binding / zinc ion binding; Encodes a nuclear PHD finger protein that i [...] (566 aa)					•				0.923
	AT1G09660	KH domain-containing quaking protein, putative; KH domain-containing quaking protein, putative; [...] (298 aa)					•				0.923
	WOX12	WOX12 (WUSCHEL related homeobox 12); DNA binding / transcription factor; Encodes a WUSCHEL-rela [...] (268 aa)					•				0.563
	AT5G38600	proline-rich spliceosome-associated (PSP) family protein / zinc knuckle (CCHC-type) family prot [...] (532 aa)					•				0.524
	ATEXO70E2	ATEXO70E2 (EXOCYST SUBUNIT EXO70 FAMILY PROTEIN E2); protein binding; A member of EXO70 gene fa [...] (639 aa)					•				0.462
	AT5G53060	KH domain-containing protein; KH domain-containing protein; FUNCTIONS IN- RNA binding, nucleic [...] (652 aa)					•				0.462
	LSU2	LSU2 (RESPONSE TO LOW SULFUR 2); RESPONSE TO LOW SULFUR 2 (LSU2); FUNCTIONS IN- molecular_funct [...] (94 aa)					•				0.462
	MKRP2	kinesin-related protein (MKRP2); kinesin-related protein (MKRP2); FUNCTIONS IN- protein binding [...] (1055 aa)					•				0.462

---

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	246
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	9e-10
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	9e-08
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-07
smart00184	40	smart00184, RING, Ring finger	3e-06
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	6e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-05
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	5e-05
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	6e-05
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	9e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	4e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.002

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

 Score = 52.8 bits (127), Expect = 9e-10
 Identities = 19/44 (43%), Positives = 23/44 (52%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
          CPICLD        V+  C H +  EC++KW      CPLC AP
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPF 81
          +CPICL+   +    VL  C H +C  CI+KW  + K  CPLC  P 
Sbjct: 1  ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 47.1 bits (112), Expect = 9e-08
 Identities = 20/44 (45%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNA 79
          +CPICLD L D    VL  C H +C ECI ++   K  CP+C  
Sbjct: 4  ECPICLDLLRD--PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 50.5 bits (121), Expect = 1e-07
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 5/56 (8%)

Query: 33  RGQKCPICLDNLTDRRT-----AVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
           + ++C IC++ + D+        +L  C H +C+ECI+ W   K  CP+C  PF S
Sbjct: 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228

Length = 238

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

 Score = 42.9 bits (101), Expect = 3e-06
 Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLC 77
          CPICL+     +  V+  C H +C  CI KW  +    CP+C
Sbjct: 1  CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 42.8 bits (101), Expect = 6e-06
 Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 1/42 (2%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCN 78
          CP C  +  D    V   C HA+ L CI +W   +  CPLC 
Sbjct: 33 CPEC-KSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLC 77
          CPICL+   D     +  C H +C +CI  W  +    CPLC
Sbjct: 1  CPICLEEPKD--PVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 40.6 bits (95), Expect = 5e-05
 Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 2/47 (4%)

Query: 37 CPICLDNLT--DRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
          CP C   +T  D    V  VC HA+   CI +W + K  CPL    +
Sbjct: 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80

Length = 88

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 42.7 bits (100), Expect = 6e-05
 Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 16/70 (22%)

Query: 35  QKCPICLDNL------TDRRTAVLKVCTHAYCLECIEKWSNLKR------NCPLCNAPFR 82
           ++C IC + +       DR   +L  C H +C+ CI  W   +R      NCP+C   FR
Sbjct: 171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230

Query: 83  ----SWFYRI 88
               S FY++
Sbjct: 231 NITMSKFYKL 240

Length = 242

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

 Score = 42.7 bits (100), Expect = 9e-05
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 1/54 (1%)

Query: 28  ISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRN-CPLCNAP 80
              A +G +C IC+ N        +  C H + + C++KW     N CP+C   
Sbjct: 317 AVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTA 370

Length = 374

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

 Score = 40.8 bits (95), Expect = 4e-04
 Identities = 33/166 (19%), Positives = 55/166 (33%), Gaps = 21/166 (12%)

Query: 36  KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDF 95
           +C IC D        VL  C+H +C  CI +  + +  CPLC A  +    R N   S+ 
Sbjct: 28  RCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEI 84

Query: 96  LQ--QQLQPLI-------KDKTFISQSHSSPRTPHRIIRRSRDEISSDRG---------R 137
           ++  + L+P +       K     +   + P    +I      E                
Sbjct: 85  VESFKNLRPSLLEFLRIPKTTPVENPDLAGPENSSKIELIEESESDGVDAEDEDLQRSAT 144

Query: 138 SRPLPWRRSFGRPGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRR 183
           S      RS      +  +        +R+   N G    P+  +R
Sbjct: 145 SSRALAARSTADILQLSSDPSKRNDADYRSEPPNEGLVQCPICQQR 190

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

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

 Score = 38.5 bits (89), Expect = 0.002
 Identities = 13/62 (20%), Positives = 22/62 (35%), Gaps = 3/62 (4%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDF 95
          +C IC   +          C H +C  CI +    +  CP+C         R +  S + 
Sbjct: 27 RCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREI 83

Query: 96 LQ 97
           +
Sbjct: 84 NE 85

Length = 391

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	246
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.27
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.15
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.11
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.08
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.08
PHA02929	238	N1R/p28-like protein; Provisional	99.08
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.05
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.01
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.0
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.0
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.0
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.96
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.9
PHA02926	242	zinc finger-like protein; Provisional	98.86
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.86
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.85
PF14634	44	zf-RING_5: zinc-RING finger domain	98.72
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.69
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.68
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.68
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.67
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.62
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.61
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.52
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.47
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.46
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.46
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.43
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.31
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.26
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.23
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.22
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.21
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.2
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
KOG2660	331	consensus Locus-specific chromosome binding protei	98.04
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.74
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.69
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.64
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.6
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.57
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	97.57
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.54
KOG4430	553	consensus Topoisomerase I-binding arginine-serine-	97.54
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.45
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.45
COG5152	259	Uncharacterized conserved protein, contains RING a	97.38
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.35
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.23
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.14
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.9
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.85
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.71
COG5219	1525	Uncharacterized conserved protein, contains RING Z	96.63
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.58
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.55
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.54
PF04641	260	Rtf2: Rtf2 RING-finger	96.54
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.49
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.48
KOG4445	368	consensus Uncharacterized conserved protein, conta	96.37
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.36
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.16
KOG4739	233	consensus Uncharacterized protein involved in syna	96.13
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.1
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.82
KOG1940	276	consensus Zn-finger protein [General function pred	95.82
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.81
PHA03096	284	p28-like protein; Provisional	95.29
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	95.16
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.0
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.72
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.37
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.28
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.06
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.02
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	93.91
PHA02825	162	LAP/PHD finger-like protein; Provisional	93.88
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.82
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	93.75
PHA02862	156	5L protein; Provisional	93.72
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	93.47
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	93.35
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.46
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	92.36
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	92.33
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	92.12
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.12
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.71
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	91.51
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	91.4
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.27
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.03
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	89.72
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	89.57
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	88.41
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	88.32
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	88.0
KOG3002	299	consensus Zn finger protein [General function pred	87.96
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	87.94
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	84.88
KOG0825	1134	consensus PHD Zn-finger protein [General function	83.74
KOG3039	303	consensus Uncharacterized conserved protein [Funct	81.1

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

Probab=99.27  E-value=9.2e-13  Score=84.03  Aligned_cols=44  Identities=34%  Similarity=0.980  Sum_probs=38.1

Q ss_pred             CccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCC
Q 046606           35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCN   78 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr   78 (246)
                      +.|+||++.+.+.+..+.++|+|.||..||.+|++.+.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            46999999997655688889999999999999999999999996

...

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

Probab=99.15  E-value=2.6e-11  Score=76.51  Aligned_cols=38  Identities=42%  Similarity=1.020  Sum_probs=29.9

Q ss_pred             cccccccccCCCceEEccCCCcCCHHHHHHHhcCC----CCCCCC
Q 046606           37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK----RNCPLC   77 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~----~~CPlC   77 (246)
                      ||||++.|.+   |+.++|||+||..||..|.+..    ..||.|
T Consensus         1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999   8999999999999999976543    369987

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.11  E-value=4.9e-11  Score=98.40  Aligned_cols=55  Identities=31%  Similarity=0.811  Sum_probs=45.4

Q ss_pred             cCCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC----------------CCCCCCCCcccccCc
Q 046606           28 ISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL----------------KRNCPLCNAPFRSWF   85 (246)
Q Consensus        28 ~~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~----------------~~~CPlCr~~~~~~~   85 (246)
                      ..+..+++.|+||++.+.+   +++++|||.||..||..|+..                ...||+|+..+....
T Consensus        12 ~~~~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         12 LVDSGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             eccCCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            3444578999999999998   788999999999999999742                257999999987643

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

Probab=99.08  E-value=5e-11  Score=102.97  Aligned_cols=51  Identities=33%  Similarity=0.897  Sum_probs=46.0

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      .......|.+||+...+   +..++|||.||+.||.+|...+..||+||..+.+
T Consensus       235 i~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            33456899999999999   7889999999999999999999999999998865

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

Probab=99.08  E-value=5.4e-11  Score=77.93  Aligned_cols=48  Identities=42%  Similarity=1.034  Sum_probs=41.6

Q ss_pred             CCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ++..|+||++...+   +++.+|||. ||..|+..|.+....||+|++.+..
T Consensus         1 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    1 EDEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             -HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             CcCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            46789999999888   899999999 9999999999989999999998753

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.08  E-value=9.4e-11  Score=100.44  Aligned_cols=54  Identities=35%  Similarity=1.026  Sum_probs=45.6

Q ss_pred             CCCCCccccccccccCCC-----ceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           31 AIRGQKCPICLDNLTDRR-----TAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~-----~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ..++..|+||++.+.++.     .+++.+|+|.||..||.+|++.+.+||+||..+...
T Consensus       171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v  229 (238)
T PHA02929        171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISV  229 (238)
T ss_pred             CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEE
Confidence            346789999999987642     246779999999999999999999999999988754

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

Probab=99.05  E-value=8.8e-11  Score=72.90  Aligned_cols=39  Identities=51%  Similarity=1.256  Sum_probs=33.6

Q ss_pred             cccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCC
Q 046606           37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLC   77 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlC   77 (246)
                      |+||++.+.++  .+.++|||.||..|+..|++.+.+||.|
T Consensus         1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc--CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999992  3789999999999999999888899988

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

Probab=99.01  E-value=1.9e-10  Score=96.70  Aligned_cols=51  Identities=31%  Similarity=0.779  Sum_probs=45.0

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC---CCCCCCCcccccC
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK---RNCPLCNAPFRSW   84 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~~~~~~   84 (246)
                      +...+.|.||||.-++   ++++.|||.||+.||-+|+...   ..||+||..+...
T Consensus        44 ~~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            4568999999999999   8999999999999999999764   4599999998764

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

Probab=99.00  E-value=1.3e-10  Score=93.79  Aligned_cols=53  Identities=30%  Similarity=0.729  Sum_probs=45.8

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      +..+.|||||+.+... +++.++|||.||..||...++...+||+|++.+..+.
T Consensus       129 ~~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            3568899999999874 4677999999999999999999999999998776543

>smart00504 Ubox Modified RING finger domain

Probab=99.00  E-value=2.6e-10  Score=77.94  Aligned_cols=53  Identities=26%  Similarity=0.377  Sum_probs=45.2

Q ss_pred             CCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCccccc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRIN   89 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~   89 (246)
                      ++.||||.+.+.+   +++++|||.||..||..|+.....||.|+..+.......+
T Consensus         1 ~~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~   53 (63)
T smart00504        1 EFLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPN   53 (63)
T ss_pred             CcCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeC
Confidence            4679999999999   7889999999999999998888899999998865443333

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=99.00  E-value=3e-10  Score=80.32  Aligned_cols=46  Identities=33%  Similarity=0.866  Sum_probs=37.2

Q ss_pred             CCCccccccccccCC----------CceEEccCCCcCCHHHHHHHhcCCCCCCCCC
Q 046606           33 RGQKCPICLDNLTDR----------RTAVLKVCTHAYCLECIEKWSNLKRNCPLCN   78 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~----------~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr   78 (246)
                      .++.|+||++.|.++          ......+|||.||..||.+|++...+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            455699999999543          2345668999999999999999999999997

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=98.96  E-value=4.6e-10  Score=102.67  Aligned_cols=66  Identities=30%  Similarity=0.602  Sum_probs=53.3

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhh
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQ   97 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~   97 (246)
                      ...+..+.|+||++.+.+   +++++|+|.||..||..|+.....||+|+..+.......+..+.++++
T Consensus        21 ~~Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe   86 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVE   86 (397)
T ss_pred             cccccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHH
Confidence            344578999999999998   788999999999999999988888999999988655555544444443

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

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

Probab=98.90  E-value=8.4e-10  Score=98.81  Aligned_cols=49  Identities=29%  Similarity=0.885  Sum_probs=44.0

Q ss_pred             CccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCC-CCCCCccccc
Q 046606           35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRN-CPLCNAPFRS   83 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~-CPlCr~~~~~   83 (246)
                      +.|+||+|.+..++....++|+|.||..||..|+....+ ||+||+.+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            499999999998887888999999999999999988755 9999997754

>PHA02926 zinc finger-like protein; Provisional

Probab=98.86  E-value=1.3e-09  Score=91.24  Aligned_cols=56  Identities=29%  Similarity=0.863  Sum_probs=44.3

Q ss_pred             CCCCCCCccccccccccCC------CceEEccCCCcCCHHHHHHHhcCC------CCCCCCCcccccC
Q 046606           29 SPAIRGQKCPICLDNLTDR------RTAVLKVCTHAYCLECIEKWSNLK------RNCPLCNAPFRSW   84 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~------~~~~~~~C~H~Fc~~Ci~~w~~~~------~~CPlCr~~~~~~   84 (246)
                      ...+++..|+||++.+.++      ...++.+|+|.||..||..|.+..      ..||+||..+...
T Consensus       165 ~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        165 YRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             HhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            3445789999999986442      246788999999999999998753      4599999988754

>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=98.86  E-value=2.5e-09  Score=67.21  Aligned_cols=44  Identities=45%  Similarity=1.226  Sum_probs=36.6

Q ss_pred             ccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCccc
Q 046606           36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPF   81 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~   81 (246)
                      .|+||++.+.+.  ..+.+|+|.||..|+..|++. ...||.|+..+
T Consensus         1 ~C~iC~~~~~~~--~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREP--VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCc--eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999999552  555669999999999999887 67899998753

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

Probab=98.85  E-value=1.6e-09  Score=67.73  Aligned_cols=38  Identities=47%  Similarity=1.274  Sum_probs=33.9

Q ss_pred             cccccccccCCCceE-EccCCCcCCHHHHHHHhc--CCCCCCCC
Q 046606           37 CPICLDNLTDRRTAV-LKVCTHAYCLECIEKWSN--LKRNCPLC   77 (246)
Q Consensus        37 C~ICl~~~~~~~~~~-~~~C~H~Fc~~Ci~~w~~--~~~~CPlC   77 (246)
                      |+||++.+.+   +. +++|+|.||..|+..|++  ....||+|
T Consensus         1 C~iC~~~~~~---~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED---PVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS---EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC---CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            8999999998   55 999999999999999887  45679988

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 ....

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.72  E-value=1.2e-08  Score=64.91  Aligned_cols=44  Identities=30%  Similarity=0.923  Sum_probs=37.5

Q ss_pred             ccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCc
Q 046606           36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNA   79 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~   79 (246)
                      .|+||.+.+.+...+.+++|||.||..|+..+......||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            49999999943345899999999999999998866778999985

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

Probab=98.69  E-value=1e-08  Score=72.51  Aligned_cols=66  Identities=20%  Similarity=0.265  Sum_probs=50.3

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCcccccCCchhhhhhhh
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~~~~~~~~~~~~~~~l  100 (246)
                      .+.+.|||+.+.+.+   |+++++||+|+..||..|+.. ...||+|+..+......+|..+...+.+++
T Consensus         2 P~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~   68 (73)
T PF04564_consen    2 PDEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC   68 (73)
T ss_dssp             SGGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred             CcccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence            367899999999999   899999999999999999998 788999999998876666655555555544

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 ....

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

Probab=98.68  E-value=1.1e-08  Score=88.96  Aligned_cols=56  Identities=25%  Similarity=0.730  Sum_probs=46.9

Q ss_pred             cCCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc-CCCCCCCCCccccc
Q 046606           28 ISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRS   83 (246)
Q Consensus        28 ~~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~   83 (246)
                      .........|+|||+.|...+..+.+||.|.||..|+..|+. .+.+||+|+.++.+
T Consensus       317 ~~ea~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         317 AVEADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             HHhcCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            334456788999999987666688899999999999999987 67899999998753

>smart00184 RING Ring finger

Probab=98.68  E-value=1.6e-08  Score=61.24  Aligned_cols=38  Identities=47%  Similarity=1.286  Sum_probs=33.6

Q ss_pred             cccccccccCCCceEEccCCCcCCHHHHHHHhc-CCCCCCCC
Q 046606           37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN-LKRNCPLC   77 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlC   77 (246)
                      |+||++...+   ++.++|+|.||..|+..|++ ....||.|
T Consensus         1 C~iC~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKD---PVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCC---cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            8999999766   78889999999999999987 56679987

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)

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

Probab=98.67  E-value=1.2e-08  Score=90.97  Aligned_cols=51  Identities=27%  Similarity=0.773  Sum_probs=43.9

Q ss_pred             CCCCCccccccccccCC----------CceEEccCCCcCCHHHHHHHhcCCCCCCCCCccc
Q 046606           31 AIRGQKCPICLDNLTDR----------RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF   81 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~----------~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~   81 (246)
                      ..+|..|.||+|.+..+          ..|..++|||.+|++|+..|.+.+.+||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            45788999999995443          2367889999999999999999999999999984

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

Probab=98.62  E-value=3.3e-08  Score=71.14  Aligned_cols=52  Identities=29%  Similarity=0.740  Sum_probs=41.4

Q ss_pred             CCCCccccccccccCC----------CceEEccCCCcCCHHHHHHHhcC---CCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDR----------RTAVLKVCTHAYCLECIEKWSNL---KRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~----------~~~~~~~C~H~Fc~~Ci~~w~~~---~~~CPlCr~~~~~   83 (246)
                      .+++.|.||...|...          ...+.-.|+|.||..||.+|+..   +..||+||+.+..
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            4588999999988742          12355589999999999999875   3679999998753

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

Probab=98.61  E-value=8.3e-09  Score=90.94  Aligned_cols=59  Identities=25%  Similarity=0.559  Sum_probs=50.7

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCch
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSS   93 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~   93 (246)
                      ++-+.|-||.++|..   +++++|+|+||.-||..++..++.||+|...+..-.+..+.-+.
T Consensus        21 D~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~   79 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILD   79 (442)
T ss_pred             HHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHH
Confidence            456789999999998   89999999999999999999999999999999876555554333

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

Probab=98.59  E-value=2.1e-08  Score=92.83  Aligned_cols=53  Identities=28%  Similarity=0.630  Sum_probs=42.4

Q ss_pred             CCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC-----CCCCCCCcccccCccccc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-----RNCPLCNAPFRSWFYRIN   89 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-----~~CPlCr~~~~~~~~~~~   89 (246)
                      +..||||++...-   +..+.|||.||..||..++...     ..||+|+..+..+...+.
T Consensus       186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv  243 (513)
T KOG2164|consen  186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV  243 (513)
T ss_pred             CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence            7889999999877   7777899999999999944332     469999999887544333

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

Probab=98.52  E-value=3.7e-08  Score=84.34  Aligned_cols=50  Identities=32%  Similarity=0.788  Sum_probs=44.0

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHH-HhcCCCC-CCCCCcccccC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKRN-CPLCNAPFRSW   84 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~-w~~~~~~-CPlCr~~~~~~   84 (246)
                      ..+..|+||++....   +..++|||.||..||.. |-+.+.. ||+||+.....
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            468999999999988   78899999999999999 9887776 99999876543

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

Probab=98.47  E-value=7.3e-08  Score=83.49  Aligned_cols=51  Identities=22%  Similarity=0.469  Sum_probs=45.8

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      +.-+.|-||.+.|..   +..++|||.||.-||...+..+..||+|+..+....
T Consensus        23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr   73 (391)
T COG5432          23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR   73 (391)
T ss_pred             hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence            346779999999998   899999999999999999999999999999887543

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.46  E-value=2e-07  Score=82.39  Aligned_cols=53  Identities=26%  Similarity=0.704  Sum_probs=39.1

Q ss_pred             CCCcccccccc-ccCCCc-eEEccCCCcCCHHHHHH-HhcCCCCCCCCCcccccCc
Q 046606           33 RGQKCPICLDN-LTDRRT-AVLKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        33 ~~~~C~ICl~~-~~~~~~-~~~~~C~H~Fc~~Ci~~-w~~~~~~CPlCr~~~~~~~   85 (246)
                      ++..||+|... ..++.. ..+.+|||.||..|+.. |......||.|+..+....
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            46789999994 223321 22337999999999999 5566678999999887654

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).

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

Probab=98.46  E-value=9.6e-08  Score=60.37  Aligned_cols=38  Identities=32%  Similarity=0.980  Sum_probs=22.3

Q ss_pred             cccccccccCC-CceEEccCCCcCCHHHHHHHhcC----CCCCC
Q 046606           37 CPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNL----KRNCP   75 (246)
Q Consensus        37 C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~----~~~CP   75 (246)
                      ||||.+ +.+. ..|++++|||.||.+||..+++.    ..+||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 6543 45888999999999999998763    34576

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

Probab=98.43  E-value=3.2e-08  Score=72.90  Aligned_cols=57  Identities=30%  Similarity=0.659  Sum_probs=43.8

Q ss_pred             cccCCCCCCCccccccccccCC--------------CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           26 RVISPAIRGQKCPICLDNLTDR--------------RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        26 ~~~~~~~~~~~C~ICl~~~~~~--------------~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      +....+..-+.|+||...+-+.              ..+.--.|.|.||+.||.+|++....||+|.+...
T Consensus        38 AlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~  108 (114)
T KOG2930|consen   38 ALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV  108 (114)
T ss_pred             eeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence            3445556788999998655432              22344589999999999999999999999988764

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

Probab=98.31  E-value=1.1e-07  Score=64.44  Aligned_cols=58  Identities=29%  Similarity=0.658  Sum_probs=28.1

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchh
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSD   94 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~   94 (246)
                      +-..|++|.+.+.++  ..+..|.|.||..||..-+.  ..||+|..+--..+...|..+++
T Consensus         6 ~lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~NrqLd~   63 (65)
T PF14835_consen    6 ELLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINRQLDS   63 (65)
T ss_dssp             HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----HHHHH
T ss_pred             HhcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhhhhhc
Confidence            356799999999994  45789999999999977443  45999998876655555544443

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

Probab=98.26  E-value=2.2e-07  Score=89.90  Aligned_cols=51  Identities=35%  Similarity=0.768  Sum_probs=43.9

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHh-cCCCCCCCCCcccccCcc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWS-NLKRNCPLCNAPFRSWFY   86 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~-~~~~~CPlCr~~~~~~~~   86 (246)
                      .-..|++|-....+   .+++.|+|.||..|+...+ ....+||.|.+.|+.-++
T Consensus       642 ~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             hceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            35789999999998   8899999999999999955 456889999999987543

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

Probab=98.23  E-value=7e-07  Score=62.86  Aligned_cols=52  Identities=31%  Similarity=0.642  Sum_probs=40.5

Q ss_pred             CCCCccccccccccCC-------------CceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDR-------------RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~-------------~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..-+.|.||...+.+.             ...+.-.|.|.||..||.+|+..+..||++++.+..
T Consensus        18 i~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          18 IPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             cccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            3456788887766542             224455899999999999999999999999998754

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

Probab=98.22  E-value=4.2e-07  Score=87.34  Aligned_cols=51  Identities=25%  Similarity=0.671  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCC--CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           32 IRGQKCPICLDNLTDR--RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      ..+..|+||+|.+...  ..+..++|+|.||..|+..|++.+.+||.||..+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            3588999999999873  12577899999999999999999999999999443

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

Probab=98.21  E-value=1.6e-07  Score=61.37  Aligned_cols=48  Identities=33%  Similarity=0.830  Sum_probs=41.2

Q ss_pred             CCccccccccccCCCceEEccCCCc-CCHHHHHH-HhcCCCCCCCCCcccccC
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEK-WSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~-w~~~~~~CPlCr~~~~~~   84 (246)
                      ++.|.||++...+   .++..|||. +|++|-.+ |-..+..||+||+++...
T Consensus         7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dv   56 (62)
T KOG4172|consen    7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDV   56 (62)
T ss_pred             ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHH
Confidence            4789999999888   788899997 99999998 555778899999988653

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

Probab=98.20  E-value=5.4e-07  Score=78.28  Aligned_cols=46  Identities=30%  Similarity=0.808  Sum_probs=40.4

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNA   79 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~   79 (246)
                      ..+...|+||++.|.+   +.+++|+|+||..|+..+......||.|+.
T Consensus        10 ~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhc---CccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            3578899999999999   688899999999999996666677999994

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

Probab=98.18  E-value=2.1e-07  Score=82.71  Aligned_cols=69  Identities=28%  Similarity=0.526  Sum_probs=50.6

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc-CCCCCCCCCcccccC-cccccCCchhhhhhhhcC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRSW-FYRINLSSSDFLQQQLQP  102 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~~-~~~~~~~~~~~~~~~lp~  102 (246)
                      ..++.|+|||+.+...  ..+..|.|.||++||..-+. ....||.||+.+.+. .+..+.....++.+..+.
T Consensus        41 ~~~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~~s  111 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIYPS  111 (381)
T ss_pred             hhhhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHhcc
Confidence            4688999999999982  33446999999999988554 467899999998764 344554455555555444

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

Probab=98.04  E-value=6.7e-07  Score=78.95  Aligned_cols=75  Identities=21%  Similarity=0.484  Sum_probs=60.2

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc----ccccCCchhhhhhhhcCCCCC
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF----YRINLSSSDFLQQQLQPLIKD  106 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~----~~~~~~~~~~~~~~lp~~~~~  106 (246)
                      ......|.+|..+|.+.  ..+..|.|+||..||...+.....||.|...+....    +..+..+++++...+|++.+.
T Consensus        12 ~n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~er   89 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQER   89 (331)
T ss_pred             cccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHHHH
Confidence            34678899999999994  666789999999999999888999999999887653    344456677777778887654


Q ss_pred             C
Q 046606          107 K  107 (246)
Q Consensus       107 ~  107 (246)
                      +
T Consensus        90 E   90 (331)
T KOG2660|consen   90 E   90 (331)
T ss_pred             H
Confidence            3

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

Probab=98.00  E-value=3.6e-06  Score=75.20  Aligned_cols=50  Identities=32%  Similarity=0.802  Sum_probs=44.0

Q ss_pred             CCCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      +....|.|||....+   .+++||.|. .|..|.+...-....||+||+.+...
T Consensus       288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            346789999999999   899999998 99999999876778899999998753

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

Probab=97.91  E-value=5.3e-06  Score=72.45  Aligned_cols=52  Identities=27%  Similarity=0.612  Sum_probs=42.9

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWF   85 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~   85 (246)
                      ..-+..|+||+....-   ++.+.|+|.||+.||..-... ...|++|+.++.+.+
T Consensus         4 ~~~~~eC~IC~nt~n~---Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    4 RTKKKECLICYNTGNC---PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             cccCCcceeeeccCCc---CccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            3456789999999877   788999999999999995554 456999999998743

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

Probab=97.74  E-value=9.5e-06  Score=69.87  Aligned_cols=60  Identities=18%  Similarity=0.474  Sum_probs=45.9

Q ss_pred             ccCCCCCCCccccccccccCC-------CceEEccCCCcCCHHHHHHHhc--CCCCCCCCCcccccCcc
Q 046606           27 VISPAIRGQKCPICLDNLTDR-------RTAVLKVCTHAYCLECIEKWSN--LKRNCPLCNAPFRSWFY   86 (246)
Q Consensus        27 ~~~~~~~~~~C~ICl~~~~~~-------~~~~~~~C~H~Fc~~Ci~~w~~--~~~~CPlCr~~~~~~~~   86 (246)
                      .+....++..|.||-..+...       +....+.|+|.||..||..|--  .+.+||-||..+.....
T Consensus       217 lPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rm  285 (328)
T KOG1734|consen  217 LPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRM  285 (328)
T ss_pred             CCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhh
Confidence            344445788899999887653       1356789999999999999954  45779999998875443

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

Probab=97.69  E-value=2e-05  Score=72.50  Aligned_cols=49  Identities=29%  Similarity=0.772  Sum_probs=44.7

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..++.|.||+..+.+   ++.++|||.||..||.+-+.....||+|+..+..
T Consensus        82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCccccccccc
Confidence            568999999999999   7888999999999999988888899999999875

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

Probab=97.68  E-value=2e-05  Score=71.13  Aligned_cols=56  Identities=29%  Similarity=0.874  Sum_probs=44.3

Q ss_pred             CCCCCCccccccccccCCC-----ceEEccCCCcCCHHHHHHHhc--C-----CCCCCCCCcccccCc
Q 046606           30 PAIRGQKCPICLDNLTDRR-----TAVLKVCTHAYCLECIEKWSN--L-----KRNCPLCNAPFRSWF   85 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~-----~~~~~~C~H~Fc~~Ci~~w~~--~-----~~~CPlCr~~~~~~~   85 (246)
                      ....+..|.||++.+.++.     ..++.+|.|.||..||..|.+  .     ...||.||.......
T Consensus       157 ~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  157 QKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             CccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            3357899999999988753     345578999999999999984  3     367999998776543

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

Probab=97.64  E-value=2.8e-05  Score=52.19  Aligned_cols=44  Identities=30%  Similarity=0.593  Sum_probs=29.2

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC--CCCCCC
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL--KRNCPL   76 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--~~~CPl   76 (246)
                      ....+.|||.+..|.+|  .....|+|.|....|.+|++.  ...||.
T Consensus         8 ~~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            34578999999999994  344589999999999999943  456998

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

Probab=97.60  E-value=1.1e-05  Score=56.51  Aligned_cols=50  Identities=24%  Similarity=0.642  Sum_probs=23.7

Q ss_pred             CCcccccccccc-CCCceEE----ccCCCcCCHHHHHHHhcC---C--------CCCCCCCccccc
Q 046606           34 GQKCPICLDNLT-DRRTAVL----KVCTHAYCLECIEKWSNL---K--------RNCPLCNAPFRS   83 (246)
Q Consensus        34 ~~~C~ICl~~~~-~~~~~~~----~~C~H~Fc~~Ci~~w~~~---~--------~~CPlCr~~~~~   83 (246)
                      +..|.||...+. +.+.+.+    ..|+..||..||.+|+..   .        ..||.|++++.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            567999999865 3222222    279999999999999753   1        249999998753

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

Probab=97.57  E-value=2.7e-05  Score=72.10  Aligned_cols=51  Identities=31%  Similarity=0.853  Sum_probs=39.7

Q ss_pred             CCCccccccccccCC--------------CceEEccCCCcCCHHHHHHHhc-CCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDR--------------RTAVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~--------------~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~   83 (246)
                      ....|+|||..+.-.              .--+++||.|.||..|+..|+. .+..||.|+.++..
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            356799999876431              1135669999999999999998 56689999998753

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

Probab=97.57  E-value=1.1e-05  Score=56.32  Aligned_cols=52  Identities=29%  Similarity=0.712  Sum_probs=38.8

Q ss_pred             CCCCCccccccccccCC---------Cce-EEccCCCcCCHHHHHHHhcC---CCCCCCCCcccc
Q 046606           31 AIRGQKCPICLDNLTDR---------RTA-VLKVCTHAYCLECIEKWSNL---KRNCPLCNAPFR   82 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~---------~~~-~~~~C~H~Fc~~Ci~~w~~~---~~~CPlCr~~~~   82 (246)
                      ...++.|-||.-.|...         +-| +.-.|.|.||..||.+|+..   +..||+||+.+.
T Consensus        17 ~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   17 DAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             cCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            34566899999888642         112 33379999999999999865   356999999875

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

Probab=97.55  E-value=6.7e-05  Score=64.91  Aligned_cols=51  Identities=29%  Similarity=0.664  Sum_probs=41.0

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc--CCCCCCCCCcccccC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN--LKRNCPLCNAPFRSW   84 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~--~~~~CPlCr~~~~~~   84 (246)
                      ..+..|++|-+....|  -+..+|+|.||+.|+..-..  ....||.|.......
T Consensus       237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l  289 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL  289 (298)
T ss_pred             cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence            4678899999998885  45567999999999998543  357899999887643

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

Probab=97.54  E-value=6.5e-05  Score=48.81  Aligned_cols=42  Identities=29%  Similarity=0.775  Sum_probs=31.8

Q ss_pred             ccccccccccCCCceEEccCC-----CcCCHHHHHHHhcCC--CCCCCCC
Q 046606           36 KCPICLDNLTDRRTAVLKVCT-----HAYCLECIEKWSNLK--RNCPLCN   78 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~-----H~Fc~~Ci~~w~~~~--~~CPlCr   78 (246)
                      .|-||++... +..+...||.     |.+|..|+..|+..+  ..||+|+
T Consensus         1 ~CrIC~~~~~-~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGD-EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCC-CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998322 2336778885     779999999998654  4799995

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

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

Probab=97.54  E-value=1.2e-05  Score=75.86  Aligned_cols=62  Identities=18%  Similarity=0.272  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHHHHhcCCEEEeCCCCCcccccCCCCCCC-CchhhhhhhhhhhhhhhhhcCCCCc
Q 046606          158 VSERKLRWRASVYNAGFQAVPLSPRRCLGQNASGNNFV-KGRLVQRIDPWIRRELQALLGGPRS  220 (246)
Q Consensus       158 ~~~~~l~~Rr~vY~~~L~~~~~~s~~~~~~~i~~~~~~-~p~~~~Rl~~Wl~REL~v~~~~~~~  220 (246)
                      ..+++..+|+.+|+.+|++....+..++++ .+..+++ ||.++|||.+|++|||.++++++++
T Consensus        18 ~~q~iv~~rr~vy~~~l~s~~~~~~g~fr~-~s~~~~r~np~~ihr~~~W~~r~i~~l~~t~~s   80 (553)
T KOG4430|consen   18 KEQDIVLGRRYVYDISLYSLPYPESGRFRR-ESREIFRFNPFCIHRLMQWKKRDISVLNRTRGS   80 (553)
T ss_pred             cchhccCcceeEecccccCCCcccccchhc-cchhhhccChhhhcccccchhhHHHHHhhhccc
Confidence            345667779999999999998888878776 5666666 8999999999999999999999997

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

Probab=97.45  E-value=2.2e-05  Score=76.15  Aligned_cols=53  Identities=28%  Similarity=0.649  Sum_probs=43.1

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      ....|++|+..+.+.....-.+|+|.||..||..|.....+||+|+..|..+.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            45668888877766433444589999999999999999999999999998754

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

Probab=97.45  E-value=6.4e-05  Score=68.98  Aligned_cols=52  Identities=23%  Similarity=0.714  Sum_probs=39.4

Q ss_pred             CCCCCCCccccccccccCCC-ceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           29 SPAIRGQKCPICLDNLTDRR-TAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~-~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      ....+-.+|||||+.+.... -.+...|.|.||-.|+..|..  .+||+||..-.
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~  222 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS  222 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence            33456788999999998741 125668999999999999875  56888876544

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

Probab=97.38  E-value=5.3e-05  Score=62.59  Aligned_cols=47  Identities=21%  Similarity=0.542  Sum_probs=41.7

Q ss_pred             CCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      .+.|-||...+..   ++++.|||.||..|...-.+....|-+|.+....
T Consensus       196 PF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G  242 (259)
T COG5152         196 PFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATYG  242 (259)
T ss_pred             ceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhcc
Confidence            4689999999998   8999999999999999988888999999876543

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

Probab=97.35  E-value=8.2e-05  Score=68.82  Aligned_cols=51  Identities=27%  Similarity=0.702  Sum_probs=44.6

Q ss_pred             CCCCCccccccccccCCCceEE-ccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           31 AIRGQKCPICLDNLTDRRTAVL-KVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~-~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      .+++..|++|...+.+   ++. +.|||.||..|+..|...+..||.|+......
T Consensus        18 ~~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             CcccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            4578999999999999   566 59999999999999999999999998776543

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

Probab=97.23  E-value=0.00011  Score=64.31  Aligned_cols=48  Identities=25%  Similarity=0.483  Sum_probs=42.6

Q ss_pred             CCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      .+.|-||...|.+   ++.+.|+|.||..|...-++....|++|.+.....
T Consensus       241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS  288 (313)
T ss_pred             Ccccccccccccc---chhhcCCceeehhhhccccccCCcceecccccccc
Confidence            5679999999999   89999999999999988888888999999877653

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

Probab=97.14  E-value=0.00021  Score=64.63  Aligned_cols=50  Identities=24%  Similarity=0.761  Sum_probs=37.3

Q ss_pred             CCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCC---CCCCCCCccccc
Q 046606           34 GQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLK---RNCPLCNAPFRS   83 (246)
Q Consensus        34 ~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~~~~~   83 (246)
                      ...|.||.+.+.+. ++.-+..|||.||..|+..|+...   ..||+|+-.+..
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~   57 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE   57 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence            35699997766543 344455699999999999999863   479999955544

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

Probab=96.94  E-value=0.00045  Score=61.86  Aligned_cols=50  Identities=26%  Similarity=0.625  Sum_probs=44.3

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      +.+|..||||...-.+   ++..+|+|.-|+.||.+-+-+.+.|=-||+.+..
T Consensus       419 ~sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  419 DSEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CcccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            3688999999998777   7889999999999999988888899999988764

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

Probab=96.90  E-value=0.0006  Score=62.07  Aligned_cols=50  Identities=42%  Similarity=0.890  Sum_probs=38.5

Q ss_pred             CCCccccccccccCC--CceEEccCCCcCCHHHHHHHhcCC--CCCCCCCcccc
Q 046606           33 RGQKCPICLDNLTDR--RTAVLKVCTHAYCLECIEKWSNLK--RNCPLCNAPFR   82 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~~--~~CPlCr~~~~   82 (246)
                      ....||||+|.+.-+  .-.+.+.|||.|-..||..|+..+  ..||+|+..-.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat   56 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT   56 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence            467899999987654  224567899999999999999532  45999975543

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

Probab=96.85  E-value=0.0011  Score=42.73  Aligned_cols=46  Identities=24%  Similarity=0.690  Sum_probs=22.6

Q ss_pred             cccccccccCCCceEE-ccCCCcCCHHHHHHHhc-CCCCCCCCCcccc
Q 046606           37 CPICLDNLTDRRTAVL-KVCTHAYCLECIEKWSN-LKRNCPLCNAPFR   82 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~-~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~   82 (246)
                      ||+|.+.+......+. =+|++..|..|+....+ ....||-||++|.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y~   48 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPYK   48 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B--
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence            7899998854322222 26899999999999776 5788999999863

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.71  E-value=0.0016  Score=55.77  Aligned_cols=54  Identities=28%  Similarity=0.442  Sum_probs=46.3

Q ss_pred             CCCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           32 IRGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      +..+.||||.+.|.|. .-+++.+|||.||.+|+.........||+|..++....
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            3678899999999985 23567799999999999999999999999998887654

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

Probab=96.63  E-value=0.00062  Score=67.71  Aligned_cols=53  Identities=28%  Similarity=0.680  Sum_probs=39.4

Q ss_pred             CCCCCCcccccccccc--CCCc--eEEccCCCcCCHHHHHHHhcCC--CCCCCCCcccc
Q 046606           30 PAIRGQKCPICLDNLT--DRRT--AVLKVCTHAYCLECIEKWSNLK--RNCPLCNAPFR   82 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~--~~~~--~~~~~C~H~Fc~~Ci~~w~~~~--~~CPlCr~~~~   82 (246)
                      .-+....|+||...+.  +...  -....|.|.||..|+-.|+..+  ..||+||..+.
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3456788999998765  2111  2334799999999999998764  57999997664

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

Probab=96.58  E-value=0.00082  Score=61.09  Aligned_cols=48  Identities=27%  Similarity=0.805  Sum_probs=40.8

Q ss_pred             CCccccccccccCCCceEEccCCCcCCHHHHHHHhcC--CCCCCCCCcccccC
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL--KRNCPLCNAPFRSW   84 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--~~~CPlCr~~~~~~   84 (246)
                      -..|.||-+.-++   ..+-+|||..|..|+..|...  ...||-|+..+...
T Consensus       369 FeLCKICaendKd---vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  369 FELCKICAENDKD---VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHHhhccCCC---cccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            4569999998887   778899999999999999754  47899999988754

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

Probab=96.55  E-value=0.0004  Score=60.64  Aligned_cols=43  Identities=30%  Similarity=0.794  Sum_probs=36.5

Q ss_pred             CCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCccccc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      +..|.||+|...+   .+.++|||. -|..|-..+    ..||+||+.+..
T Consensus       300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkrm----~eCPICRqyi~r  343 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKRM----NECPICRQYIVR  343 (350)
T ss_pred             HHHHHHHhcCCcc---eEEeecCcEEeehhhcccc----ccCchHHHHHHH
Confidence            7789999999998   999999996 899996554    379999987653

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

Probab=96.54  E-value=0.001  Score=58.38  Aligned_cols=43  Identities=33%  Similarity=0.767  Sum_probs=36.4

Q ss_pred             CccccccccccCCCceEEccCCCcCCHHHHHH-HhcCCCCCCCCCc
Q 046606           35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKRNCPLCNA   79 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~-w~~~~~~CPlCr~   79 (246)
                      +.|+.|...+.++  ..+..|+|.||.+||.. .+.....||.|-.
T Consensus       275 LkCplc~~Llrnp--~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP--MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc--ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            8899999999994  33347999999999998 5677899999976

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.54  E-value=0.0033  Score=55.02  Aligned_cols=54  Identities=17%  Similarity=0.481  Sum_probs=44.0

Q ss_pred             CCCCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           31 AIRGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      ....+.|||....|... .++.+.+|||.|+..+|.+.- ....||+|..+|....
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED  164 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence            45678999999999543 456777999999999999984 4567999999998654

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

Probab=96.49  E-value=0.0026  Score=53.76  Aligned_cols=54  Identities=19%  Similarity=0.477  Sum_probs=43.4

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC--------CCCCCCCCccccc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL--------KRNCPLCNAPFRS   83 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--------~~~CPlCr~~~~~   83 (246)
                      .+.+-+..|.+|-..+..++ .+-+.|-|.||..|+.+|...        ...||.|...+-.
T Consensus        45 ~DsDY~pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   45 QDSDYNPNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             hhcCCCCCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            34456788999999998764 677889999999999999754        2579999987754

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

Probab=96.48  E-value=0.003  Score=56.58  Aligned_cols=53  Identities=23%  Similarity=0.563  Sum_probs=43.7

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHH--hcCCCCCCCCCcccccCc
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKW--SNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w--~~~~~~CPlCr~~~~~~~   85 (246)
                      .++++..|.||-+.+.-   ..++||+|..|--|..+.  +-....||+|++......
T Consensus        57 tDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~  111 (493)
T COG5236          57 TDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVV  111 (493)
T ss_pred             cccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccceEE
Confidence            34567789999999988   788999999999999873  556788999999877643

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

Probab=96.37  E-value=0.0007  Score=59.37  Aligned_cols=52  Identities=19%  Similarity=0.587  Sum_probs=41.8

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-----------------------CCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-----------------------KRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-----------------------~~~CPlCr~~~~~   83 (246)
                      ...-.|.|||--|.++..-+.+.|.|.||+.|+.++++.                       ...||+|+..+..
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            356779999999988765677899999999999887651                       1359999988764

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

Probab=96.36  E-value=0.0018  Score=58.19  Aligned_cols=49  Identities=29%  Similarity=0.626  Sum_probs=37.1

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ......+.|.||++...+   .+..+|||.-|  |..-. +...+||+|++.+..
T Consensus       300 ~~~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  300 RELPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIRL  348 (355)
T ss_pred             cccCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHHH
Confidence            344567889999999999   89999999855  65443 334559999987754

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

Probab=96.16  E-value=0.0036  Score=55.63  Aligned_cols=51  Identities=25%  Similarity=0.571  Sum_probs=41.8

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF   81 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~   81 (246)
                      ....+...||||+....|+  .++..-|-.||+.|+..+......||+-..+.
T Consensus       295 ~l~~~~~~CpvClk~r~Np--tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  295 LLPPDREVCPVCLKKRQNP--TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             cCCCccccChhHHhccCCC--ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            3334678899999999996  66667799999999999999889999765543

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

Probab=96.13  E-value=0.003  Score=53.96  Aligned_cols=62  Identities=23%  Similarity=0.515  Sum_probs=40.2

Q ss_pred             ccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhhhhhc
Q 046606           36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQ  101 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp  101 (246)
                      .|-.|.-.-. +..-.++.|+|.||..|...-..  ..||+|++.+....+..+ ...++..+.-+
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~i~l~~s-lp~~ik~~F~d   66 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSP--DVCPLCKKSIRIIQLNRS-LPTDIKSYFAD   66 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccCCc--cccccccceeeeeecccc-cchhHHHHccC
Confidence            4665654433 33367889999999999754322  289999999876665555 44444444433

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

Probab=96.10  E-value=0.0019  Score=60.68  Aligned_cols=48  Identities=25%  Similarity=0.715  Sum_probs=39.9

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-----CCCCCCCCcccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-----KRNCPLCNAPFR   82 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-----~~~CPlCr~~~~   82 (246)
                      ..+..|-+|.+.-++   ++...|.|.||..|+.++...     .-+||.|-..+.
T Consensus       534 k~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  534 KGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            456789999999998   889999999999999887542     357999977665

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

Probab=95.82  E-value=0.0056  Score=63.53  Aligned_cols=56  Identities=20%  Similarity=0.521  Sum_probs=40.5

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-----C-----CCCCCCCcccccC
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-----K-----RNCPLCNAPFRSW   84 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-----~-----~~CPlCr~~~~~~   84 (246)
                      ...+.|+.|.||...--..-.++.+.|+|.||+.|....+.+     .     ..||+|+..+...
T Consensus      3481 tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3481 TKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred             hhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence            345678999999875322223788899999999998664443     2     3699999988653

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

Probab=95.82  E-value=0.0024  Score=56.06  Aligned_cols=53  Identities=25%  Similarity=0.433  Sum_probs=42.5

Q ss_pred             CCCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           32 IRGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      .....||||.+.+... ..+..++|||..++.|+.+.......||+|.+ +....
T Consensus       156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~  209 (276)
T KOG1940|consen  156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGDMS  209 (276)
T ss_pred             cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHHHH
Confidence            3456699999987665 35777899999999999998777799999999 65543

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

Probab=95.81  E-value=0.0094  Score=47.84  Aligned_cols=34  Identities=26%  Similarity=0.804  Sum_probs=25.0

Q ss_pred             CCCccccccccccCCCceEEccCC------------Cc-CCHHHHHHHhc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCT------------HA-YCLECIEKWSN   69 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~------------H~-Fc~~Ci~~w~~   69 (246)
                      ++..|||||+...|   +|++.|.            -. -|..|+.++-+
T Consensus         1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            47789999999999   7888663            22 26678877643

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.

>PHA03096 p28-like protein; Provisional

Probab=95.29  E-value=0.0072  Score=53.49  Aligned_cols=45  Identities=24%  Similarity=0.561  Sum_probs=33.3

Q ss_pred             CccccccccccCC-----CceEEccCCCcCCHHHHHHHhcCC---CCCCCCCc
Q 046606           35 QKCPICLDNLTDR-----RTAVLKVCTHAYCLECIEKWSNLK---RNCPLCNA   79 (246)
Q Consensus        35 ~~C~ICl~~~~~~-----~~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~   79 (246)
                      -.|.||++.....     ...++..|.|.||..|+..|....   ..||.|+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            6799999987643     346677999999999999997653   33444443

>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=95.16  E-value=0.02  Score=50.27  Aligned_cols=53  Identities=25%  Similarity=0.651  Sum_probs=38.5

Q ss_pred             cccccccc-ccCCC-ceEEccCCCcCCHHHHHHH-hcCCCCCCCCCcccccCcccc
Q 046606           36 KCPICLDN-LTDRR-TAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPFRSWFYRI   88 (246)
Q Consensus        36 ~C~ICl~~-~~~~~-~~~~~~C~H~Fc~~Ci~~w-~~~~~~CPlCr~~~~~~~~~~   88 (246)
                      .||+|... +.++. +....+|+|..|..|+... ......||-|...+....+..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~   57 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRV   57 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccch
Confidence            59999864 44442 3344589999999999995 456678999998887654433

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.00  E-value=0.014  Score=52.27  Aligned_cols=55  Identities=18%  Similarity=0.468  Sum_probs=38.7

Q ss_pred             CCCCCccccccccccCCCc-eEEccCCCcCCHHHHHHHhc-CCCCCCCCCcccccCc
Q 046606           31 AIRGQKCPICLDNLTDRRT-AVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRSWF   85 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~-~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~~~   85 (246)
                      .++++.||+|++.+...+. -.--+||-..|.-|+...-+ ....||.|+..+....
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            4567779999998754311 22237888889999776433 3578999999987653

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

Probab=94.72  E-value=0.016  Score=57.50  Aligned_cols=46  Identities=30%  Similarity=0.679  Sum_probs=38.3

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ...+|..|-..+.-|  .+...|||.||.+|+.   .....||.|+..+..
T Consensus       839 q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~~  884 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPELRG  884 (933)
T ss_pred             eeeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchhhhh
Confidence            346899999999987  7778999999999998   556789999985543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.37  E-value=0.019  Score=37.86  Aligned_cols=46  Identities=28%  Similarity=0.582  Sum_probs=34.0

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ....|..|...-..   .++++|+|..|..|..-+  .-+.||.|.+++..
T Consensus         6 ~~~~~~~~~~~~~~---~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen    6 PEQPCVFCGFVGTK---GTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             cceeEEEccccccc---cccccccceeeccccChh--hccCCCCCCCcccC
Confidence            45567777766555   688999999999996532  23569999998864

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

Probab=94.28  E-value=0.011  Score=53.73  Aligned_cols=52  Identities=21%  Similarity=0.493  Sum_probs=39.4

Q ss_pred             CCCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCC--CCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLK--RNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~--~~CPlCr~~~~~   83 (246)
                      +-+..|-.|-+.+--+ +.-..++|.|.||..|+.+.+.++  .+||.|++...+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs  417 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSS  417 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhh
Confidence            3478899999876543 224567999999999999977553  579999965553

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

Probab=94.06  E-value=0.026  Score=52.12  Aligned_cols=36  Identities=22%  Similarity=0.582  Sum_probs=31.8

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL   70 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~   70 (246)
                      +++++|+||...+.+   |++++|+|..|..|....+..
T Consensus         2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccC---ceEeecccHHHHHHHHhhccc
Confidence            478999999999999   899999999999999875543

>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=94.02  E-value=0.021  Score=42.50  Aligned_cols=33  Identities=27%  Similarity=0.594  Sum_probs=27.5

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHH
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIE   65 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~   65 (246)
                      +++..|++|-..+.++ +-+..||||.||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~-~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNS-VFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCc-eEEEeCCCeEEeccccc
Confidence            4678899999999874 45667999999999974

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 [].

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

Probab=93.91  E-value=0.029  Score=51.42  Aligned_cols=47  Identities=19%  Similarity=0.567  Sum_probs=35.4

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC--------CCCCCCCCc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL--------KRNCPLCNA   79 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--------~~~CPlCr~   79 (246)
                      ..+.|.||.+......--+.++|+|.||..|+..++..        .-+||-++-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            46789999998765333567899999999999997652        235877654

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=93.88  E-value=0.074  Score=42.82  Aligned_cols=50  Identities=30%  Similarity=0.731  Sum_probs=36.7

Q ss_pred             CCCCCccccccccccCCCceEEccCCCc-----CCHHHHHHHhcCC--CCCCCCCcccccC
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHA-----YCLECIEKWSNLK--RNCPLCNAPFRSW   84 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~-----Fc~~Ci~~w~~~~--~~CPlCr~~~~~~   84 (246)
                      +..+..|-||.+.-.+    ...+|...     -|.+|+.+|...+  ..|++|++.|.-.
T Consensus         5 s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          5 SLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            3467889999988533    23566542     4999999998764  5699999998643

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

Probab=93.82  E-value=0.024  Score=55.92  Aligned_cols=46  Identities=33%  Similarity=0.828  Sum_probs=37.6

Q ss_pred             CccccccccccCCCceEEccCCCcCCHHHHHHHhcC--CCCCCCCCcccccC
Q 046606           35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL--KRNCPLCNAPFRSW   84 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--~~~CPlCr~~~~~~   84 (246)
                      ..|.||++ ...   ++...|+|.||..|+......  ...||+|+..+...
T Consensus       455 ~~c~ic~~-~~~---~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~  502 (674)
T KOG1001|consen  455 HWCHICCD-LDS---FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK  502 (674)
T ss_pred             cccccccc-ccc---ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence            88999999 554   899999999999999995543  34699999877653

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

Probab=93.75  E-value=0.048  Score=48.33  Aligned_cols=48  Identities=23%  Similarity=0.585  Sum_probs=39.5

Q ss_pred             CCccccccccccCC---CceEEccCCCcCCHHHHHHHhcCC-CCCCCCCccc
Q 046606           34 GQKCPICLDNLTDR---RTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPF   81 (246)
Q Consensus        34 ~~~C~ICl~~~~~~---~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~   81 (246)
                      -..|-||-+.+...   ..|..+.|||.+|..|+....... ..||.|+...
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            35699999998764   468888999999999999876654 5699999985

>PHA02862 5L protein; Provisional

Probab=93.72  E-value=0.046  Score=43.27  Aligned_cols=46  Identities=24%  Similarity=0.681  Sum_probs=34.8

Q ss_pred             CCccccccccccCCCceEEccCCC-----cCCHHHHHHHhcCC--CCCCCCCccccc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTH-----AYCLECIEKWSNLK--RNCPLCNAPFRS   83 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H-----~Fc~~Ci~~w~~~~--~~CPlCr~~~~~   83 (246)
                      ++.|=||.+.-.+   . ..+|..     .-|..|+.+|++.+  ..|++|+..|.-
T Consensus         2 ~diCWIC~~~~~e---~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDE---R-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCC---C-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            4679999998644   2 367654     36999999998764  469999999863

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

Probab=93.47  E-value=0.062  Score=41.93  Aligned_cols=54  Identities=28%  Similarity=0.659  Sum_probs=40.5

Q ss_pred             CCCCCCCccccccccccCCCceEEc---cCCCcCCHHHHHH-Hhc--CCCCCCCCCcccccC
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLK---VCTHAYCLECIEK-WSN--LKRNCPLCNAPFRSW   84 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~---~C~H~Fc~~Ci~~-w~~--~~~~CPlCr~~~~~~   84 (246)
                      ..+..-..|-||.+...+.  ..+-   -||-..|..|-.. |-.  ..+.||.|++.|.+.
T Consensus        75 F~d~~lYeCnIC~etS~ee--~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   75 FLDPKLYECNICKETSAEE--RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             ecCCCceeccCcccccchh--hcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            3334678899999987774  3333   4899999999999 532  357899999999763

>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=93.35  E-value=0.027  Score=48.18  Aligned_cols=53  Identities=23%  Similarity=0.637  Sum_probs=38.1

Q ss_pred             CCCcccccccc-ccCCCceEEc--cCCCcCCHHHHHHHhc-CCCCCC--CCCcccccCc
Q 046606           33 RGQKCPICLDN-LTDRRTAVLK--VCTHAYCLECIEKWSN-LKRNCP--LCNAPFRSWF   85 (246)
Q Consensus        33 ~~~~C~ICl~~-~~~~~~~~~~--~C~H~Fc~~Ci~~w~~-~~~~CP--lCr~~~~~~~   85 (246)
                      .+..||||... +-+|++.++.  .|-|.+|..|+.+.+. ....||  -|.+.+....
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~k   67 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIK   67 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhc
Confidence            46689999975 3444433332  4999999999999554 556799  8988776543

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

Probab=92.46  E-value=0.11  Score=47.61  Aligned_cols=48  Identities=19%  Similarity=0.513  Sum_probs=38.6

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC---CCCCCCCcc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK---RNCPLCNAP   80 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~~   80 (246)
                      .-+.|||=.+.-.+...|+.+.|||..+.+-+...+++.   .+||.|-..
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            356799988776655559999999999999999988764   589999543

>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=92.36  E-value=0.06  Score=42.18  Aligned_cols=36  Identities=22%  Similarity=0.720  Sum_probs=28.4

Q ss_pred             CCccccccccccC--CCceEEccCC------CcCCHHHHHHHhcCC
Q 046606           34 GQKCPICLDNLTD--RRTAVLKVCT------HAYCLECIEKWSNLK   71 (246)
Q Consensus        34 ~~~C~ICl~~~~~--~~~~~~~~C~------H~Fc~~Ci~~w~~~~   71 (246)
                      ...|.||++.+.+  +  .+..+|+      |.||.+|+..|....
T Consensus        26 ~~EC~IC~~~I~~~~G--vV~vt~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFDRIDNNDG--VVYVTDGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             CeeehhhhhhhhcCCC--EEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence            6779999999987  4  5556675      679999999995443

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.

>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=92.33  E-value=0.11  Score=33.79  Aligned_cols=44  Identities=27%  Similarity=0.699  Sum_probs=21.7

Q ss_pred             CccccccccccCCCceEEccCCCcCCHH--HHHHHhcC--CCCCCCCCcc
Q 046606           35 QKCPICLDNLTDRRTAVLKVCTHAYCLE--CIEKWSNL--KRNCPLCNAP   80 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~~C~H~Fc~~--Ci~~w~~~--~~~CPlCr~~   80 (246)
                      +.|||....+..+  +....|.|.-|++  -+......  .-.||+|+++
T Consensus         3 L~CPls~~~i~~P--~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP--VRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE--EEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC--ccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence            5799999999885  6677899985554  33333222  3469999863

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.

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

Probab=92.12  E-value=0.066  Score=47.49  Aligned_cols=44  Identities=27%  Similarity=0.714  Sum_probs=30.1

Q ss_pred             CccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      ..|.-|--.+..  .-.+++|.|.||++|...  ...+.||.|--.+.
T Consensus        91 HfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   91 HFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             EeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence            346666555443  245779999999999753  33577999976554

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

Probab=92.12  E-value=0.031  Score=57.79  Aligned_cols=50  Identities=30%  Similarity=0.662  Sum_probs=43.0

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      .+...|+||++.+.+-  .....|||.+|..|...|...+..||.|+...++
T Consensus      1151 ~~~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~d 1200 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCPICKSIKGD 1200 (1394)
T ss_pred             hcccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCcchhhhhhh
Confidence            4566899999999863  5677899999999999999999999999976654

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

Probab=91.71  E-value=0.058  Score=34.45  Aligned_cols=44  Identities=27%  Similarity=0.715  Sum_probs=25.2

Q ss_pred             ccccccccccCCCceEEccCC-CcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           36 KCPICLDNLTDRRTAVLKVCT-HAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~-H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      .|--|.-...+     +..|. |..|..|+..++..+..||+|+.++..+
T Consensus         4 nCKsCWf~~k~-----Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    4 NCKSCWFANKG-----LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             ---SS-S--SS-----EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             cChhhhhcCCC-----eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            45555443332     45675 6689999999999999999999987653

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

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

Probab=91.51  E-value=0.053  Score=53.01  Aligned_cols=48  Identities=27%  Similarity=0.715  Sum_probs=39.1

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhc---CCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN---LKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~---~~~~CPlCr~~~~~   83 (246)
                      ....|+||...+..   ++++.|.|.||..|+..-+.   ....||+|+.....
T Consensus        20 k~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   20 KILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hhccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            46789999999998   68999999999999987332   24579999976654

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

Probab=91.40  E-value=0.12  Score=33.05  Aligned_cols=40  Identities=28%  Similarity=0.848  Sum_probs=25.5

Q ss_pred             cccccccccCCCceEEccCCC-----cCCHHHHHHHhcC--CCCCCCC
Q 046606           37 CPICLDNLTDRRTAVLKVCTH-----AYCLECIEKWSNL--KRNCPLC   77 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~~~C~H-----~Fc~~Ci~~w~~~--~~~CPlC   77 (246)
                      |-||++.-.+.. +...+|.-     ..|..|+..|+..  ..+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678998766532 56777754     3599999999874  4669887

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

Probab=91.27  E-value=0.095  Score=32.92  Aligned_cols=41  Identities=22%  Similarity=0.615  Sum_probs=21.8

Q ss_pred             cccccccccCCCceEEccCCCcCCHHHHHHHhcCCC--CCCCC
Q 046606           37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR--NCPLC   77 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~--~CPlC   77 (246)
                      |.+|.+.+..+..-....|+-.+|..|+..++....  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            678888877641111125888999999999876654  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=90.03  E-value=0.1  Score=50.56  Aligned_cols=47  Identities=26%  Similarity=0.489  Sum_probs=35.0

Q ss_pred             CCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           33 RGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      +-..|+||+..|.+. ..++.+.|||+.|..|+....+  .+|| |+..-.
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp-~~~De~   57 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP-TKRDED   57 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC-CCcccc
Confidence            456799998877654 3578889999999999987543  5687 655433

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

Probab=89.72  E-value=0.2  Score=41.05  Aligned_cols=52  Identities=23%  Similarity=0.505  Sum_probs=34.7

Q ss_pred             CCCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcCC-----------CCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNLK-----------RNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~~-----------~~CPlCr~~~~~   83 (246)
                      ++--.|-||..+--++    .+.-...||..||.-|+..|+..-           ..||.|..++..
T Consensus       163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            3444566666543332    223345899999999999998641           369999887754

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

Probab=89.57  E-value=0.42  Score=43.74  Aligned_cols=52  Identities=31%  Similarity=0.685  Sum_probs=35.1

Q ss_pred             CCCCCCccccccccccCCCceEEc-----------------cC-----CCcCCHHHHHHHhcC-------------CCCC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLK-----------------VC-----THAYCLECIEKWSNL-------------KRNC   74 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~-----------------~C-----~H~Fc~~Ci~~w~~~-------------~~~C   74 (246)
                      ..++.+.|--|+..-.+   ..+.                 +|     ....|.+|+.+|+..             +..|
T Consensus       267 ~~~e~e~CigC~~~~~~---vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~C  343 (358)
T PF10272_consen  267 SGQELEPCIGCMQAQPN---VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPC  343 (358)
T ss_pred             CccccCCccccccCCCC---cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCC
Confidence            34678889999986655   2211                 22     234699999998753             2469


Q ss_pred             CCCCcccccC
Q 046606           75 PLCNAPFRSW   84 (246)
Q Consensus        75 PlCr~~~~~~   84 (246)
                      |.||+.|.-.
T Consensus       344 PtCRa~FCil  353 (358)
T PF10272_consen  344 PTCRAKFCIL  353 (358)
T ss_pred             CCCcccceee
Confidence            9999998643

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

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

Probab=88.41  E-value=0.22  Score=43.72  Aligned_cols=36  Identities=22%  Similarity=0.648  Sum_probs=28.9

Q ss_pred             CCCccccccccccCCCceEEccC----CCcCCHHHHHHHhcCC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVC----THAYCLECIEKWSNLK   71 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C----~H~Fc~~Ci~~w~~~~   71 (246)
                      ..+.|.+|.+.|+|   .-...|    .|.||+.|-.+..+.+
T Consensus       267 apLcCTLC~ERLED---THFVQCPSVp~HKFCFPCSResIK~Q  306 (352)
T KOG3579|consen  267 APLCCTLCHERLED---THFVQCPSVPSHKFCFPCSRESIKQQ  306 (352)
T ss_pred             Cceeehhhhhhhcc---CceeecCCCcccceecccCHHHHHhh
Confidence            45889999999999   444566    6899999998877643

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

Probab=88.32  E-value=0.26  Score=49.13  Aligned_cols=50  Identities=32%  Similarity=0.804  Sum_probs=36.9

Q ss_pred             CCCCccccccccccCCCceEE--ccCCCcCCHHHHHHHhcCC-------CCCCCCCcccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVL--KVCTHAYCLECIEKWSNLK-------RNCPLCNAPFR   82 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~--~~C~H~Fc~~Ci~~w~~~~-------~~CPlCr~~~~   82 (246)
                      .....|.||.+.+... .++.  ..|.|.||+.||..|....       -.||.|.....
T Consensus       189 ~~~yeCmIC~e~I~~t-~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  189 NRKYECMICTERIKRT-APVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             cCceEEEEeeeecccc-CCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            3567899999998753 1232  2589999999999997642       25999985544

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

Probab=88.00  E-value=0.23  Score=42.03  Aligned_cols=40  Identities=35%  Similarity=0.760  Sum_probs=31.3

Q ss_pred             cccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCccccc
Q 046606           37 CPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        37 C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      |-+|-..-..   +.++||.|. +|..|-..    -..||+|+.....
T Consensus       161 Cr~C~~~~~~---VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGEREAT---VLLLPCRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcCCce---EEeecccceEeccccccc----CccCCCCcChhhc
Confidence            8999887665   788999996 99999533    4569999876543

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

Probab=87.96  E-value=0.36  Score=43.17  Aligned_cols=46  Identities=26%  Similarity=0.782  Sum_probs=36.3

Q ss_pred             CCCCCccccccccccCCCceEEccC--CCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVC--THAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C--~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..+-+.||||.+.+..+    ...|  ||.-|..|-.   +....||.|+..++.
T Consensus        45 ~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             chhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCcccccccc
Confidence            34567899999999873    3456  7999999964   456789999999984

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

Probab=87.94  E-value=0.24  Score=45.85  Aligned_cols=38  Identities=18%  Similarity=0.603  Sum_probs=27.4

Q ss_pred             CCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcC
Q 046606           33 RGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNL   70 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~   70 (246)
                      ....|.||....... .......|+|.||.+|+.+....
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            467899999443332 22236789999999999987653

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

Probab=84.88  E-value=0.44  Score=47.83  Aligned_cols=35  Identities=17%  Similarity=0.388  Sum_probs=28.6

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHH
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKW   67 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w   67 (246)
                      +.++.|.+|...+... .-++.+|||.||..|+.+-
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~  849 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRH  849 (911)
T ss_pred             cCccchHHhcchhhcC-cceeeeccchHHHHHHHHH
Confidence            4688999999987654 2567799999999999873

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

Probab=83.74  E-value=0.53  Score=46.76  Aligned_cols=56  Identities=13%  Similarity=0.389  Sum_probs=40.5

Q ss_pred             CCCCCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcC------CCCCCCCCcccccCc
Q 046606           30 PAIRGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNL------KRNCPLCNAPFRSWF   85 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~------~~~CPlCr~~~~~~~   85 (246)
                      +..+...|.+|.-.+.++    ....+..|+|.||..||..|...      ...|+.|+.-|..+.
T Consensus        92 K~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs  157 (1134)
T KOG0825|consen   92 KTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS  157 (1134)
T ss_pred             ccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence            334567788888777762    12334469999999999999764      245899998888764

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.10  E-value=1  Score=38.86  Aligned_cols=33  Identities=18%  Similarity=0.192  Sum_probs=29.5

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHh
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWS   68 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~   68 (246)
                      +-+.|.+||+.+.+   |+..+=||.||.+||.+++
T Consensus        42 ~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~i   74 (303)
T KOG3039|consen   42 PFDCCSLTLQPCRD---PVITPDGYLFDREAILEYI   74 (303)
T ss_pred             CcceeeeecccccC---CccCCCCeeeeHHHHHHHH
Confidence            45678999999999   8999999999999999964

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	246
1chc_A	68	Structure Of The C3hc4 Domain By 1h-Nuclear Magneti		3e-05
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		4e-05

>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic Resonance Spectroscopy; A New Structural Class Of Zinc- Finger Length = 68

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRIN 89
          A   ++CPICL++ ++   A+   C HA+C  CI +W      CPLC  P  S  + I 
Sbjct: 2  ATVAERCPICLEDPSNYSMAL--PCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE 58

>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 141 Length = 70

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 29/43 (67%), Gaps = 4/43 (9%)
Query: 35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLC 77
          ++C IC+D     R  ++  C H++C +CI+KWS+  RNCP+C
Sbjct: 16 EECCICMDG----RADLILPCAHSFCQKCIDKWSDRHRNCPIC 54

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	246
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-16
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-10
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	5e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-09
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-09
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	5e-09
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-09
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	7e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-08
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	4e-08
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-07
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	1e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-07
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-07
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-07
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	5e-07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	5e-07
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	6e-07
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	9e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	4e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	4e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-06
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	9e-06
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-05
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-05
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	3e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	4e-05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	4e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	4e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	6e-05
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-04
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	3e-04
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	8e-04

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

 Score = 70.5 bits (173), Expect = 2e-16
 Identities = 24/70 (34%), Positives = 37/70 (52%), Gaps = 3/70 (4%)

Query: 31  AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINL 90
           A   ++CPICL++ ++   ++   C HA+C  CI +W      CPLC  P  S  + I  
Sbjct: 2   ATVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE- 58

Query: 91  SSSDFLQQQL 100
           S S+F  Q +
Sbjct: 59  SDSEFGDQLI 68

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

 Score = 55.1 bits (133), Expect = 1e-10
 Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 4/45 (8%)

Query: 33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLC 77
            ++C IC+D   D        C H++C +CI+KWS+  RNCP+C
Sbjct: 14 DEEECCICMDGRADLILP----CAHSFCQKCIDKWSDRHRNCPIC 54

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

 Score = 54.8 bits (132), Expect = 1e-10
 Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 4/52 (7%)

Query: 36 KCPICLDNLTD----RRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
           CPIC+D  ++     R  V   C H +C +C+         CP C      
Sbjct: 5  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 56

>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 = 54.8 bits (132), Expect = 2e-10
 Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 4/52 (7%)

Query: 36 KCPICLDNLTD----RRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
           CPIC+D  ++     R  V   C H +C +C+         CP C      
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

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

 Score = 54.4 bits (131), Expect = 2e-10
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
          +C ICL         V   C H +C  C++  S L + C LC    
Sbjct: 17 ECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 53.4 bits (128), Expect = 5e-10
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 37 CPICLDNLTD----RRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
          CPIC+D  ++     R  V   C H +C +C+         CP C      
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 68

>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 = 53.0 bits (127), Expect = 1e-09
 Identities = 17/71 (23%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 13 MKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR 72
          M            + +       +C IC++ L D    +   C+   C  CI +W   +R
Sbjct: 1  MGHHHHHHSHMDEQSVESIAEVFRCFICMEKLRD--ARLCPHCSKLCCFSCIRRWLTEQR 58

Query: 73 N-CPLCNAPFR 82
            CP C AP +
Sbjct: 59 AQCPHCRAPLQ 69

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

 Score = 52.1 bits (125), Expect = 2e-09
 Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 3/45 (6%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
          +C IC     +    V+  C H +C  C  +       C +C+ P
Sbjct: 17 RCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 53.9 bits (129), Expect = 2e-09
 Identities = 23/112 (20%), Positives = 49/112 (43%), Gaps = 4/112 (3%)

Query: 5   SLRKSSYHMKREKREREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECI 64
            L ++    ++ + ++E+ +S +        +C IC +   +   AV   C H++C  CI
Sbjct: 35  ELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIE---AVTLNCAHSFCSYCI 91

Query: 65  EKWSNLKRNCPLCNAPFRSWFYRINLSS-SDFLQQQLQPLIKDKTFISQSHS 115
            +W   K  CP+C    +S  Y + L +  + +   L   +K++  +     
Sbjct: 92  NEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNNLSSEVKERRIVLIRER 143

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

 Score = 50.5 bits (121), Expect = 5e-09
 Identities = 16/47 (34%), Positives = 27/47 (57%)

Query: 34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
           + C +CL++   R    +  C HA+  +C+ KW  +++ CPLCN P
Sbjct: 15 HELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMP 61

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

 Score = 51.3 bits (123), Expect = 6e-09
 Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRIN 89
          +C IC +         +  C+H YC  CI K+ + K  CP C         + N
Sbjct: 24 RCGICFEYFNIAMI--IPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNN 75

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

 Score = 50.5 bits (121), Expect = 6e-09
 Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 2/47 (4%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
          C IC   L D     +  C H +C  CI +       CP CN     
Sbjct: 18 CSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ 62

>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 = 49.6 bits (119), Expect = 7e-09
 Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 35 QKCPICLDNL-TDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
            CPICL+++ T R  A +  C H     C E+       CPLC+ P 
Sbjct: 6  SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 51.0 bits (122), Expect = 1e-08
 Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 2/61 (3%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFL 96
          C +C     D     +  C H++C  CI ++    + CP+C+         +N+ S   L
Sbjct: 18 CVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 75

Query: 97 Q 97
          Q
Sbjct: 76 Q 76

>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 = 48.2 bits (115), Expect = 4e-08
 Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 4/50 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW--SNLKRNCPLCNAPFRS 83
           C IC D +TD    V+  C ++YC ECI      + +  CP C+    S
Sbjct: 17 LCLICKDIMTD--AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 64

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 6/51 (11%)

Query: 36 KCPICLDNLTDRRTAV-LKVCTHAYCLECIEKW--SNLKRNCPLCNAPFRS 83
           C IC D +TD   AV +  C ++YC ECI      + +  CP C+    S
Sbjct: 15 LCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62

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

 Score = 46.8 bits (111), Expect = 1e-07
 Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 1/46 (2%)

Query: 37 CPICLDNLT-DRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
          C  C      +    V   C H++   C+  W      CPLC   +
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

>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 = 47.6 bits (113), Expect = 2e-07
 Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 11/79 (13%)

Query: 37  CPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRSWFYR-------I 88
           C IC++ L +    V   C H  C  C +         CP C     SW          +
Sbjct: 18  CGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 74

Query: 89  NLSSSDFLQQQLQPLIKDK 107
           N+     +Q+      K +
Sbjct: 75  NVELWTIIQKHYPRECKLR 93

>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 = 46.3 bits (110), Expect = 2e-07
 Identities = 12/44 (27%), Positives = 20/44 (45%)

Query: 34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLC 77
          G +CP+C ++     +     C H +   CI  W     +CP+C
Sbjct: 15 GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVC 58

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

 Score = 47.5 bits (112), Expect = 3e-07
 Identities = 16/70 (22%), Positives = 24/70 (34%), Gaps = 4/70 (5%)

Query: 36  KCPICLDNLTD----RRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLS 91
            CPIC+D  ++     R  V   C H +C +C+         CP C        Y     
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 68

Query: 92  SSDFLQQQLQ 101
            S  +   + 
Sbjct: 69  GSGTVSCPIC 78

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

 Score = 46.2 bits (110), Expect = 3e-07
 Identities = 12/44 (27%), Positives = 15/44 (34%)

Query: 34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLC 77
             CPIC         A    C H +   C+  W      CP+C
Sbjct: 40 EMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83

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

 Score = 45.5 bits (108), Expect = 3e-07
 Identities = 11/49 (22%), Positives = 14/49 (28%), Gaps = 4/49 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPFRS 83
          KC  C   L          C H +C  C+    S+    C  C      
Sbjct: 17 KCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVK 62

>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 = 49.0 bits (116), Expect = 5e-07
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 4/51 (7%)

Query: 35  QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPFRSW 84
           Q C IC +N  D     ++ C H  C  C+  W  +  + CP C    +  
Sbjct: 333 QLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380

>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 = 46.3 bits (110), Expect = 5e-07
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 6/57 (10%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR---NCPLCNAPFRSWFYRINL 90
          CPICL+ + +    V   C H +C  C+ K  N K+    CPLC         + + 
Sbjct: 24 CPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST 77

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

 Score = 45.1 bits (107), Expect = 6e-07
 Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 9/60 (15%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKW------SNLKRNCPLCNAPFRSWFYRINL 90
          CPICL+ L +    V   C H++C  CI         ++ K NCP+C  P+     + NL
Sbjct: 22 CPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNL 78

>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 = 46.5 bits (110), Expect = 7e-07
 Identities = 20/93 (21%), Positives = 33/93 (35%), Gaps = 14/93 (15%)

Query: 2   EASSLRKSSYHMKREKREREKFVSRVISPAIRGQK----------CPICLDNLTDRRTAV 51
           EA  L     H+ RE  + +K    V+S  + G            C  C + +      V
Sbjct: 36  EAFQLTPQQQHLIREDCQNQKLWDEVLSHLVEGPNFLKKLEQSFMCVCCQELVYQ---PV 92

Query: 52  LKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRS 83
              C H  C +C+++ +     +CP C      
Sbjct: 93  TTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ 125

>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 = 46.5 bits (110), Expect = 9e-07
 Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 37  CPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRS 83
           CPICLD L +  T   K C H +C +CI     +  + CP C     S
Sbjct: 57  CPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS 102

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 3e-06
 Identities = 42/240 (17%), Positives = 74/240 (30%), Gaps = 67/240 (27%)

Query: 5   SLRKSSYHMKREK--REREKFVSRVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAY--- 59
           S+    Y  +R++   + + F    +S   R Q            R A+L++        
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVS---RLQP-------YLKLRQALLELRPAKNVLI 155

Query: 60  ---------CLECIEKWSNLKRNCPLCNAPFRSWFYRINLS---SSDFLQQQLQPLIK-- 105
                     +  ++   + K  C +    F  W   +NL    S + + + LQ L+   
Sbjct: 156 DGVLGSGKTWV-ALDVCLSYKVQCKMDFKIF--W---LNLKNCNSPETVLEMLQKLLYQI 209

Query: 106 DKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPLPWRRSFGRPGSVLDEVVSERKLRW 165
           D  + S+S  S     R        I S +   R L   + +     VL  V        
Sbjct: 210 DPNWTSRSDHSSNIKLR--------IHSIQAELRRLLKSKPYENCLLVLLNV-------Q 254

Query: 166 RASVYNAGFQAVPLSPRRC----LGQNASGNNFVKG------RLVQRIDPWIRRELQALL 215
            A  +NA F         C      +     +F+         L          E+++LL
Sbjct: 255 NAKAWNA-FNL------SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

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

 Score = 43.0 bits (102), Expect = 4e-06
 Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 9/60 (15%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKW------SNLKRNCPLCNAPFRSWFYRINL 90
          CPICL+ LT     +   C H++C  C+            + +CP+C   ++    R N 
Sbjct: 22 CPICLELLTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNR 78

>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 = 43.6 bits (103), Expect = 4e-06
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPFRS 83
          +CPICL  L +   AV   C H +C  CI K   +    CP+ N     
Sbjct: 20 ECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 65

>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 = 43.8 bits (103), Expect = 5e-06
 Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRS 83
          C  C + +      +  VC H  C +C+++ +     +CP C      
Sbjct: 55 CICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR 99

>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 = 42.3 bits (100), Expect = 7e-06
 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 10/61 (16%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR-------NCPLCNAPFRSWFYRIN 89
          CPICL+ LT+    +   C H+ C  CI   +           +CP+C   +     + N
Sbjct: 15 CPICLELLTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQAN 71

Query: 90 L 90
           
Sbjct: 72 Q 72

>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 = 42.0 bits (99), Expect = 7e-06
 Identities = 13/47 (27%), Positives = 21/47 (44%)

Query: 34 GQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
           +KC ICL  L +        C H +   C+++W    + CP+C   
Sbjct: 14 EEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVD 60

>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 = 43.0 bits (101), Expect = 9e-06
 Identities = 15/48 (31%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPFR 82
           C IC   L D    V   C H +C  CI +    +   CP C  P  
Sbjct: 25 SCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

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

 Score = 41.2 bits (97), Expect = 1e-05
 Identities = 20/54 (37%), Positives = 23/54 (42%), Gaps = 6/54 (11%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR---NCPLCNAPFRSWFYR 87
          CPICLD L      V   C H +CL+CI +          CPLC    R    R
Sbjct: 23 CPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAIR 73

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

 Score = 40.4 bits (95), Expect = 2e-05
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 6/44 (13%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKR--NCPLC 77
          C +CL+ L +    V+  C H +C  CI + W +L+R   CP+C
Sbjct: 18 CSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 41.2 bits (97), Expect = 2e-05
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 4/50 (8%)

Query: 37 CPICLDNLTD-RRTAVLKVCTHAYCLECIEKWSNLKRN---CPLCNAPFR 82
          CPIC+++ T+ +    L  C H  C +C+EK      N   CP C+   R
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR 67

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

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
          C +C+ +   R+   +  C H +  +C++KW    R CP+C A 
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRAD 69

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

 Score = 40.7 bits (95), Expect = 2e-05
 Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 3/51 (5%)

Query: 35 QKCPICLDNLTDRRTAVLKV--CTHAYCLECIEK-WSNLKRNCPLCNAPFR 82
          Q CP C        +  L V  C H  C  C++  +     NCP C  P R
Sbjct: 4  QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>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 = 40.7 bits (95), Expect = 2e-05
 Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 4/47 (8%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKW--SNLKRNCPLCNAPF 81
          C IC   L   +    + C     L C+ K+  SN +  CP CN  +
Sbjct: 18 CNICHSLLI--QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>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} Length = 267

 Score = 43.4 bits (101), Expect = 3e-05
 Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 6/51 (11%)

Query: 36  KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW--SNLKRNCPL--CNAPFR 82
            CPI           + + C H +  + I+ +      R+CP   C+    
Sbjct: 183 TCPITCKPYEA--PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS 231

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

 Score = 42.0 bits (98), Expect = 4e-05
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRN-CPLCNAPFRS 83
          +CPICL  L +   AV   C H +C  CI K      + CP+ N     
Sbjct: 20 ECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 65

>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 = 41.6 bits (97), Expect = 4e-05
 Identities = 12/47 (25%), Positives = 16/47 (34%), Gaps = 4/47 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPF 81
           C  C + L          C H YC  C+    S+  +NC  C    
Sbjct: 33 LCSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEG 76

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

 Score = 39.1 bits (92), Expect = 4e-05
 Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 1/42 (2%)

Query: 37 CPICLDNLTDRRTA-VLKVCTHAYCLECIEKWSNLKRNCPLC 77
          C +CL  L D   A  L  C H +  EC++ W      CPLC
Sbjct: 8  CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49

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

 Score = 39.3 bits (92), Expect = 4e-05
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 6/46 (13%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR 82
          C  C           L  C H  C  C+E        CP+C AP+ 
Sbjct: 9  CQQCQAEAKC---PKLLPCLHTLCSGCLEA---SGMQCPICQAPWP 48

>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 = 41.0 bits (95), Expect = 4e-05
 Identities = 13/67 (19%), Positives = 20/67 (29%), Gaps = 20/67 (29%)

Query: 35 QKCPICLDNLT---------------DRRTAVLKVCTHAYCLECIEKWSNLKRN-----C 74
          + C IC++ L                      L  C+HA+ L C+              C
Sbjct: 26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQC 85

Query: 75 PLCNAPF 81
          P C   +
Sbjct: 86 PSCKTIY 92

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

 Score = 39.3 bits (91), Expect = 6e-05
 Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 2/50 (4%)

Query: 34 GQKCPICLDNLTDRRTAVLKV-CTHAYCLECIEKW-SNLKRNCPLCNAPF 81
            +CP+C++ L           C +  C  C  +  ++    CP C  P+
Sbjct: 11 PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 60

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

 Score = 39.4 bits (91), Expect = 1e-04
 Identities = 13/56 (23%), Positives = 22/56 (39%)

Query: 26 RVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
          R     +  +         ++  T    VC HA+   CI +W   ++ CPL N  +
Sbjct: 44 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW 99

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

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 18/44 (40%), Positives = 21/44 (47%), Gaps = 6/44 (13%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEK-WSNLKR--NCPLC 77
          CPICLD L      V   C H +CL+CI +          CPLC
Sbjct: 23 CPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 39.1 bits (90), Expect = 2e-04
 Identities = 13/56 (23%), Positives = 22/56 (39%)

Query: 26  RVISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPF 81
           R     +  +         ++  T    VC HA+   CI +W   ++ CPL N  +
Sbjct: 55  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW 110

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

 Score = 40.1 bits (93), Expect = 3e-04
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 35  QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKW--SNLKRNCPLCNAPF 81
           + C IC   L   +    + C     L C+ K+  SN +  CP CN  +
Sbjct: 181 KICNICHSLLI--QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

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

 Score = 39.1 bits (90), Expect = 8e-04
 Identities = 13/61 (21%), Positives = 15/61 (24%), Gaps = 16/61 (26%)

Query: 37  CPICLDNLTDRRTAVLKV-----CTHAYCLECIEKW-----------SNLKRNCPLCNAP 80
           C IC     D     L       C       C+E+W                 CP C A 
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370

Query: 81  F 81
            
Sbjct: 371 L 371

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	246
3pg6_A	159	E3 ubiquitin-protein ligase DTX3L; DNA-damage, met	99.71
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.43
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.4
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.38
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.38
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.37
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.35
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.35
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.34
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.34
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.33
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.33
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.33
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.33
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.32
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.32
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.32
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	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	99.32
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.32
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.31
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.31
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.3
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.3
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.29
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.29
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.29
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.29
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.27
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.27
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.27
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.26
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.26
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.24
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.22
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.22
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.21
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.21
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.2
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.19
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.18
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.16
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.16
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.16
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.14
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.12
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.11
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.08
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.05
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.05
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.99
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.99
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.97
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.96
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.95
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.91
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.9
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.89
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.87
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.86
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.79
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.75
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.74
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.7
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.61
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.58
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.49
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.3
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.04
3nw0_A	238	Non-structural maintenance of chromosomes element	97.26
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.63
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.35
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	93.38
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	92.62
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	88.86
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	88.71
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	88.06
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	87.96

>3pg6_A E3 ubiquitin-protein ligase DTX3L; DNA-damage, metal-binding, nucleus, phosphorylation, chromatin regulator, UBL conjugation pathway, zinc-finger; HET: CIT; 1.70A {Homo sapiens}

Probab=99.71  E-value=3.9e-19  Score=139.19  Aligned_cols=105  Identities=13%  Similarity=0.057  Sum_probs=75.3

Q ss_pred             CCCCCCCcccccCcccccCCc----hhhhhhhhcCCCCCCcccccCCCCCCCCceeeecccccccCCCCCCCCCCCcccc
Q 046606           72 RNCPLCNAPFRSWFYRINLSS----SDFLQQQLQPLIKDKTFISQSHSSPRTPHRIIRRSRDEISSDRGRSRPLPWRRSF  147 (246)
Q Consensus        72 ~~CPlCr~~~~~~~~~~~~~~----~~~~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~q~~~~p~p~~r~~  147 (246)
                      ..-|+|+..++.+.  .+++.    .......||++++.++|.|.| ++           .+|+   |+++|||||++|.
T Consensus        13 ~~~~~C~~~yG~~~--GnQP~G~M~~~~~~~sLpGy~~~gtI~I~Y-~i-----------p~Gi---Qg~~HPnPGk~y~   75 (159)
T 3pg6_A           13 GLVPRGSTSYGIQK--GNQPEGSMVFTVSRDSLPGYESFGTIVITY-SM-----------KAGI---QTEEHPNPGKRYP   75 (159)
T ss_dssp             ------------CC--CCCCSEEEEEEEESSCCTTCTTSEEEEEEE-EE-----------CCEE---CCTTSSSTTCEEC
T ss_pred             CcccccCccCcccc--cCCCCCeEEEEecCCCCCCCCCCCeEEEEE-Ec-----------CCcc---ccCcCCCCCCccC
Confidence            45799999998753  33222    233455678888777777777 44           4677   9999999999998


Q ss_pred             CC--CCCCCchhhHHHHHHHHHHHHhcCCEEEeCCCCCc-ccccCCCCC
Q 046606          148 GR--PGSVLDEVVSERKLRWRASVYNAGFQAVPLSPRRC-LGQNASGNN  193 (246)
Q Consensus       148 ~~--~~~lp~~~~~~~~l~~Rr~vY~~~L~~~~~~s~~~-~~~~i~~~~  193 (246)
                      |.  .+||||+.+|++||++++.||+++|+|+++.|.|+ ..|+|+||.
T Consensus        76 G~~R~AYLPdn~eGr~VL~LL~~AF~~rLiFTVG~S~TtG~~d~V~WN~  124 (159)
T 3pg6_A           76 GIQRTAYLPDNKEGRKVLKLLYRAFDQKLIFTVGYSRVLGVSDVITWND  124 (159)
T ss_dssp             CEEEEEEEEESHHHHHHHHHHHHHHHTTCSEEEEEETTTTEEEEEEECS
T ss_pred             CCCeEEECCCCHHHHHHHHHHHHHHHcCCEEEEeccccCCCCCEEEECC
Confidence            86  57999999999999999999999999999999976 788999985

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

Probab=99.43  E-value=1.3e-13  Score=97.33  Aligned_cols=67  Identities=19%  Similarity=0.324  Sum_probs=56.6

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCcccccCCchhhhhhhh
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~~~~~~~~~~~~~~~l  100 (246)
                      ..+++.|+||++.+.+   +++++|||.||..||..|+.. ...||+|++.+......++..+.+++...+
T Consensus         5 ~~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~~~~   72 (78)
T 1t1h_A            5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWC   72 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHH
T ss_pred             CcccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHHHHH
Confidence            4578999999999999   888999999999999999986 678999999998766666766666666554

>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=99.40  E-value=1e-13  Score=106.67  Aligned_cols=71  Identities=18%  Similarity=0.446  Sum_probs=59.6

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC-CCCCCCCccccc-CcccccCCchhhhhhhhcCCCC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRS-WFYRINLSSSDFLQQQLQPLIK  105 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~~~-~~~~~~~~~~~~~~~~lp~~~~  105 (246)
                      .+++.|+||++.+.+   ++.++|||.||..||..|+... ..||+|++.+.. ..+.++..+.+++...+|.+..
T Consensus        50 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~~~~  122 (124)
T 3fl2_A           50 EETFQCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPGYGN  122 (124)
T ss_dssp             HHHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTTTTT
T ss_pred             ccCCCCCcCChHHcC---cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHcccccc
Confidence            457889999999998   8889999999999999998754 489999999987 5566776777888888887653

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

Probab=99.38  E-value=3.8e-13  Score=93.59  Aligned_cols=54  Identities=30%  Similarity=0.545  Sum_probs=46.6

Q ss_pred             CCCCCCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      ....+++.|+||++.+.+   ++.+ +|+|.||..||..|++....||+|++.+....
T Consensus        10 ~~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A           10 SELTPYILCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSS---CEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             hhcCCCCCCCCCChHHHC---cCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            344578899999999998   5665 99999999999999988899999999987644

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

Probab=99.38  E-value=1.4e-13  Score=97.25  Aligned_cols=61  Identities=28%  Similarity=0.597  Sum_probs=49.5

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-------CCCCCCCCcccccCcccccCCc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-------KRNCPLCNAPFRSWFYRINLSS   92 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-------~~~CPlCr~~~~~~~~~~~~~~   92 (246)
                      ....+++.|+||++.+.+   ++.++|||.||..||..|+..       ...||+|+..+....+..+..+
T Consensus         7 ~~~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l   74 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTE---PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHL   74 (79)
T ss_dssp             CCCCCCCEETTTTEECSS---CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSS
T ss_pred             hhcccCCCCcCCCcccCC---eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHH
Confidence            344578999999999998   677899999999999999876       5679999999876544444433

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

Probab=99.37  E-value=4.2e-13  Score=95.70  Aligned_cols=61  Identities=33%  Similarity=0.678  Sum_probs=49.7

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC------CCCCCCCCcccccCcccccCCc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL------KRNCPLCNAPFRSWFYRINLSS   92 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~------~~~CPlCr~~~~~~~~~~~~~~   92 (246)
                      ....+++.|+||++.+.+   +++++|+|.||..||..|+..      ...||+|+..+....+..+..+
T Consensus        14 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l   80 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKE---PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHV   80 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSS---CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCC
T ss_pred             HhCccCCCCcCCChhhCc---ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHH
Confidence            334578899999999998   778999999999999999876      6689999999876554455433

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

Probab=99.35  E-value=5.6e-13  Score=94.03  Aligned_cols=56  Identities=21%  Similarity=0.583  Sum_probs=48.1

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFY   86 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~   86 (246)
                      ..++..|+||++.+.++...+.++|+|.||..||..|++....||+|++.+.....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT   67 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCSCS
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCccc
Confidence            34678999999999876556778999999999999999988999999999876543

>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=99.35  E-value=1.3e-12  Score=98.81  Aligned_cols=52  Identities=25%  Similarity=0.591  Sum_probs=42.8

Q ss_pred             CCCccccccccccCCC---------------ceEEccCCCcCCHHHHHHHh-----cCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRR---------------TAVLKVCTHAYCLECIEKWS-----NLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~---------------~~~~~~C~H~Fc~~Ci~~w~-----~~~~~CPlCr~~~~~~   84 (246)
                      +++.|+||++.|.++.               +..+++|+|.||..||..|+     .....||+||+.+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            5679999999996631               23478999999999999999     4567899999998764

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

Probab=99.34  E-value=7.3e-13  Score=92.48  Aligned_cols=55  Identities=29%  Similarity=0.754  Sum_probs=47.3

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ...++..|+||++.+.++.....++|+|.||..||..|++....||+|++.+...
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            3456889999999998765566779999999999999999888999999988754

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

Probab=99.34  E-value=7.2e-13  Score=87.09  Aligned_cols=51  Identities=31%  Similarity=0.796  Sum_probs=44.1

Q ss_pred             CCCCccccccccccCCCceEEcc-CCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKV-CTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~-C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      +++..|+||++.+.+.+.++.++ |+|.||..||..|++.+..||+|++.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            46788999999998765566666 9999999999999999999999998763

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

Probab=99.33  E-value=5.8e-13  Score=92.40  Aligned_cols=50  Identities=28%  Similarity=0.700  Sum_probs=45.4

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..+++.|+||++.+.+   ++.++|+|.||..||..|+.....||+|++.+..
T Consensus        12 ~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            3467899999999998   7888999999999999999988999999998864

>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=99.33  E-value=4.8e-13  Score=99.18  Aligned_cols=62  Identities=27%  Similarity=0.632  Sum_probs=50.8

Q ss_pred             CCCCccccccccccCCCceEE-ccCCCcCCHHHHHHHhcCC-CCCCCCCcccccCcccccCCchhhh
Q 046606           32 IRGQKCPICLDNLTDRRTAVL-KVCTHAYCLECIEKWSNLK-RNCPLCNAPFRSWFYRINLSSSDFL   96 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~-~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~~~~~~~~~~~~~~~~   96 (246)
                      .+++.|+||++.+.+   ++. ++|||.||..||..|+... ..||+|+..+....+..+....++.
T Consensus        20 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~   83 (100)
T 3lrq_A           20 AEVFRCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVT   83 (100)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHH
T ss_pred             CCCCCCccCCccccC---ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHH
Confidence            357889999999998   788 9999999999999999877 6899999999765555554444443

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

Probab=99.33  E-value=1e-12  Score=89.76  Aligned_cols=53  Identities=19%  Similarity=0.413  Sum_probs=45.1

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc-CCCCCCCCCcccccC
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRSW   84 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~~   84 (246)
                      ....+++.|+||++.+.+   ++.++|||.||..||..|+. ....||+|++.+...
T Consensus        10 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           10 KTVEDKYKCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CSCCCCEECTTTCCEESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             hcCCcCCCCCCCChHhcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            344678999999999998   67789999999999999994 567899999988653

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

Probab=99.33  E-value=1.5e-12  Score=90.56  Aligned_cols=53  Identities=36%  Similarity=0.739  Sum_probs=45.5

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc---CCCCCCCCCcccccC
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN---LKRNCPLCNAPFRSW   84 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~---~~~~CPlCr~~~~~~   84 (246)
                      ....+++.|+||++.+.+   ++.++|||.||..||..|++   ....||+|++.+...
T Consensus        15 ~~~~~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             HhCccCCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            344678899999999998   78889999999999999996   456899999988653

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

Probab=99.32  E-value=6.3e-13  Score=94.75  Aligned_cols=60  Identities=27%  Similarity=0.627  Sum_probs=49.1

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC------CCCCCCCCcccccCcccccCC
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL------KRNCPLCNAPFRSWFYRINLS   91 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~------~~~CPlCr~~~~~~~~~~~~~   91 (246)
                      ....+++.|+||++.+.+   ++.++|||.||..|+..|+..      ...||+|+..+....+..+..
T Consensus        14 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQ---PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRH   79 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSS---CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCC
T ss_pred             HHccCCCCCCCCCcccCC---ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHH
Confidence            344578899999999998   677899999999999999876      678999999988654444433

>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=99.32  E-value=6.7e-13  Score=99.60  Aligned_cols=67  Identities=21%  Similarity=0.515  Sum_probs=52.8

Q ss_pred             CCCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcCCCCCCCCCcccccC----cccccCCchhhhhhhhc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNLKRNCPLCNAPFRSW----FYRINLSSSDFLQQQLQ  101 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~----~~~~~~~~~~~~~~~lp  101 (246)
                      .+++.|+||++.+.+   ++.+ +|||.||..||..|+.....||+|+..+...    .+..+....+++...++
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~   84 (108)
T 2ckl_A           13 NPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVP   84 (108)
T ss_dssp             GGGTBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHST
T ss_pred             CCcCCCccCChHHhC---cCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHhh
Confidence            468899999999998   6776 9999999999999999889999999998764    23344444455544444

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

Probab=99.32  E-value=4.6e-13  Score=92.56  Aligned_cols=55  Identities=25%  Similarity=0.637  Sum_probs=46.8

Q ss_pred             CCCCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           31 AIRGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      .+++..|+||++.+.++    ...+.++|||.||..||..|++....||+|++.+....
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   65 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCS
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhh
Confidence            35688999999998772    23388999999999999999998899999999987543

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

Probab=99.32  E-value=8.2e-13  Score=96.12  Aligned_cols=67  Identities=28%  Similarity=0.421  Sum_probs=51.1

Q ss_pred             CCCCCCccccccccccCCCceEEcc-CCCcCCHHHHHHHhcC--CCCCCCCCcccc-cCcccccCCchhhhhhh
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKV-CTHAYCLECIEKWSNL--KRNCPLCNAPFR-SWFYRINLSSSDFLQQQ   99 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~-C~H~Fc~~Ci~~w~~~--~~~CPlCr~~~~-~~~~~~~~~~~~~~~~~   99 (246)
                      ...+++.|+||++.+.+   +++++ |||.||..||..|+..  ...||+|++.+. .....++....+++...
T Consensus         9 ~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~   79 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNF   79 (92)
T ss_dssp             CCCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHH
T ss_pred             cCCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHH
Confidence            34578999999999998   78888 9999999999999854  368999999973 33444554444444443

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

Probab=99.32  E-value=4.5e-13  Score=91.94  Aligned_cols=51  Identities=35%  Similarity=0.974  Sum_probs=45.5

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      +++..|+||++.+.++  ++.++|||.||..|+..|++....||+|++.+...
T Consensus         3 ~~~~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            3 TVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCE
T ss_pred             CCCCCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhh
Confidence            4578899999999884  58899999999999999999889999999998754

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

Probab=99.32  E-value=1.6e-12  Score=92.42  Aligned_cols=49  Identities=22%  Similarity=0.581  Sum_probs=44.9

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      ..+++.|+||++.+.+   +++++|||.||..||..|++....||+|++.+.
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3467889999999998   788999999999999999988889999999986

>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=99.32  E-value=1.3e-12  Score=90.02  Aligned_cols=55  Identities=24%  Similarity=0.645  Sum_probs=46.9

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ...++..|+||++.+.+...++.++|+|.||..||..|++....||+|++.+...
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            3456788999999997554578899999999999999999888999999988653

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

Probab=99.31  E-value=5.5e-13  Score=91.50  Aligned_cols=53  Identities=26%  Similarity=0.703  Sum_probs=45.1

Q ss_pred             CCCCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..++..|+||++.+.++    ..+++++|+|.||..||..|++....||+|++.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            35688999999998862    223889999999999999999988999999998753

>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=99.31  E-value=7.6e-13  Score=105.31  Aligned_cols=69  Identities=17%  Similarity=0.363  Sum_probs=57.9

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC-CCCCCCCcccccC-cccccCCchhhhhhhhcCCC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRSW-FYRINLSSSDFLQQQLQPLI  104 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~~~~-~~~~~~~~~~~~~~~lp~~~  104 (246)
                      +++.|+||++.+.+   ++.++|||.||..||..|+... ..||+|+..+... .+..+..+.+++...+|.+.
T Consensus        77 ~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p~~~  147 (150)
T 1z6u_A           77 QSFMCVCCQELVYQ---PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFPGYS  147 (150)
T ss_dssp             HHTBCTTTSSBCSS---EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHSTTTT
T ss_pred             cCCEeecCChhhcC---CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhhHhh
Confidence            56789999999999   8889999999999999998865 4799999999876 56667667777777776554

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

Probab=99.30  E-value=6e-13  Score=93.30  Aligned_cols=53  Identities=25%  Similarity=0.726  Sum_probs=46.4

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..++..|+||++.+.++...+.++|+|.||..||..|++....||+|++.+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            45678899999999886556778999999999999999988999999998764

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

Probab=99.30  E-value=1.6e-12  Score=95.91  Aligned_cols=62  Identities=26%  Similarity=0.590  Sum_probs=50.7

Q ss_pred             CCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhh
Q 046606           33 RGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQ   97 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~   97 (246)
                      +++.|+||++.+.+   ++.+ +|||.||..||..|+.....||+|+..+.......+....+++.
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i~   83 (99)
T 2y43_A           21 DLLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVK   83 (99)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             CCCCcccCChhhCC---cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHHH
Confidence            57889999999998   6766 89999999999999998899999999998655555544444443

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

Probab=99.29  E-value=1.2e-12  Score=94.23  Aligned_cols=67  Identities=12%  Similarity=-0.053  Sum_probs=55.2

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhhhh
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQ   99 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~~~   99 (246)
                      ...+++.||||++.+.+   |++++|||+||..||..|+.....||.|++.+....+.+|..+.+.+...
T Consensus        10 ~~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i~~~   76 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTD---PVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQIQAW   76 (85)
T ss_dssp             TCCTTTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHHH
T ss_pred             cCchheECcccCchhcC---CeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHHHHH
Confidence            34578999999999999   89999999999999999998788999999999876656665555444443

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

Probab=99.29  E-value=1.4e-12  Score=91.35  Aligned_cols=52  Identities=37%  Similarity=0.644  Sum_probs=44.2

Q ss_pred             CCCCCCCccccccccccCCCceEEcc-CCCcCCHHHHHHHhcCC--CCCCCCCccccc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKV-CTHAYCLECIEKWSNLK--RNCPLCNAPFRS   83 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~-C~H~Fc~~Ci~~w~~~~--~~CPlCr~~~~~   83 (246)
                      ....+++.|+||++.+.+   ++.++ |||.||..||..|+...  ..||+|++.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A           10 DPIPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CCSCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             ccCCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            344578899999999998   78888 99999999999998754  689999997543

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

Probab=99.29  E-value=4e-12  Score=92.55  Aligned_cols=53  Identities=25%  Similarity=0.619  Sum_probs=46.3

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..++..|+||++.+.+...++.++|+|.||..||..|++....||+|++.+..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            34678899999999876557778999999999999999999999999998754

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

Probab=99.29  E-value=1e-12  Score=102.94  Aligned_cols=49  Identities=33%  Similarity=0.843  Sum_probs=45.0

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      +++.|+||++.+.+   +++++|||.||..||..|+.....||+|++.+...
T Consensus        52 ~~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            56789999999998   88999999999999999999999999999998754

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

Probab=99.27  E-value=3.7e-12  Score=86.09  Aligned_cols=46  Identities=39%  Similarity=0.829  Sum_probs=40.2

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc---CCCCCCCC
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN---LKRNCPLC   77 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~---~~~~CPlC   77 (246)
                      ....+++.|+||++.+.+   ++.++|||.||..||..|++   ....||+|
T Consensus        15 ~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSS---CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCC---eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            445678999999999998   78889999999999999987   45689998

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.27  E-value=3e-12  Score=95.04  Aligned_cols=69  Identities=12%  Similarity=-0.023  Sum_probs=57.5

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhhhhhc
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQ  101 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp  101 (246)
                      ...+++.||||++.+.+   |++++|||+||..||..|+.....||.|+..+....+.+|..+...+...+.
T Consensus        25 ~~p~~~~CpI~~~~m~d---PV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~~   93 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTD---PVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQAWMR   93 (100)
T ss_dssp             SCSTTTBCTTTCSBCSS---EEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHHHHH
T ss_pred             cCcHhhCCcCccCcccC---CeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHHHHH
Confidence            34578999999999999   8999999999999999999888899999999987666666555555555543

>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=99.27  E-value=2.2e-12  Score=84.65  Aligned_cols=51  Identities=29%  Similarity=0.647  Sum_probs=44.0

Q ss_pred             CCCCccccccccccCC-CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           32 IRGQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      .++..|+||++.+.+. ..++.++|+|.||..||..|+.....||+|++.+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4578899999998653 34788899999999999999998899999998764

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

Probab=99.26  E-value=3.5e-12  Score=94.31  Aligned_cols=68  Identities=18%  Similarity=0.083  Sum_probs=57.3

Q ss_pred             CCCCCCccccccccccCCCceEEccCC-CcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhhhhh
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCT-HAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~-H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~~~l  100 (246)
                      ...+++.||||++.|.+   |++++|| |+||..||..|+.....||+|++.+....+.+|..+.+.+...+
T Consensus        18 ~~p~~~~CpI~~~~m~d---PV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~   86 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWL   86 (98)
T ss_dssp             SCCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHH
T ss_pred             cCcHhcCCcCccccccC---CeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHHHHH
Confidence            34578999999999999   8999999 99999999999988889999999998766666656666665554

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

Probab=99.26  E-value=1.3e-12  Score=88.26  Aligned_cols=53  Identities=26%  Similarity=0.658  Sum_probs=45.1

Q ss_pred             CCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           33 RGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      ++..|+||++.+.++    ..++.++|||.||..|+..|++.+..||+|++.+....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            577899999998762    22488899999999999999998889999999987543

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

Probab=99.24  E-value=2.1e-12  Score=96.91  Aligned_cols=52  Identities=33%  Similarity=0.773  Sum_probs=44.4

Q ss_pred             CCCCCccccccccccCCC---------------ceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccc
Q 046606           31 AIRGQKCPICLDNLTDRR---------------TAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR   82 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~---------------~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~   82 (246)
                      +.+++.|+||++.|.+..               ..++++|+|.||..||..|+..+..||+|++.+.
T Consensus        34 d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           34 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            446889999999998641               2466799999999999999999999999999875

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

Probab=99.22  E-value=6.6e-12  Score=89.49  Aligned_cols=52  Identities=25%  Similarity=0.692  Sum_probs=43.2

Q ss_pred             CCCCccccccccccCC-----------C-ceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDR-----------R-TAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~-----------~-~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      .+++.|+||++.|.+.           + ..++.+|+|.||..||.+|++.+.+||+||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            4678899999999652           2 34555799999999999999999999999998764

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

Probab=99.22  E-value=5.1e-12  Score=94.97  Aligned_cols=65  Identities=29%  Similarity=0.644  Sum_probs=51.9

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC---CCCCCCCcccccCcccccCCchhhhhhhh
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK---RNCPLCNAPFRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~~~~~~~~~~~~~~~~~~~~~l  100 (246)
                      +...|+||++.+.+   ++.++|||.||..||..|+...   ..||+|+..+.......+.....++...+
T Consensus        20 ~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~~~~~~   87 (112)
T 1jm7_A           20 KILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELL   87 (112)
T ss_dssp             HHTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHHH
T ss_pred             CCCCCcccChhhcC---eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccHHHHHHHHHHH
Confidence            46789999999998   6778999999999999998764   48999999998766555655555544443

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

Probab=99.21  E-value=8.9e-12  Score=82.56  Aligned_cols=45  Identities=31%  Similarity=0.898  Sum_probs=38.6

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhc---CCCCCCCC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN---LKRNCPLC   77 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~---~~~~CPlC   77 (246)
                      ...++..|+||++.+.+   ++.++|+|.||..||..|+.   ....||+|
T Consensus        11 ~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKE---PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSS---CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCc---cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            34568899999999998   67789999999999999954   45789998

>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=99.21  E-value=1.2e-12  Score=99.32  Aligned_cols=50  Identities=26%  Similarity=0.674  Sum_probs=44.1

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~   83 (246)
                      ..+++.|+||++.+.+   ++.++|||.||..||..|+.. ...||+|++.+..
T Consensus        12 ~~~~~~C~iC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           12 SLSECQCGICMEILVE---PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CHHHHBCTTTCSBCSS---CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCCccCCcccCc---eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            3467889999999998   788899999999999999876 5689999999864

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

Probab=99.20  E-value=8.6e-12  Score=84.87  Aligned_cols=55  Identities=29%  Similarity=0.701  Sum_probs=43.5

Q ss_pred             CCCccccccc-cccCCC-ceEEccCCCcCCHHHHHHHhc-CCCCCCCCCcccccCccc
Q 046606           33 RGQKCPICLD-NLTDRR-TAVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRSWFYR   87 (246)
Q Consensus        33 ~~~~C~ICl~-~~~~~~-~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~~~~~   87 (246)
                      ++..|+||++ .+.++. ..++++|||.||..||..|+. ....||+|++.+....+.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   59 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFR   59 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCE
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccce
Confidence            5788999999 888742 125789999999999999954 456799999998765443

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

Probab=99.19  E-value=1.5e-11  Score=88.35  Aligned_cols=54  Identities=30%  Similarity=0.707  Sum_probs=45.5

Q ss_pred             CCCCCCccccccccccCCC-ceEEccCCCcCCHHHHHHHhcCC---CCCCCCCccccc
Q 046606           30 PAIRGQKCPICLDNLTDRR-TAVLKVCTHAYCLECIEKWSNLK---RNCPLCNAPFRS   83 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~-~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~~~~~   83 (246)
                      ...++..|+||++.+.+.. .++.++|||.||..||..|++..   ..||+|++.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3456889999999998743 27888999999999999998765   789999998764

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

Probab=99.18  E-value=6.6e-12  Score=86.59  Aligned_cols=51  Identities=35%  Similarity=0.968  Sum_probs=44.7

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ...++..|+||++.+.+    +.++|+|.||..||..|+.....||+|++.+...
T Consensus        11 ~~~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGA   61 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCC
T ss_pred             cCCCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCCCcCCcccCC
Confidence            34568899999999876    6789999999999999999889999999988753

>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=99.16  E-value=7.7e-12  Score=95.32  Aligned_cols=57  Identities=32%  Similarity=0.542  Sum_probs=48.5

Q ss_pred             ccCCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCC-CCCCCCcccccCcc
Q 046606           27 VISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR-NCPLCNAPFRSWFY   86 (246)
Q Consensus        27 ~~~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~-~CPlCr~~~~~~~~   86 (246)
                      ......+++.|+||++.+.+   ++.++|||.||..||..|+.... .||+|+..+.....
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   68 (118)
T 3hct_A           11 FDPPLESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQL   68 (118)
T ss_dssp             BSSCCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGC
T ss_pred             hccCCCCCCCCCcCChhhcC---eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhc
Confidence            44556678999999999998   78899999999999999987654 89999999876443

>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=99.16  E-value=6.7e-12  Score=101.07  Aligned_cols=67  Identities=25%  Similarity=0.576  Sum_probs=50.8

Q ss_pred             CCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcC-CCCCCCCCcccccC-cccccCCchhhhhhhhcC
Q 046606           33 RGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNL-KRNCPLCNAPFRSW-FYRINLSSSDFLQQQLQP  102 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~-~~~~~~~~~~~~~~~lp~  102 (246)
                      +++.|+||++.+.+   ++.+ +|||.||..||..|+.. ...||+|+..+... .+.++....+++....+.
T Consensus        53 ~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~~  122 (165)
T 2ckl_B           53 SELMCPICLDMLKN---TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPS  122 (165)
T ss_dssp             HHHBCTTTSSBCSS---EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC--
T ss_pred             CCCCCcccChHhhC---cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHcc
Confidence            46689999999998   6665 99999999999999987 67899999998643 344554555555555443

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

Probab=99.16  E-value=4.3e-12  Score=99.92  Aligned_cols=51  Identities=22%  Similarity=0.416  Sum_probs=44.2

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCC-CCCCCCcccc
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKR-NCPLCNAPFR   82 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~-~CPlCr~~~~   82 (246)
                      ...++++.|+||++.+.+   ++.++|||.||..||..|+.... .||+|+..+.
T Consensus        26 ~~l~~~~~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             ccCCcCcCCCCCChhhcC---cEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            344678999999999999   88899999999999999987654 8999998753

>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=99.14  E-value=8.5e-12  Score=94.92  Aligned_cols=60  Identities=25%  Similarity=0.599  Sum_probs=48.9

Q ss_pred             CCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhh
Q 046606           33 RGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQ   97 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~   97 (246)
                      +++.|+||++.+.+   ++.+ +|||.||..||..|+.  ..||+|+..+....+..+....+++.
T Consensus        21 ~~~~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~n~~l~~l~~   81 (117)
T 1jm7_B           21 KLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQLDSMIQ   81 (117)
T ss_dssp             HTTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHHHHHHH
T ss_pred             hCCCCCCCChHhhC---ccEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCccccccccHHHHHHHH
Confidence            57889999999998   6777 9999999999999987  78999999986655555544444444

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

Probab=99.12  E-value=2.2e-11  Score=93.68  Aligned_cols=54  Identities=26%  Similarity=0.647  Sum_probs=46.5

Q ss_pred             CCCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           32 IRGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      .+++.|+||++.+.++    ..++.++|||.||..||.+|++.+..||+|++.+....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc
Confidence            4678999999999872    22389999999999999999999999999999987654

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.11  E-value=3.4e-11  Score=88.18  Aligned_cols=68  Identities=19%  Similarity=0.383  Sum_probs=53.3

Q ss_pred             CCCCCccccccccccCCCceEEcc-CCCcCCHHHHHHHhcCC------CCCCC--CCcc-cccCcccccCCchhhhhhhh
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKV-CTHAYCLECIEKWSNLK------RNCPL--CNAP-FRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~-C~H~Fc~~Ci~~w~~~~------~~CPl--Cr~~-~~~~~~~~~~~~~~~~~~~l  100 (246)
                      ..+++.||||++.|.+   |+.++ |||+||..||..|+...      ..||+  |+.. +....+.+|..+...+....
T Consensus         4 ~~~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~   80 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHN   80 (94)
T ss_dssp             CSSCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHH
T ss_pred             CCcEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHH
Confidence            3578999999999999   88885 99999999999998643      58999  9877 66555666656666665554


Q ss_pred             c
Q 046606          101 Q  101 (246)
Q Consensus       101 p  101 (246)
                      .
T Consensus        81 ~   81 (94)
T 2yu4_A           81 K   81 (94)
T ss_dssp             T
T ss_pred             H
Confidence            3

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

Probab=99.08  E-value=8.1e-11  Score=83.31  Aligned_cols=54  Identities=20%  Similarity=0.519  Sum_probs=41.4

Q ss_pred             CCCCCCccccccccccCCCceEEc--cCCCcCCHHHHHHHh-cCCCCCCCCCcccccC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLK--VCTHAYCLECIEKWS-NLKRNCPLCNAPFRSW   84 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~--~C~H~Fc~~Ci~~w~-~~~~~CPlCr~~~~~~   84 (246)
                      ...++..||||++.+.... +...  +|||.||..|+..++ .....||.||+.+...
T Consensus         7 ~~~~~~~CpICle~~~~~d-~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~   63 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED   63 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTT-TTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSC
T ss_pred             ccccCCcCCccCccCcccc-ccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCC
Confidence            3457889999999885321 2333  499999999999965 4467899999999764

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

Probab=99.06  E-value=5.3e-11  Score=90.23  Aligned_cols=51  Identities=29%  Similarity=0.642  Sum_probs=45.0

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWF   85 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~   85 (246)
                      .+++.|+||++.+.+   ++.++|||.||..||..|+.. ...||+|+..+....
T Consensus        21 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           21 VKSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCCCCCCCCCcHhcC---cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            357889999999998   788999999999999999876 678999999987643

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

Probab=99.05  E-value=6.2e-11  Score=102.24  Aligned_cols=69  Identities=12%  Similarity=0.081  Sum_probs=57.0

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCcccccCCchhhhhhhhc
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWFYRINLSSSDFLQQQLQ  101 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp  101 (246)
                      ...+.+.||||++.+.+   |++++|||+||..||..|+.. ...||+|+.++......+|..+...+...+.
T Consensus       204 ~~~~~~~c~i~~~~~~d---Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~~~~  273 (281)
T 2c2l_A          204 DIPDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFIS  273 (281)
T ss_dssp             CCCSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHHT
T ss_pred             CCCcccCCcCcCCHhcC---CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHHHHH
Confidence            34568999999999999   899999999999999999875 4459999999987666677666666666664

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

Probab=99.05  E-value=1.4e-11  Score=93.81  Aligned_cols=55  Identities=31%  Similarity=0.690  Sum_probs=3.3

Q ss_pred             CCCCCCCccccccccccCCC---------------ceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           29 SPAIRGQKCPICLDNLTDRR---------------TAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~---------------~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..+.+++.|+||++.|.++.               ..+.++|+|.||..||..|+..+..||+|++.+..
T Consensus        43 ~wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           43 AWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             EECCCC----------------------------------------------------------------
T ss_pred             eecCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            34456789999999997631               12345899999999999999999999999998753

>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=98.99  E-value=1.6e-10  Score=78.64  Aligned_cols=49  Identities=22%  Similarity=0.602  Sum_probs=43.3

Q ss_pred             CCCCccccccccccCCCceEEc--cCCCc-CCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLK--VCTHA-YCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~--~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      .++..|+||++...+   ++.+  +|||. ||..|+..|.+....||+||+.+..
T Consensus         6 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            6 NAIEPCVICQGRPKN---GCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGGSCCTTTSSSCSC---EEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CCcCCCCcCCCCCCC---EEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            467789999999988   6766  99999 8999999999888899999998864

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

Probab=98.99  E-value=8.5e-11  Score=77.76  Aligned_cols=46  Identities=28%  Similarity=0.688  Sum_probs=39.9

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      .+++.|+||++.+.+   ++.++|||.||..|+..|   ...||+|++.+..
T Consensus         4 ~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCC---eEEcCCCCcccHHHHccC---CCCCCcCCcEeec
Confidence            467889999999998   788999999999998773   5689999998764

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

Probab=98.97  E-value=1.4e-10  Score=81.06  Aligned_cols=45  Identities=29%  Similarity=0.681  Sum_probs=40.5

Q ss_pred             CCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ++..|+||++.+.+   +++++|||. ||..|+..|    ..||+|++.+...
T Consensus        23 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           23 EEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   68 (74)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCTTTCCBCSEE
T ss_pred             cCCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCCCcCcCccCc
Confidence            56789999999998   889999999 999999988    7899999988753

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

Probab=98.96  E-value=2.6e-10  Score=92.97  Aligned_cols=69  Identities=12%  Similarity=0.066  Sum_probs=56.1

Q ss_pred             CCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC-CCCCCCCcccccCcccccCCchhhhhhhh
Q 046606           29 SPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        29 ~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~~~~~~~~~~~~~~~~~~~l  100 (246)
                      ....+.+.||||++.+.+   |++++|||+||..||..|+... ..||.|+.++....+.+|..+...+...+
T Consensus       101 ~~ip~~f~CPI~~elm~D---PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~~~  170 (179)
T 2f42_A          101 REIPDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDAFI  170 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             cCCcHhhcccCccccCCC---CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHHHH
Confidence            344678999999999999   8999999999999999998653 46999999998766666666666655544

>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=98.95  E-value=1.9e-10  Score=92.84  Aligned_cols=56  Identities=32%  Similarity=0.561  Sum_probs=48.1

Q ss_pred             ccCCCCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC-CCCCCCCcccccCc
Q 046606           27 VISPAIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRSWF   85 (246)
Q Consensus        27 ~~~~~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~~~~~   85 (246)
                      .....++++.|+||++.+.+   ++.++|||.||..||..|+... ..||+|+..+....
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           11 FDPPLESKYECPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             ESSCCCGGGBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             hccCCCCCCCCCCCChhhcC---cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            44566788999999999999   7889999999999999998764 48999999987643

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

Probab=98.91  E-value=2.4e-10  Score=87.78  Aligned_cols=55  Identities=25%  Similarity=0.638  Sum_probs=46.5

Q ss_pred             CCCCCccccccccccCC----CceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCc
Q 046606           31 AIRGQKCPICLDNLTDR----RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWF   85 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~----~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~   85 (246)
                      .+++..|+||++.+.++    ...+.++|||.||..||.+|++....||+|+..+....
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            35688899999998762    22388899999999999999999999999999987543

>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=98.90  E-value=4.7e-10  Score=76.01  Aligned_cols=49  Identities=18%  Similarity=0.516  Sum_probs=42.6

Q ss_pred             CCCCccccccccccCCCceEEc--cCCCc-CCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLK--VCTHA-YCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~--~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      +.+..|+||++...+   ++++  +|||. ||..|+..|.+....||+|++.+..
T Consensus         5 ~~~~~C~IC~~~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRD---GNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSC---EEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcCCC---eEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            356789999999988   6666  99998 9999999988878899999998864

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

Probab=98.89  E-value=5.4e-10  Score=78.24  Aligned_cols=45  Identities=29%  Similarity=0.681  Sum_probs=38.7

Q ss_pred             CCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ++..|+||++.+.+   +++++|||. ||..|+...    ..||+|++.+...
T Consensus        24 ~~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           24 EEKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFK   69 (75)
T ss_dssp             HHHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHHC----SBCTTTCCBCCCC
T ss_pred             CCCCCCcCCCCCCC---EEEecCCCHHHHHHHhhCC----CCCccCCceecCc
Confidence            46679999999998   788999999 999999643    6899999988753

>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=98.87  E-value=1.3e-09  Score=98.50  Aligned_cols=49  Identities=29%  Similarity=0.781  Sum_probs=43.9

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhc-CCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSN-LKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~-~~~~CPlCr~~~~~~   84 (246)
                      ....|+||++.+.+   ++.++|||.||..|+..|.. ....||+||+.+...
T Consensus       331 ~~~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          331 TFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSSBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            45789999999988   89999999999999999998 678899999988753

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

Probab=98.86  E-value=9.5e-10  Score=78.13  Aligned_cols=52  Identities=25%  Similarity=0.590  Sum_probs=42.3

Q ss_pred             CCCCCccccccccccCCCceEEccCC-----CcCCHHHHHHHhcCC--CCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCT-----HAYCLECIEKWSNLK--RNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~-----H~Fc~~Ci~~w~~~~--~~CPlCr~~~~~   83 (246)
                      ..++..|.||++.+.+.. .++++|.     |.||..||.+|+..+  ..||+|+..|..
T Consensus        12 ~~~~~~C~IC~~~~~~~~-~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDES-PLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSS-CEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCccccCCC-eeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            346788999999886433 4678996     999999999998765  589999999864

>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=98.79  E-value=1.8e-09  Score=92.44  Aligned_cols=61  Identities=16%  Similarity=0.319  Sum_probs=49.0

Q ss_pred             CCCCccccccccccCCCceEE-ccCCCcCCHHHHHHHhcCC--CCCCC--CCcccccCcccccCCchhh
Q 046606           32 IRGQKCPICLDNLTDRRTAVL-KVCTHAYCLECIEKWSNLK--RNCPL--CNAPFRSWFYRINLSSSDF   95 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~-~~C~H~Fc~~Ci~~w~~~~--~~CPl--Cr~~~~~~~~~~~~~~~~~   95 (246)
                      ..++.||||++.|.+   |+. ..|||.||..||..|+...  ..||+  |++.+....+.++..+..+
T Consensus       179 ~~el~CPIcl~~f~D---PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~l  244 (267)
T 3htk_C          179 KIELTCPITCKPYEA---PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELR  244 (267)
T ss_dssp             BCCSBCTTTSSBCSS---EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHH
T ss_pred             ceeeECcCccCcccC---CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHH
Confidence            357789999999999   776 4999999999999988754  46999  9999877666666544433

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

Probab=98.75  E-value=9.6e-09  Score=71.73  Aligned_cols=50  Identities=24%  Similarity=0.496  Sum_probs=41.8

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC--CCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK--RNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~--~~CPlCr~~~~~   83 (246)
                      +....|.||.+.+...  ..-..|+|.||..||..|++..  .+||+|++.+..
T Consensus        13 ~~i~~C~IC~~~i~~g--~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSS--EECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCCcCcchhhHcccC--CccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            3567899999999864  3334899999999999999877  789999988764

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

Probab=98.74  E-value=6.5e-09  Score=71.44  Aligned_cols=48  Identities=23%  Similarity=0.638  Sum_probs=41.1

Q ss_pred             CCCCCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ...++..|+||++...+   +++++|+|. ||..|+..    ...||+|++.+...
T Consensus        11 ~~~~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVN---WVLLPCRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             SCCCSSCCSSSSSSCCC---CEETTTTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             cCCCCCCCCCcCcCCCC---EEEECCCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            34567889999999988   899999999 99999984    36899999988753

>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=98.70  E-value=3.6e-09  Score=74.91  Aligned_cols=45  Identities=20%  Similarity=0.673  Sum_probs=39.5

Q ss_pred             CCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ++..|+||++.+.+   +++++|||. ||..|+..|    ..||+|++.+...
T Consensus        17 ~~~~C~IC~~~~~~---~v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           17 EAMLCMVCCEEEIN---STFCPCGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HHTBCTTTSSSBCC---EEEETTCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCCEeEEeCcccCc---EEEECCCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            46689999999998   899999999 999999876    3899999998763

>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=98.61  E-value=8.6e-09  Score=75.09  Aligned_cols=52  Identities=19%  Similarity=0.646  Sum_probs=39.5

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC--------CCCCCC--CCcc--ccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL--------KRNCPL--CNAP--FRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~--------~~~CPl--Cr~~--~~~   83 (246)
                      .+.+.|+||++.+..+....+.+|+|.||..||..++..        ...||.  |+..  +..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~   66 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE   66 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCH
Confidence            357889999999887533333579999999999996542        236999  9988  554

>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=98.58  E-value=1.9e-08  Score=67.67  Aligned_cols=52  Identities=17%  Similarity=0.139  Sum_probs=44.6

Q ss_pred             CCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccc
Q 046606           34 GQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRI   88 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~   88 (246)
                      .+.|+||++.+.+   +++. +|||.|+..||.+|+..+.+||++++.+....+.+
T Consensus         3 ~~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~Lip   55 (61)
T 2bay_A            3 HMLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVE   55 (61)
T ss_dssp             -CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGCEE
T ss_pred             eEEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChhhcEE
Confidence            4789999999999   7888 99999999999999987778999999987654433

>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=98.49  E-value=2.4e-08  Score=89.31  Aligned_cols=45  Identities=29%  Similarity=0.809  Sum_probs=40.5

Q ss_pred             CCCccccccccccCCCceEEccCCCc-CCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHA-YCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      ++..|+||++.+.+   ++.++|||. ||..|+..|    ..||+||..+...
T Consensus       294 ~~~~C~IC~~~~~~---~v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIPCGHLVVCQECAPSL----RKCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEETTCCEEECTTTGGGC----SBCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCCc---eEEcCCCChhHhHHHHhcC----CcCCCCCCCccCe
Confidence            57889999999998   889999999 999999987    6899999998753

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

Probab=98.30  E-value=4.1e-07  Score=60.80  Aligned_cols=49  Identities=18%  Similarity=0.588  Sum_probs=38.8

Q ss_pred             CCCCCccccccccccCCCceEEccCC--C---cCCHHHHHHHhcC--CCCCCCCCcccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCT--H---AYCLECIEKWSNL--KRNCPLCNAPFR   82 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~--H---~Fc~~Ci~~w~~~--~~~CPlCr~~~~   82 (246)
                      .++...|.||++...+   +...||.  +   .||..||..|+..  +..||+|+..|.
T Consensus         3 ~~~~~~CrIC~~~~~~---~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            3 DEDVPVCWICNEELGN---ERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSC---CCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCEeEEeecCCCC---ceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4567889999998554   3457865  4   7999999999864  567999999875

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

Probab=98.08  E-value=1.5e-06  Score=63.29  Aligned_cols=48  Identities=21%  Similarity=0.524  Sum_probs=40.7

Q ss_pred             ccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCc
Q 046606           36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWF   85 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~   85 (246)
                      .|++|--++..-  ..+.+|+|.||++|+..|.+. ...||.|+..+..+.
T Consensus         3 fC~~C~~Pi~iy--gRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            3 FCDKCGLPIKVY--GRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             BCTTTCSBCSEE--EEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             ecCccCCCeEEE--eeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            589999888773  778899999999999998754 678999999987654

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

Probab=98.04  E-value=8.8e-07  Score=78.44  Aligned_cols=53  Identities=23%  Similarity=0.531  Sum_probs=40.2

Q ss_pred             CCCCccccccccccC-CCce----EEccCCCcCCHHHHHHHhcCC-----------CCCCCCCcccccC
Q 046606           32 IRGQKCPICLDNLTD-RRTA----VLKVCTHAYCLECIEKWSNLK-----------RNCPLCNAPFRSW   84 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~-~~~~----~~~~C~H~Fc~~Ci~~w~~~~-----------~~CPlCr~~~~~~   84 (246)
                      +....|+||++.+.+ +..+    ....|+|.||..||.+|+...           ..||.|++++...
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            355679999998876 3222    234899999999999998642           3699999988653

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

Probab=97.26  E-value=0.00031  Score=59.46  Aligned_cols=50  Identities=24%  Similarity=0.493  Sum_probs=40.5

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC--CCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK--RNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~--~~CPlCr~~~~~~   84 (246)
                      .-..|.||.+.+..+  ..-..|+|.||..|+..|++..  ..||.|+..+...
T Consensus       179 ~i~~C~iC~~iv~~g--~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSC--EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCC--cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            467899999998864  3344599999999999998764  4899999987654

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

Probab=95.35  E-value=0.0055  Score=44.32  Aligned_cols=32  Identities=31%  Similarity=0.678  Sum_probs=26.0

Q ss_pred             CCCcccccccc-ccCCCceEE--ccCCCcCCHHHHHHH
Q 046606           33 RGQKCPICLDN-LTDRRTAVL--KVCTHAYCLECIEKW   67 (246)
Q Consensus        33 ~~~~C~ICl~~-~~~~~~~~~--~~C~H~Fc~~Ci~~w   67 (246)
                      ++..|+||++. +.+   ++.  +.|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~---av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQD---AVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCB---CCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCC---ceEECCcCChHHhHHHCHHH
Confidence            46889999976 444   455  899999999999983

>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=93.38  E-value=0.053  Score=54.05  Aligned_cols=70  Identities=10%  Similarity=-0.053  Sum_probs=58.0

Q ss_pred             cCCCCCCCccccccccccCCCceEEccCC-CcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhhhhh
Q 046606           28 ISPAIRGQKCPICLDNLTDRRTAVLKVCT-HAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQL  100 (246)
Q Consensus        28 ~~~~~~~~~C~ICl~~~~~~~~~~~~~C~-H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~~~l  100 (246)
                      .....+++.|||-++.+.+   |++++-| ++|-..+|.+|+....+||.=++++......+|..+...+...+
T Consensus       885 ~~~iP~~F~cPIs~~lM~D---PVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~~Lk~~I~~w~  955 (968)
T 3m62_A          885 YGDVPDEFLDPLMYTIMKD---PVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEELRQKILCFK  955 (968)
T ss_dssp             HCCSCGGGBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHHH
T ss_pred             ccCCcHHhCCcchhhHHhC---CeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccHHHHHHHHHHH
Confidence            3455679999999999999   8999998 58999999999998889999999998776667766655555554

>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=92.62  E-value=0.094  Score=36.37  Aligned_cols=39  Identities=23%  Similarity=0.462  Sum_probs=27.9

Q ss_pred             CCCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhcC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNL   70 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~   70 (246)
                      ...+.|.+|.+.+++...+.-. .=.|.||+.|-....+.
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            4578899999999985322111 12688999999887653

>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=88.86  E-value=0.47  Score=42.19  Aligned_cols=72  Identities=17%  Similarity=0.249  Sum_probs=45.7

Q ss_pred             CCccccccccccCCCceEEccCCCcCCH--HHHHHHhcC--CCCCCCCCcccccCcccccCCchhhhhhhhcCCCCCCcc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCL--ECIEKWSNL--KRNCPLCNAPFRSWFYRINLSSSDFLQQQLQPLIKDKTF  109 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~--~Ci~~w~~~--~~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp~~~~~~~~  109 (246)
                      .+.|||-...+..|  +....|.|.-|+  .-+..+...  .-.||+|.+.+....+.++    .+..+.|...++...+
T Consensus       215 SL~CPlS~~ri~~P--~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL~ID----~~~~~IL~~~~~v~~I  288 (360)
T 4fo9_A          215 SLMCPLGKMRLTIP--CRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILD----GLFMEILNDCSDVDEI  288 (360)
T ss_dssp             ESBCTTTCSBCSSE--EEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGEEEB----HHHHHHHTTCSSCCEE
T ss_pred             eeeCCCccceeccC--CcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHeEEc----HHHHHHHHhCCCCCEE
Confidence            45799999999885  667789999554  444444433  3469999998876555444    3344444433444444


Q ss_pred             cc
Q 046606          110 IS  111 (246)
Q Consensus       110 ~~  111 (246)
                      .+
T Consensus       289 ~v  290 (360)
T 4fo9_A          289 KF  290 (360)
T ss_dssp             EE
T ss_pred             EE
Confidence            44

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=88.71  E-value=0.77  Score=32.39  Aligned_cols=51  Identities=27%  Similarity=0.605  Sum_probs=37.6

Q ss_pred             CCCccccccccccCC---C-ceEEccCCCcCCHHHHHH-HhcCCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDR---R-TAVLKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~---~-~~~~~~C~H~Fc~~Ci~~-w~~~~~~CPlCr~~~~~   83 (246)
                      ....|.||-+.+--.   + ++.-..|+-..|..|+.- .......||.|++.|..
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            457899999985432   1 122346888899999987 55667889999999974

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

Probab=88.06  E-value=0.51  Score=31.45  Aligned_cols=47  Identities=19%  Similarity=0.449  Sum_probs=33.4

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC----CCCCCCCccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK----RNCPLCNAPF   81 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~----~~CPlCr~~~   81 (246)
                      ..+..|.||.+.=   ++..-..|...||..|+...+...    -.||.|....
T Consensus        10 ~~~~~C~vC~~~~---~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           10 APGARCGVCGDGT---DVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CTTCCCTTTSCCT---TCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCcCCCCCCC---eEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            3567799998642   235556799999999998765543    2599997643

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

Probab=87.96  E-value=0.25  Score=44.05  Aligned_cols=54  Identities=19%  Similarity=0.390  Sum_probs=38.2

Q ss_pred             CCccccccccccCCCceEEccCCCcCCHH--HHHHHhcC--CCCCCCCCcccccCccccc
Q 046606           34 GQKCPICLDNLTDRRTAVLKVCTHAYCLE--CIEKWSNL--KRNCPLCNAPFRSWFYRIN   89 (246)
Q Consensus        34 ~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~--Ci~~w~~~--~~~CPlCr~~~~~~~~~~~   89 (246)
                      .+.|||-...+..|  +....|.|.-|++  -+..+...  .-.||+|.+.+....+.++
T Consensus       249 SL~CPlS~~ri~~P--vRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL~ID  306 (371)
T 3i2d_A          249 SLQCPISYTRMKYP--SKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENLAIS  306 (371)
T ss_dssp             ESBCTTTSSBCSSE--EEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGEEEB
T ss_pred             eecCCCcccccccc--CcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHeeEc
Confidence            46799999999885  6677899985554  44444333  3469999998876555544

---

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	246
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-13
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-10
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-08
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	5e-08
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-07
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	7e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	9e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-06
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	3e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	6e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	1e-04
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	0.002
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	0.002

>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 = 61.9 bits (150), Expect = 1e-13
 Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 3/68 (4%)

Query: 31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINL 90
          A   ++CPICL++ ++   ++   C HA+C  CI +W      CPLC  P  S  + I  
Sbjct: 2  ATVAERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE- 58

Query: 91 SSSDFLQQ 98
          S S+F  Q
Sbjct: 59 SDSEFGDQ 66

>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 = 52.6 bits (126), Expect = 3e-10
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 1/48 (2%)

Query: 34 GQKCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAP 80
          G +C +CL  L D      L  C H +  EC++ W      CPLC   
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.8 bits (116), Expect = 1e-08
 Identities = 15/49 (30%), Positives = 18/49 (36%), Gaps = 4/49 (8%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRS 83
           C IC   L D    V   C H +C  CI +   +    CP C  P   
Sbjct: 25 SCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP 70

>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 = 48.5 bits (115), Expect = 1e-08
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 35 QKCPICLDNLTDRRTAVLKVCTHAYCLECIEKW-SNLKRNCPLCNAPFRS 83
          Q C IC +N  D     ++ C H  C  C+  W  +  + CP C    + 
Sbjct: 24 QLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG 70

>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 = 48.9 bits (116), Expect = 2e-08
 Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 6/69 (8%)

Query: 36  KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRN---CPLCNAPFRSWFYRINLSS 92
           +CPICL+ + +    V   C H +C  C+ K  N K+    CPLC         + +   
Sbjct: 23  ECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF 79

Query: 93  SDFLQQQLQ 101
           S  +++ L+
Sbjct: 80  SQLVEELLK 88

>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 = 46.4 bits (110), Expect = 5e-08
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 6/46 (13%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFR 82
          C  C           L  C H  C  C+E        CP+C AP+ 
Sbjct: 9  CQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWP 48

>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 = 45.9 bits (108), Expect = 1e-07
 Identities = 17/65 (26%), Positives = 25/65 (38%), Gaps = 15/65 (23%)

Query: 32 IRGQKCPICLDNLTD---------------RRTAVLKVCTHAYCLECIEKWSNLKRNCPL 76
          I    C IC +++ D                 T    VC HA+   CI +W   ++ CPL
Sbjct: 19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 78

Query: 77 CNAPF 81
           N  +
Sbjct: 79 DNREW 83

>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 = 44.4 bits (104), Expect = 7e-07
 Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 6/74 (8%)

Query: 36  KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDF 95
           +C  C + L +     L  C H +C  C+     +   CP+C  P      +IN      
Sbjct: 24  RCSRCTNILREPVC--LGGCEHIFCSNCVSDC--IGTGCPVCYTPAWIQDLKINRQLDSM 79

Query: 96  LQ--QQLQPLIKDK 107
           +Q   +L+ L+ D 
Sbjct: 80  IQLCSKLRNLLHDN 93

>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 = 42.8 bits (100), Expect = 9e-07
 Identities = 16/51 (31%), Positives = 19/51 (37%), Gaps = 3/51 (5%)

Query: 35 QKCPICLDNLTDRRTAVLKV--CTHAYCLECIEKW-SNLKRNCPLCNAPFR 82
          Q CP C        +  L V  C H  C  C++        NCP C  P R
Sbjct: 4  QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 40.6 bits (94), Expect = 7e-06
 Identities = 9/50 (18%), Positives = 15/50 (30%), Gaps = 4/50 (8%)

Query: 37 CPICLDNLTDR--RTAVLKVCTHAYCLECIEKW--SNLKRNCPLCNAPFR 82
          C IC + L +   R              C+  W   +    C +C   + 
Sbjct: 9  CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN 58

>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 = 38.5 bits (89), Expect = 3e-05
 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 2/47 (4%)

Query: 37 CPICLDNLTDRRTAVLKV-CTHAYCLECIEKWSNLK-RNCPLCNAPF 81
          CP+C++ L           C +  C  C  +    +   CP C  P+
Sbjct: 3  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.8 bits (87), Expect = 6e-05
 Identities = 7/47 (14%), Positives = 13/47 (27%), Gaps = 2/47 (4%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS 83
          C I          +        +    +E++     N P+ N P   
Sbjct: 3  CAISGKVPRRPVLS--PKSRTIFEKSLLEQYVKDTGNDPITNEPLSI 47

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 37.4 bits (86), Expect = 1e-04
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 4/56 (7%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRSWFYRINL 90
          +CPI L+ + D    V+      Y    I+KW +   + CP             N 
Sbjct: 10 RCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNY 62

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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]

 Score = 34.4 bits (78), Expect = 0.002
 Identities = 7/54 (12%), Positives = 15/54 (27%), Gaps = 4/54 (7%)

Query: 37 CPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRN-CPLCNAPFRSWFYRIN 89
            I  + + +            Y  + IE+      +  P+  +P        N
Sbjct: 10 GKISFELMREPCI---TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN 60

>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 = 34.3 bits (78), Expect = 0.002
 Identities = 10/53 (18%), Positives = 18/53 (33%), Gaps = 8/53 (15%)

Query: 36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRN--------CPLCNAP 80
           C +CL      +   +  C   +C  C++++  L           CP    P
Sbjct: 7  GCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	246
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.47
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.43
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.37
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.36
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.34
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.33
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.32
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.29
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.29
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.24
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.19
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.17
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.16
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.12
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.12
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.92
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.34
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	94.1
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	88.98
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	87.96
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	87.17

>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=99.47  E-value=5.3e-15  Score=100.67  Aligned_cols=52  Identities=35%  Similarity=0.945  Sum_probs=45.3

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFY   86 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~   86 (246)
                      ..+.|+||++.+.++  ++.++|||.||..||.+|++.+.+||+||+.+....+
T Consensus         4 ~~d~C~IC~~~~~~~--~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~~~   55 (68)
T d1chca_           4 VAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH   55 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEEC
T ss_pred             CCCCCccCCcCccCC--cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhhcc
Confidence            456799999999874  6778999999999999999999999999998876443

>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=99.43  E-value=3.5e-14  Score=92.43  Aligned_cols=50  Identities=32%  Similarity=0.834  Sum_probs=42.9

Q ss_pred             CCCCccccccccccCCCceEE-ccCCCcCCHHHHHHHhcCCCCCCCCCccc
Q 046606           32 IRGQKCPICLDNLTDRRTAVL-KVCTHAYCLECIEKWSNLKRNCPLCNAPF   81 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~-~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~   81 (246)
                      +++..|+||++.+.+++.... ..|+|.||..||.+|++.+..||+||+.+
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            467789999999987644544 46999999999999999999999999875

>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=99.37  E-value=3.4e-13  Score=93.90  Aligned_cols=68  Identities=19%  Similarity=0.319  Sum_probs=58.6

Q ss_pred             CCCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC-CCCCCCCcccccCcccccCCchhhhhhhhc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK-RNCPLCNAPFRSWFYRINLSSSDFLQQQLQ  101 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp  101 (246)
                      ..+++.|+||++.|.+   +++++|||+||..||..|+... ..||.|+..+......+|..+.++++.++.
T Consensus         5 iP~~l~CpIc~~~m~d---PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~~~~~   73 (78)
T d1t1ha_           5 FPEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CSSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHHH
T ss_pred             CCccCCCcCcCchhhC---ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHHHHHH
Confidence            4578999999999999   8889999999999999999764 569999999988777788788777776653

>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=99.36  E-value=1.6e-13  Score=100.67  Aligned_cols=64  Identities=28%  Similarity=0.633  Sum_probs=51.5

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC---CCCCCCCcccccCcccccCCchhhhhhh
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK---RNCPLCNAPFRSWFYRINLSSSDFLQQQ   99 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~---~~CPlCr~~~~~~~~~~~~~~~~~~~~~   99 (246)
                      +.+.|+||++.+.+   |+.++|||.||..||..|++..   ..||+|+..+....+..+....++++..
T Consensus        20 ~~l~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~ve~l   86 (103)
T d1jm7a_          20 KILECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEEL   86 (103)
T ss_dssp             HHTSCSSSCCCCSS---CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHH
T ss_pred             cCcCCCccCchhCC---eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHHHHHHHHH
Confidence            46789999999998   7888999999999999998654   4799999999776666665555555443

>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=99.34  E-value=3.8e-13  Score=93.94  Aligned_cols=49  Identities=29%  Similarity=0.786  Sum_probs=43.2

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~   84 (246)
                      +...|+||++.+.+   +++++|||.||..||..|+.. ...||+||..+...
T Consensus        22 ~~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          22 TFQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             CTTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            45679999999998   899999999999999999974 56799999998754

>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=99.33  E-value=3e-13  Score=94.64  Aligned_cols=68  Identities=12%  Similarity=0.087  Sum_probs=57.3

Q ss_pred             CCCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCcccccCCchhhhhhhhcC
Q 046606           32 IRGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWFYRINLSSSDFLQQQLQP  102 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp~  102 (246)
                      .+++.||||++.|.+   |++++|||+||..||..|+.. ...||.|+..+....+.+|..+.+.+...+..
T Consensus         5 P~~l~CpIc~~l~~d---Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~~l~~   73 (80)
T d2c2la2           5 PDYLCGKISFELMRE---PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFISE   73 (80)
T ss_dssp             CSTTBCTTTCSBCSS---EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHHTT
T ss_pred             CccccCcCcCchhhh---hcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHHHHHH
Confidence            578999999999999   899999999999999999864 56799999999876666776777777766643

>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=99.32  E-value=1.5e-13  Score=97.37  Aligned_cols=50  Identities=30%  Similarity=0.634  Sum_probs=43.8

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWF   85 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~   85 (246)
                      +++.|+||++.+.+   +++++|||.||..||..|++. ..+||+||.++....
T Consensus        22 ~~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          22 KSISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HHTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            45789999999999   899999999999999999864 568999999887543

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.29  E-value=1.3e-12  Score=97.32  Aligned_cols=53  Identities=25%  Similarity=0.540  Sum_probs=42.3

Q ss_pred             CCCCccccccccccCC---------------CceEEccCCCcCCHHHHHHHhcCC-----CCCCCCCcccccC
Q 046606           32 IRGQKCPICLDNLTDR---------------RTAVLKVCTHAYCLECIEKWSNLK-----RNCPLCNAPFRSW   84 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~---------------~~~~~~~C~H~Fc~~Ci~~w~~~~-----~~CPlCr~~~~~~   84 (246)
                      ..++.|+||++.|.+.               ....+++|+|.||..||..|++..     .+||+||+.+..+
T Consensus        23 ~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            3567899999988542               235678999999999999999743     4799999998754

>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=99.29  E-value=6.5e-13  Score=89.29  Aligned_cols=53  Identities=28%  Similarity=0.634  Sum_probs=41.8

Q ss_pred             CCCccccccccccCC--CceEEccCCCcCCHHHHHHHhcC-CCCCCCCCcccccCc
Q 046606           33 RGQKCPICLDNLTDR--RTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRSWF   85 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~--~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~~~   85 (246)
                      ++..||||++.+..+  ...++++|||.||..||..|++. +..||+||+.+....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            578999999975332  23466799999999999999854 567999999886543

>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=99.24  E-value=1.7e-12  Score=83.31  Aligned_cols=48  Identities=23%  Similarity=0.611  Sum_probs=39.5

Q ss_pred             ccccccccccCC-CceEEccCCCcCCHHHHHHHhcC-CCCCCCCCccccc
Q 046606           36 KCPICLDNLTDR-RTAVLKVCTHAYCLECIEKWSNL-KRNCPLCNAPFRS   83 (246)
Q Consensus        36 ~C~ICl~~~~~~-~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CPlCr~~~~~   83 (246)
                      .|+||++.+.+. .....++|||.||..|+..|++. +.+||+||++|..
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            699999998654 23455689999999999999986 4579999999864

>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=99.19  E-value=2.3e-12  Score=83.91  Aligned_cols=47  Identities=19%  Similarity=0.229  Sum_probs=41.8

Q ss_pred             CccccccccccCCCceEEc-cCCCcCCHHHHHHHhcCCCCCCCCCcccccC
Q 046606           35 QKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        35 ~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~   84 (246)
                      +.|+||++.+.+   ++.+ .|||.||..||.+|++.+.+||+|++++...
T Consensus         1 l~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           1 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            369999999999   6655 6999999999999999989999999988754

>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=99.17  E-value=1.8e-12  Score=93.90  Aligned_cols=60  Identities=25%  Similarity=0.604  Sum_probs=46.8

Q ss_pred             CCCccccccccccCCCceEE-ccCCCcCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhh
Q 046606           33 RGQKCPICLDNLTDRRTAVL-KVCTHAYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQ   97 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~-~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~   97 (246)
                      +.+.|+||++.|.+   ++. .+|||.||..||..|+.  ..||.|+..+....+.++..+.+++.
T Consensus        21 ~~l~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~n~~l~~lv~   81 (97)
T d1jm7b_          21 KLLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKINRQLDSMIQ   81 (97)
T ss_dssp             HTTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCCCHHHHHHHH
T ss_pred             hcCCCccCCchhhc---CceeCCCCCchhHHHHHHHHh--ccccccCCcCchhhCcccHHHHHHHH
Confidence            46789999999998   554 58999999999999985  45999999887655555544444443

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=1.1e-11  Score=88.13  Aligned_cols=52  Identities=33%  Similarity=0.757  Sum_probs=43.7

Q ss_pred             CCCCccccccccccCC---------------CceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           32 IRGQKCPICLDNLTDR---------------RTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~---------------~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      ..++.|+||++.+.+.               ..++.++|+|.||..||..|++.+.+||+||+.+..
T Consensus        19 ~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          19 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            3566799999888664               125778999999999999999999999999998864

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=3.1e-12  Score=83.25  Aligned_cols=45  Identities=29%  Similarity=0.696  Sum_probs=38.9

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCCCccccc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLCNAPFRS   83 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlCr~~~~~   83 (246)
                      +.+.|+||++.+.+   +++++|||.||..||..|   +..||+|++.+..
T Consensus         5 ~~l~C~IC~~~~~~---p~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS---GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS---SSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccCC---CEEecCCCHHhHHHHHcC---CCcCcCCCCcccC
Confidence            45789999999998   788899999999998754   5679999998864

>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=99.12  E-value=2.2e-11  Score=88.26  Aligned_cols=70  Identities=17%  Similarity=0.089  Sum_probs=57.9

Q ss_pred             CCCCCCccccccccccCCCceEEccCCC-cCCHHHHHHHhcCCCCCCCCCcccccCcccccCCchhhhhhhhcC
Q 046606           30 PAIRGQKCPICLDNLTDRRTAVLKVCTH-AYCLECIEKWSNLKRNCPLCNAPFRSWFYRINLSSSDFLQQQLQP  102 (246)
Q Consensus        30 ~~~~~~~C~ICl~~~~~~~~~~~~~C~H-~Fc~~Ci~~w~~~~~~CPlCr~~~~~~~~~~~~~~~~~~~~~lp~  102 (246)
                      +..+++.||||++.|.+   |++++|+| .||..||..|+..+..||+|++.+....+.+|..+...+..++..
T Consensus        18 ~~P~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~~~~~   88 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWLAE   88 (98)
T ss_dssp             SCCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHHHH
T ss_pred             CCcHHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHHHHHH
Confidence            34578999999999999   88888765 799999999999989999999999877667776666666666543

>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=98.92  E-value=3.5e-10  Score=74.29  Aligned_cols=50  Identities=18%  Similarity=0.566  Sum_probs=39.7

Q ss_pred             CCCCCccccccccccCCCceEEccC-----CCcCCHHHHHHHhc--CCCCCCCCCccccc
Q 046606           31 AIRGQKCPICLDNLTDRRTAVLKVC-----THAYCLECIEKWSN--LKRNCPLCNAPFRS   83 (246)
Q Consensus        31 ~~~~~~C~ICl~~~~~~~~~~~~~C-----~H~Fc~~Ci~~w~~--~~~~CPlCr~~~~~   83 (246)
                      +++...|+||++.+.++   ...+|     +|.||..||..|+.  .+.+||+|++.|..
T Consensus         3 ded~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            45788899999988773   33444     59999999999985  45689999998863

>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=98.34  E-value=6.7e-08  Score=68.56  Aligned_cols=47  Identities=19%  Similarity=0.623  Sum_probs=36.7

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCC--------CCCCCCCc
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK--------RNCPLCNA   79 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~--------~~CPlCr~   79 (246)
                      ....|+||++.+...+.+.+++|+|.||..||..|++.+        .+||.|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            467799999998654456677899999999999987531        25998754

>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=94.10  E-value=0.019  Score=37.23  Aligned_cols=38  Identities=24%  Similarity=0.485  Sum_probs=27.2

Q ss_pred             CCCCccccccccccCCCceEEc-cCCCcCCHHHHHHHhc
Q 046606           32 IRGQKCPICLDNLTDRRTAVLK-VCTHAYCLECIEKWSN   69 (246)
Q Consensus        32 ~~~~~C~ICl~~~~~~~~~~~~-~C~H~Fc~~Ci~~w~~   69 (246)
                      .....|.+|.+.+++...+.-. .=+|.||+.|-....+
T Consensus         6 ~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik   44 (80)
T d2cs3a1           6 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIK   44 (80)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHH
T ss_pred             CCceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHH
Confidence            3468899999999985222111 1278999999988765

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.98  E-value=0.046  Score=34.07  Aligned_cols=45  Identities=27%  Similarity=0.623  Sum_probs=31.7

Q ss_pred             CCCccccccccccCCCceEEccCCCcCCHHHHHHHhcCCCCCCCC
Q 046606           33 RGQKCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLKRNCPLC   77 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CPlC   77 (246)
                      ....|--|+..+.+.....-..|++.||.+|=.=....-..||-|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            466799999998874222234799999999954334445679877

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=87.96  E-value=0.45  Score=31.62  Aligned_cols=52  Identities=27%  Similarity=0.589  Sum_probs=37.9

Q ss_pred             CCCccccccccccCC---C-ceEEccCCCcCCHHHHHH-HhcCCCCCCCCCcccccC
Q 046606           33 RGQKCPICLDNLTDR---R-TAVLKVCTHAYCLECIEK-WSNLKRNCPLCNAPFRSW   84 (246)
Q Consensus        33 ~~~~C~ICl~~~~~~---~-~~~~~~C~H~Fc~~Ci~~-w~~~~~~CPlCr~~~~~~   84 (246)
                      ....|.||-+.+--.   + ++.-..|+--.|..|..- ....+..||.|++.|...
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~   71 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRL   71 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCC
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhh
Confidence            467799999986432   2 122346888889999976 556678899999998753

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.17  E-value=0.18  Score=30.09  Aligned_cols=44  Identities=23%  Similarity=0.588  Sum_probs=29.9

Q ss_pred             ccccccccccCCCceEEccCCCcCCHHHHHHHhcCC----CCCCCCCc
Q 046606           36 KCPICLDNLTDRRTAVLKVCTHAYCLECIEKWSNLK----RNCPLCNA   79 (246)
Q Consensus        36 ~C~ICl~~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~----~~CPlCr~   79 (246)
                      .|.||...-.......-..|...||..|+..-+...    -.||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            588887654433334455799999999998754432    24999875