Psyllid ID: psy3978

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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
MIRRSSYGNRSQSRGTDYSMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGPEL
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccHHHHccccEEEEEcccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccEEEcEEcccccccccEEEEEEcccccccEEEEccccccccccccccccccccHHHHHHcccccccccHHHHHHcccHHHHHHHccccccccccccEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccHHHHEEEEEEEEEccccccccccccccccccHHHEEEEEEEccccccccccccccccccccccccEEcHHHHHHHHcccccccccccccccHEcHHcccEEEEEEccccccccEEEEEEEEcccccEEEccccccccccccccccccHcHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHcccccc
Coil and Loop (DISEMBL)
mirrssygnrsqsrgtdysmgYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGedygihlgdpdqlVKWEYIQQIRgfgnedikcpicldlprapqmtrcghcfcwpcilhylalsdkswrkcpicyeavhlgdlKSFRSVIKRARAVNEEVTFQLMkrergstvvspvaqwdfhptdmlMNVSAKCNAYIAInldypaiapIFSVqlelpgkliktvhnddavrcCDSFLIQFIQGGPEL
Flexible Loop (DISEMBL)
mirrssygnrsqsrgtdysMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVneevtfqlmkrergstvvspvAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGPEL
Low Complexity Region (SEG)
MIRRSSYGNRSQSRGTDYSMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGPEL
Disordered region (IsUnstruct)
*******************MGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQ*****
Disordered Region (DISOPRED)
******************************************FLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLAL**KSWRKCPICYEAVHLGDLKSFRSVIKRAR*************************************SAKCNAYIAINLDYPAIAPIFSVQLE************DAVRCCDSFLIQFIQGGP**
Disordered Region (DISEMBL)
**************GTDYSMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGPEL
Disordered Region (DISPRO)
**********************************KHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGPEL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIRRSSYGNRSQSRGTDYSMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSAKCNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGPEL
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	243	2.2.26 [Sep-21-2011]
Q3UIW5	804	RING finger protein 10 OS	yes	N/A	0.572	0.172	0.557	9e-43
Q08E13	810	RING finger protein 10 OS	yes	N/A	0.572	0.171	0.55	2e-42
Q8N5U6	811	RING finger protein 10 OS	yes	N/A	0.572	0.171	0.542	2e-41
Q32NQ8	756	RING finger protein 10 OS	N/A	N/A	0.563	0.181	0.525	4e-41
Q5XI59	802	RING finger protein 10 OS	yes	N/A	0.572	0.173	0.535	7e-41
O94271	673	Uncharacterized RING fing	yes	N/A	0.707	0.255	0.299	1e-13
Q5D7I0	494	Tripartite motif-containi	N/A	N/A	0.308	0.151	0.35	1e-06
Q5BN31	494	Tripartite motif-containi	N/A	N/A	0.304	0.149	0.354	1e-06
Q8GUK7	243	E3 ubiquitin-protein liga	no	N/A	0.242	0.242	0.373	9e-06
Q1ACD7	494	Tripartite motif-containi	no	N/A	0.279	0.137	0.315	1e-05

>sp|Q3UIW5|RNF10_MOUSE RING finger protein 10 OS=Mus musculus GN=Rnf10 PE=2 SV=2

 Score =  173 bits (439), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 78/140 (55%), Positives = 98/140 (70%), Gaps = 1/140 (0%)

Query: 36  HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
           HK +NKE FLQANCQFVV   +DY  H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct: 173 HKPFNKELFLQANCQFVVSEDQDYAAHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query: 95  RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
            A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +   R  AV + +
Sbjct: 233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESRQYAVGDTI 292

Query: 155 TFQLMKRERGSTVVSPVAQW 174
           T QLMKRE+G  V  P ++W
Sbjct: 293 TMQLMKREKGVLVALPKSKW 312

Transcriptional factor involved in the regulation of MAG expression. Participates in the peripheral nerve development and expression.
Mus musculus (taxid: 10090)

>sp|Q08E13|RNF10_BOVIN RING finger protein 10 OS=Bos taurus GN=RNF10 PE=2 SV=1

 Score =  172 bits (436), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 77/140 (55%), Positives = 98/140 (70%), Gaps = 1/140 (0%)

Query: 36  HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
           HK +NKE FLQANCQFVV   +DY +H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct: 173 HKPFNKELFLQANCQFVVSEDQDYTVHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query: 95  RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
            A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +   R   V + +
Sbjct: 233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESRQYVVGDTI 292

Query: 155 TFQLMKRERGSTVVSPVAQW 174
           T QLMKRE+G  V  P ++W
Sbjct: 293 TMQLMKREKGVLVALPKSKW 312

Bos taurus (taxid: 9913)

>sp|Q8N5U6|RNF10_HUMAN RING finger protein 10 OS=Homo sapiens GN=RNF10 PE=1 SV=2

 Score =  169 bits (428), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 76/140 (54%), Positives = 96/140 (68%), Gaps = 1/140 (0%)

Query: 36  HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
           HK +NKE FLQANCQFVV   +DY  H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct: 173 HKPFNKELFLQANCQFVVSEDQDYTAHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query: 95  RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
            A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +       V + +
Sbjct: 233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESHQYVVGDTI 292

Query: 155 TFQLMKRERGSTVVSPVAQW 174
           T QLMKRE+G  V  P ++W
Sbjct: 293 TMQLMKREKGVLVALPKSKW 312

Transcriptional factor involved in the regulation of MAG expression. Participates in the peripheral nerve development and Schawnn cell differentiation.

Homo sapiens (taxid: 9606)

>sp|Q32NQ8|RNF10_XENLA RING finger protein 10 OS=Xenopus laevis GN=rnf10 PE=2 SV=1

 Score =  168 bits (425), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 72/137 (52%), Positives = 96/137 (70%)

Query: 38  YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAP 97
           +NKE FLQANCQFVV    DY +H  DPD LV W++++Q+R F +E   CPICL  P A 
Sbjct: 157 FNKELFLQANCQFVVSDVNDYSVHFTDPDTLVSWDFVEQVRIFSHEVASCPICLYPPVAA 216

Query: 98  QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQ 157
           ++TRCGH FCWPCILHYL+LS+K W +CPICY ++   DLKS  +      +V +++T Q
Sbjct: 217 KITRCGHIFCWPCILHYLSLSEKDWSRCPICYSSIIKKDLKSVVATETHLYSVGDKITMQ 276

Query: 158 LMKRERGSTVVSPVAQW 174
           LM+RE+G  V  P ++W
Sbjct: 277 LMRREKGVLVAMPKSKW 293

May acts as a transcriptional factor participating in nerve development and Schawnn cell differentiation.

Xenopus laevis (taxid: 8355)

>sp|Q5XI59|RNF10_RAT RING finger protein 10 OS=Rattus norvegicus GN=Rnf10 PE=2 SV=1

 Score =  167 bits (423), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 75/140 (53%), Positives = 97/140 (69%), Gaps = 1/140 (0%)

Query: 36  HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
           HK +NKE FLQANCQFVV   +DY  +  DPD LV W++++Q+R   +E   CPICL  P
Sbjct: 173 HKPFNKELFLQANCQFVVSEDQDYTANFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query: 95  RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
            A ++TRCGH FCW CILHYL+LS+++W KCPICY +VH  DLKS  +   R   V + +
Sbjct: 233 TAAKITRCGHIFCWACILHYLSLSERTWSKCPICYSSVHKKDLKSVVATESRQYVVGDTI 292

Query: 155 TFQLMKRERGSTVVSPVAQW 174
           T QLMKRE+G  V  P ++W
Sbjct: 293 TMQLMKREKGVLVALPKSKW 312

Transcriptional factor involved in the regulation of MAG expression. Participates in the peripheral nerve development and Schawnn cell differentiation.

Rattus norvegicus (taxid: 10116)

>sp|O94271|YORN_SCHPO Uncharacterized RING finger protein P8B7.23 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBP8B7.23 PE=4 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 61/204 (29%), Positives = 93/204 (45%), Gaps = 32/204 (15%)

Query: 19  SMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIR 78
           S GYN +      S H H  +K +++ AN +FVV    DY     DPD  VKWE + Q+ 
Sbjct: 149 SRGYNTY---GQGSGH-HPMDKSRYVNANYRFVVSPIGDYQSQKLDPDSPVKWEDVWQVL 204

Query: 79  GFGNEDI-KCPICL-DLPRAPQMTRCGHCFCWPCILHYLALSDKS--------------- 121
              +  +  CP CL + P A +M+RCGH +C+ C+L ++     +               
Sbjct: 205 CSSDFQLAACPFCLEEKPVAARMSRCGHVYCFSCLLRFVETPTAAEVKAAETSGTKIVKC 264

Query: 122 -WRKCPICYEAVHLGDLKSFRSVIKRARAVNEE---VTFQLMKRERGSTVVSPVA----- 172
             R CPIC++++ L D+   R V  +     EE   V  +L +R  GS +  P +     
Sbjct: 265 GHRSCPICWDSIRLRDVHPIRWVEDKEFQKLEEGKSVCLRLYQRNNGSILAFPRSCRSFA 324

Query: 173 -QWDFHPTDMLMNVSAKCNAYIAI 195
               FH +D + N +    AY  I
Sbjct: 325 LDGSFH-SDEIPNFTMSGAAYARI 347

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q5D7I0|TRIM5_SAISC Tripartite motif-containing protein 5 OS=Saimiri sciureus GN=TRIM5 PE=3 SV=1

 Score = 53.5 bits (127), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 5/80 (6%)

Query: 76  QIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCIL--HYLALSDKSWRKCPIC---YE 130
           +I G   E++ CPICL+L   P    CGH FC  CI   H  ++  +  R CP+C   Y+
Sbjct: 4   RILGSIKEEVTCPICLELLTEPLSLDCGHSFCQACITANHKESMLHQGERSCPLCRLPYQ 63

Query: 131 AVHLGDLKSFRSVIKRARAV 150
           + +L   +   S+++R R V
Sbjct: 64  SENLRPNRHLASIVERLREV 83

May have E3 ubiquitin-protein ligase activity.

Saimiri sciureus (taxid: 9521)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5BN31|TRIM5_SAIBB Tripartite motif-containing protein 5 OS=Saimiri boliviensis boliviensis GN=TRIM5 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/79 (35%), Positives = 42/79 (53%), Gaps = 5/79 (6%)

Query: 77  IRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCIL--HYLALSDKSWRKCPIC---YEA 131
           I G   E++ CPICL+L   P    CGH FC  CI   H  ++  +  R CP+C   Y++
Sbjct: 5   ILGSIKEEVTCPICLELLTEPLSLDCGHSFCQACITANHKESMLHQGERSCPLCRLPYQS 64

Query: 132 VHLGDLKSFRSVIKRARAV 150
            +L   +   S+++R R V
Sbjct: 65  ENLRPNRHLASIVERLREV 83

May have E3 ubiquitin-protein ligase activity.

Saimiri boliviensis boliviensis (taxid: 39432)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8GUK7|RMA3_ARATH E3 ubiquitin-protein ligase RMA3 OS=Arabidopsis thaliana GN=RMA3 PE=1 SV=1

 Score = 50.8 bits (120), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 25/67 (37%), Positives = 32/67 (47%), Gaps = 8/67 (11%)

Query: 79  GFGNED--IKCPICLDLPRAPQMTRCGHCFCWPCILHYLALS------DKSWRKCPICYE 130
           G  NE     C ICLD    P +T CGH FCWPCI  +L +       D+    CP+C  
Sbjct: 34  GQANESGCFDCNICLDTAHDPVVTLCGHLFCWPCIYKWLHVQLSSVSVDQHQNNCPVCKS 93

Query: 131 AVHLGDL 137
            + +  L
Sbjct: 94  NITITSL 100

E3 ubiquitin-protein ligase.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q1ACD7|TRIM5_NOMLE Tripartite motif-containing protein 5 OS=Nomascus leucogenys GN=TRIM5 PE=3 SV=1

 Score = 50.4 bits (119), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 5/73 (6%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCIL--HYLALSDKSWRKCPIC---YEAVHLGDL 137
           E++ CPICL+L   P    CGH FC  C+   H  ++ D+  R CP+C   Y+  ++   
Sbjct: 11  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKTSMPDEGERSCPVCRISYQHKNIQPN 70

Query: 138 KSFRSVIKRARAV 150
           +   +++++ R V
Sbjct: 71  RHVANIVEKLREV 83

May have E3 ubiquitin-protein ligase activity.

Nomascus leucogenys (taxid: 61853)

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	243
156543195	731	PREDICTED: RING finger protein 10-like [	0.876	0.291	0.460	5e-49
260803627	696	hypothetical protein BRAFLDRAFT_219134 [	0.683	0.238	0.566	1e-47
260829271	834	hypothetical protein BRAFLDRAFT_115063 [	0.683	0.199	0.566	2e-47
242013533	730	RING finger protein, putative [Pediculus	0.691	0.230	0.529	9e-47
312378057	791	hypothetical protein AND_10478 [Anophele	0.827	0.254	0.472	5e-46
328783042	695	PREDICTED: RING finger protein 10-like [	0.753	0.263	0.468	5e-45
170030316	762	RING finger protein 10 [Culex quinquefas	0.625	0.199	0.577	6e-45
380013198	710	PREDICTED: RING finger protein 10-like [	0.753	0.257	0.468	6e-45
383860120	721	PREDICTED: RING finger protein 10-like [	0.666	0.224	0.512	3e-44
410922311	765	PREDICTED: RING finger protein 10-like [	0.584	0.185	0.587	4e-44

>gi|156543195|ref|XP_001606231.1| PREDICTED: RING finger protein 10-like [Nasonia vitripennis]

 Score =  200 bits (508), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 104/226 (46%), Positives = 139/226 (61%), Gaps = 13/226 (5%)

Query: 4   RSSYGNRSQSRGTDY-SMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHL 62
           R   G  S  R + Y S  YN +L     +V +HKYNKEQFLQANCQFVV    DY ++L
Sbjct: 116 RDVQGGWSHGRASGYNSHHYNRWL----PAVQRHKYNKEQFLQANCQFVVTAKGDYSLYL 171

Query: 63  GDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSW 122
            DPD LV W+ IQQIR   ++++ CPICL  P A +MTRCGH +CWPCILHYLALSDKSW
Sbjct: 172 NDPDILVDWKLIQQIRVHSSDNLSCPICLCPPVAGKMTRCGHVYCWPCILHYLALSDKSW 231

Query: 123 RKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDML 182
           RKCPICYE++H  DLKS   + + A  + + ++ +LM+RE+G+ +  PV   +  P    
Sbjct: 232 RKCPICYESIHKSDLKSVVEITENALNIGDNISLRLMRREKGTLIAVPVNDIESAPPSTF 291

Query: 183 MNVSAK------CNAYIAINLDYPAIAPIFSVQLELPGKLIKTVHN 222
           ++VS            +A N D   I     VQL+L  +L++  H+
Sbjct: 292 LSVSENSCQQVYSKLLLAQNADIMDIIESERVQLKL--ELLEDPHS 335

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|260803627|ref|XP_002596691.1| hypothetical protein BRAFLDRAFT_219134 [Branchiostoma floridae] gi|229281950|gb|EEN52703.1| hypothetical protein BRAFLDRAFT_219134 [Branchiostoma floridae]

 Score =  195 bits (495), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 94/166 (56%), Positives = 111/166 (66%)

Query: 9   NRSQSRGTDYSMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQL 68
           N SQ  G  +S   +        S   H +NKEQFLQ+NCQFVVR   DY +H  DPD L
Sbjct: 36  NASQYGGGQHSSWKSRNKWGRKGSGAAHPFNKEQFLQSNCQFVVRDTGDYTVHSADPDTL 95

Query: 69  VKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           V W+ I+Q+R F NE   CPICL  P A ++TRCGH +CWPCILHYLALSDKSWRKCPIC
Sbjct: 96  VDWDSIEQVRLFSNEVPSCPICLYPPTAAKITRCGHIYCWPCILHYLALSDKSWRKCPIC 155

Query: 129 YEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQW 174
           Y+AVH  DLKS  ++     AV   +T +LMKRERGS V  PV+QW
Sbjct: 156 YDAVHKKDLKSVVAMEAPQYAVGGTITMRLMKRERGSVVALPVSQW 201

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|260829271|ref|XP_002609585.1| hypothetical protein BRAFLDRAFT_115063 [Branchiostoma floridae] gi|229294947|gb|EEN65595.1| hypothetical protein BRAFLDRAFT_115063 [Branchiostoma floridae]

 Score =  195 bits (495), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 94/166 (56%), Positives = 111/166 (66%)

Query: 9   NRSQSRGTDYSMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQL 68
           N SQ  G  +S   +        S   H +NKEQFLQ+NCQFVVR   DY +H  DPD L
Sbjct: 136 NASQYGGGQHSSWKSRNKWGRKGSGAAHPFNKEQFLQSNCQFVVRDTGDYTVHSADPDTL 195

Query: 69  VKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           V W+ I+Q+R F NE   CPICL  P A ++TRCGH +CWPCILHYLALSDKSWRKCPIC
Sbjct: 196 VDWDSIEQVRLFSNEVPSCPICLYPPTAAKITRCGHIYCWPCILHYLALSDKSWRKCPIC 255

Query: 129 YEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQW 174
           Y+AVH  DLKS  ++     AV   +T +LMKRERGS V  PV+QW
Sbjct: 256 YDAVHKKDLKSVVAMEAPQYAVGGTITMRLMKRERGSVVALPVSQW 301

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|242013533|ref|XP_002427459.1| RING finger protein, putative [Pediculus humanus corporis] gi|212511845|gb|EEB14721.1| RING finger protein, putative [Pediculus humanus corporis]

 Score =  192 bits (488), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 89/168 (52%), Positives = 116/168 (69%)

Query: 19  SMGYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIR 78
           S  ++ F   +  +  KHKYNKE FLQANCQFVV+   DY  HL DPD LV+W  I+QIR
Sbjct: 129 STNWSQFTSPNWFATQKHKYNKEHFLQANCQFVVKEDADYTPHLVDPDLLVEWNQIEQIR 188

Query: 79  GFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
              +  + CPICLD P A ++TRCGH +CW CILHYLALSDK+WRKCPICYEA+H  DLK
Sbjct: 189 LQCSALVSCPICLDTPTAAKITRCGHVYCWSCILHYLALSDKTWRKCPICYEAIHKNDLK 248

Query: 139 SFRSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDMLMNVS 186
           S  ++      + EE+TF+LMKR+RGS +  PV + +  P   L++++
Sbjct: 249 SVVTLAYPVYNLGEEITFKLMKRDRGSLLPIPVEECNRKPITGLLSLT 296

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312378057|gb|EFR24732.1| hypothetical protein AND_10478 [Anopheles darlingi]

 Score =  190 bits (482), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 96/203 (47%), Positives = 121/203 (59%), Gaps = 2/203 (0%)

Query: 35  KHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
           +H+YNKEQFLQANCQFVVR GEDYG+    PDQLV W  I+QI     E+ +CPICL  P
Sbjct: 175 QHRYNKEQFLQANCQFVVRAGEDYGLFQASPDQLVDWAKIEQIHVLSAEEPQCPICLYPP 234

Query: 95  RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
            A +MT+CGH +CWPCILHYLALSDK+WRKCPICY+A+HL DL+S  S    A    E V
Sbjct: 235 VAAKMTKCGHVYCWPCILHYLALSDKAWRKCPICYDAIHLPDLRSAVSKPFHAYGTGEYV 294

Query: 155 TFQLMKRERGSTVVSPVAQWDFHPT--DMLMNVSAKCNAYIAINLDYPAIAPIFSVQLEL 212
           T QLM+RE+GS  V  V       T  + + +  A     I   L     A I ++    
Sbjct: 295 TLQLMRREKGSMTVIEVTDEPTLTTTENTIPHFDANGGNSILTKLLLTDTAQILNIMDRE 354

Query: 213 PGKLIKTVHNDDAVRCCDSFLIQ 235
             +L   +  D  V   ++  +Q
Sbjct: 355 KAELENQIVADGGVESPENMFVQ 377

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328783042|ref|XP_392932.3| PREDICTED: RING finger protein 10-like [Apis mellifera]

 Score =  186 bits (473), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 88/188 (46%), Positives = 118/188 (62%), Gaps = 5/188 (2%)

Query: 30  LASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPI 89
           L  V +HKYNKEQFLQA+CQFVV    +Y ++L DPD LV W +++QI+   +E + CPI
Sbjct: 140 LPPVQRHKYNKEQFLQASCQFVVSANGNYSLYLSDPDILVDWRWVEQIKLHSSESLSCPI 199

Query: 90  CLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARA 149
           CL  P A +MTRCGH +CWPCILHYL+LSDKSWRKCPICYE++   DLKS   V +    
Sbjct: 200 CLCSPVAGKMTRCGHVYCWPCILHYLSLSDKSWRKCPICYESIQKSDLKSVNEVTQSTLN 259

Query: 150 VNEEVTFQLMKRERGSTVVSPVAQ-----WDFHPTDMLMNVSAKCNAYIAINLDYPAIAP 204
           + + +T +LM+RE+GS +  PV        +F P   +++        IA   D   I  
Sbjct: 260 LGDTITLRLMRREKGSLLAVPVGSIIQNPTNFFPVSDIISNQVYSKLLIANTKDVKNIIE 319

Query: 205 IFSVQLEL 212
              +QL+L
Sbjct: 320 SERIQLQL 327

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170030316|ref|XP_001843035.1| RING finger protein 10 [Culex quinquefasciatus] gi|167866927|gb|EDS30310.1| RING finger protein 10 [Culex quinquefasciatus]

 Score =  186 bits (473), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 89/154 (57%), Positives = 108/154 (70%), Gaps = 2/154 (1%)

Query: 33  VHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLD 92
             K  YNKEQFLQANCQFVVR GEDY   L  PDQLV+W  I+QI     E+ KCPICL 
Sbjct: 172 TKKFSYNKEQFLQANCQFVVRSGEDYEACLASPDQLVEWSKIEQIHILSAEEPKCPICLY 231

Query: 93  LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNE 152
            P A +MT+CGH +CWPCILHYLALSDKSWRKCPICY+A+H+ DL+S  S    + A+ E
Sbjct: 232 PPVAAKMTKCGHVYCWPCILHYLALSDKSWRKCPICYDAIHVPDLRSAVSKPFHSYAIGE 291

Query: 153 EVTFQLMKRERGSTVVSPVAQ--WDFHPTDMLMN 184
            VTFQLM+RE+ S  ++  ++   D  PT  L +
Sbjct: 292 YVTFQLMRREKTSMALALASEDAADGPPTSTLYD 325

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380013198|ref|XP_003690653.1| PREDICTED: RING finger protein 10-like [Apis florea]

 Score =  186 bits (472), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 88/188 (46%), Positives = 118/188 (62%), Gaps = 5/188 (2%)

Query: 30  LASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPI 89
           L  V +HKYNKEQFLQA+CQFVV    +Y ++L DPD LV W +++QI+   +E + CPI
Sbjct: 140 LPPVQRHKYNKEQFLQASCQFVVSANGNYTLYLSDPDILVDWRWVEQIKLHSSESLSCPI 199

Query: 90  CLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARA 149
           CL  P A +MTRCGH +CWPCILHYL+LSDKSWRKCPICYE++   DLKS   V +    
Sbjct: 200 CLCPPVAGKMTRCGHVYCWPCILHYLSLSDKSWRKCPICYESIQKSDLKSVNEVTQSTLN 259

Query: 150 VNEEVTFQLMKRERGSTVVSPVAQ-----WDFHPTDMLMNVSAKCNAYIAINLDYPAIAP 204
           + + +T +LM+RE+GS +  PV        +F P   +++        IA   D   I  
Sbjct: 260 LGDTITLRLMRREKGSLLAVPVGSVIQNPTNFFPVSDIISNQVYSKLLIANTKDVKNIIE 319

Query: 205 IFSVQLEL 212
              +QL+L
Sbjct: 320 SERIQLQL 327

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383860120|ref|XP_003705539.1| PREDICTED: RING finger protein 10-like [Megachile rotundata]

 Score =  184 bits (467), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 83/162 (51%), Positives = 109/162 (67%)

Query: 21  GYNNFLMQSLASVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGF 80
           GY+    + L  V +HKYNKEQFLQA+CQFVV    +Y ++L DPD LV W+ ++QI+  
Sbjct: 132 GYSRNSNRWLPPVQRHKYNKEQFLQASCQFVVTANGNYSLYLTDPDILVDWKLVEQIKIH 191

Query: 81  GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF 140
             E++ CPICL  P A +MTRCGH +CW CILHYL+LSDKSWRKCPICYE++   DLKS 
Sbjct: 192 SPENLSCPICLYAPVAGKMTRCGHVYCWSCILHYLSLSDKSWRKCPICYESIQKSDLKSV 251

Query: 141 RSVIKRARAVNEEVTFQLMKRERGSTVVSPVAQWDFHPTDML 182
             V +    + + VT +LM+RE+GS +  PV      PT+  
Sbjct: 252 TEVAQSTLNLGDTVTLRLMRREKGSLLAVPVGSVTQSPTNFF 293

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|410922311|ref|XP_003974626.1| PREDICTED: RING finger protein 10-like [Takifugu rubripes]

 Score =  184 bits (466), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 84/143 (58%), Positives = 103/143 (72%), Gaps = 1/143 (0%)

Query: 34  HKHK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLD 92
           HKHK +NKE FLQANCQFVV   +DY  H  DPD LV W+ +QQ+R   +E   CPICL 
Sbjct: 145 HKHKPFNKELFLQANCQFVVNDEQDYKAHFTDPDTLVNWDCVQQVRINSHEVPSCPICLY 204

Query: 93  LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNE 152
            P A ++TRCGH FCWPC+LHYL+LSDKSW KCPICYEAVH  DLKS  ++  R   V +
Sbjct: 205 PPLAARITRCGHIFCWPCMLHYLSLSDKSWSKCPICYEAVHTADLKSVVAMETRQYVVGD 264

Query: 153 EVTFQLMKRERGSTVVSPVAQWD 175
            +T +LM+RE+GS V  P +QW+
Sbjct: 265 VITMRLMRREKGSLVAMPSSQWE 287

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

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	243
ZFIN|ZDB-GENE-030131-2969	778	rnf10 "ring finger protein 10"	0.580	0.181	0.577	3.6e-42
MGI|MGI:1859162	804	Rnf10 "ring finger protein 10"	0.596	0.180	0.54	1.1e-40
UNIPROTKB|F1N8N9	830	RNF10 "Uncharacterized protein	0.572	0.167	0.542	1.2e-40
UNIPROTKB|Q08E13	810	RNF10 "RING finger protein 10"	0.572	0.171	0.55	2.4e-40
UNIPROTKB|J9PBL6	749	RNF10 "Uncharacterized protein	0.572	0.185	0.542	3.6e-40
FB|FBgn0035232	708	CG12099 [Drosophila melanogast	0.559	0.192	0.562	4.5e-40
UNIPROTKB|E2RE56	961	RNF10 "Uncharacterized protein	0.572	0.144	0.542	8.4e-40
UNIPROTKB|Q8N5U6	811	RNF10 "RING finger protein 10"	0.572	0.171	0.542	2.3e-39
UNIPROTKB|Q32NQ8	756	rnf10 "RING finger protein 10"	0.563	0.181	0.525	6e-39
RGD|1309282	802	Rnf10 "ring finger protein 10"	0.572	0.173	0.535	7.6e-39

ZFIN|ZDB-GENE-030131-2969 rnf10 "ring finger protein 10" [Danio rerio (taxid:7955)]

 Score = 453 (164.5 bits), Expect = 3.6e-42, P = 3.6e-42
 Identities = 82/142 (57%), Positives = 99/142 (69%)

Query:    34 HKHK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLD 92
             HKHK +NKE FLQANCQFVV   +DY  H  DPD LV W+ +QQ+R + +E   CPICL 
Sbjct:   168 HKHKPFNKELFLQANCQFVVSDDQDYQAHFTDPDTLVDWDCVQQVRIYSHEVPSCPICLY 227

Query:    93 LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNE 152
              P A  MTRCGH +CWPC+LHYL+LS+KSW KCPICYEAVH  DLKS  ++  R      
Sbjct:   228 PPVAAHMTRCGHIYCWPCMLHYLSLSEKSWSKCPICYEAVHSADLKSVVAMETRQYVSGN 287

Query:   153 EVTFQLMKRERGSTVVSPVAQW 174
              +T  LM+RE+GS V  P +QW
Sbjct:   288 SITMCLMRREKGSLVALPSSQW 309

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:1859162 Rnf10 "ring finger protein 10" [Mus musculus (taxid:10090)]

 Score = 440 (159.9 bits), Expect = 1.1e-40, P = 1.1e-40
 Identities = 81/150 (54%), Positives = 103/150 (68%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY  H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   173 HKPFNKELFLQANCQFVVSEDQDYAAHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +   R  AV + +
Sbjct:   233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESRQYAVGDTI 292

Query:   155 TFQLMKRERGSTVVSPVAQW---DFHPTDM 181
             T QLMKRE+G  V  P ++W   D HP ++
Sbjct:   293 TMQLMKREKGVLVALPKSKWVNVD-HPINL 321

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

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

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010626 "negative regulation of Schwann cell proliferation" evidence=ISO

GO:0031643 "positive regulation of myelination" evidence=ISO

GO:0044212 "transcription regulatory region DNA binding" evidence=ISO

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

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1N8N9 RNF10 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 440 (159.9 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 76/140 (54%), Positives = 100/140 (71%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY +H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   204 HKPFNKELFLQANCQFVVSEEQDYTVHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 263

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  ++  R  A+ + +
Sbjct:   264 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVAMATRQYAIGDVI 323

Query:   155 TFQLMKRERGSTVVSPVAQW 174
             T QLM+RE+G  +  P +QW
Sbjct:   324 TMQLMRREKGVLIALPKSQW 343

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

UNIPROTKB|Q08E13 RNF10 "RING finger protein 10" [Bos taurus (taxid:9913)]

 Score = 437 (158.9 bits), Expect = 2.4e-40, P = 2.4e-40
 Identities = 77/140 (55%), Positives = 98/140 (70%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY +H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   173 HKPFNKELFLQANCQFVVSEDQDYTVHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +   R   V + +
Sbjct:   233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESRQYVVGDTI 292

Query:   155 TFQLMKRERGSTVVSPVAQW 174
             T QLMKRE+G  V  P ++W
Sbjct:   293 TMQLMKREKGVLVALPKSKW 312

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|J9PBL6 RNF10 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 434 (157.8 bits), Expect = 3.6e-40, P = 3.6e-40
 Identities = 76/140 (54%), Positives = 98/140 (70%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY +H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   173 HKPFNKELFLQANCQFVVSEDQDYTVHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +   R   V + +
Sbjct:   233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESRQYVVGDTI 292

Query:   155 TFQLMKRERGSTVVSPVAQW 174
             T QLMKRE+G  +  P ++W
Sbjct:   293 TMQLMKREKGVLLALPKSKW 312

GO:0008270 "zinc ion binding" evidence=IEA

FB|FBgn0035232 CG12099 [Drosophila melanogaster (taxid:7227)]

 Score = 432 (157.1 bits), Expect = 4.5e-40, P = 4.5e-40
 Identities = 77/137 (56%), Positives = 99/137 (72%)

Query:    32 SVHKHKYNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICL 91
             S  K +YNKEQFLQAN QFV+R G    ++ G PD L+ W YI+QI     E+++CPICL
Sbjct:   158 SGRKQRYNKEQFLQANFQFVIRSGAKAQVN-GSPDALIDWSYIEQINIQTTEELQCPICL 216

Query:    92 DLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVN 151
               P A ++TRCGH +CWPC+LHYL+LSDK+WRKCPICY+A+H GDLKS      R   V 
Sbjct:   217 YPPVAAKLTRCGHAYCWPCLLHYLSLSDKTWRKCPICYDAIHAGDLKSCTIEQLRDLQVG 276

Query:   152 EEVTFQLMKRERGSTVV 168
             E++TFQLM+R +GS  +
Sbjct:   277 EKITFQLMRRRKGSMYI 293

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2RE56 RNF10 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 434 (157.8 bits), Expect = 8.4e-40, P = 8.4e-40
 Identities = 76/140 (54%), Positives = 98/140 (70%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY +H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   327 HKPFNKELFLQANCQFVVSEDQDYTVHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 386

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +   R   V + +
Sbjct:   387 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESRQYVVGDTI 446

Query:   155 TFQLMKRERGSTVVSPVAQW 174
             T QLMKRE+G  +  P ++W
Sbjct:   447 TMQLMKREKGVLLALPKSKW 466

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q8N5U6 RNF10 "RING finger protein 10" [Homo sapiens (taxid:9606)]

 Score = 428 (155.7 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 76/140 (54%), Positives = 96/140 (68%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY  H  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   173 HKPFNKELFLQANCQFVVSEDQDYTAHFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+K+W KCPICY +VH  DLKS  +       V + +
Sbjct:   233 TAAKITRCGHIFCWACILHYLSLSEKTWSKCPICYSSVHKKDLKSVVATESHQYVVGDTI 292

Query:   155 TFQLMKRERGSTVVSPVAQW 174
             T QLMKRE+G  V  P ++W
Sbjct:   293 TMQLMKREKGVLVALPKSKW 312

GO:0008270 "zinc ion binding" evidence=IEA

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0044212 "transcription regulatory region DNA binding" evidence=ISS

GO:0010626 "negative regulation of Schwann cell proliferation" evidence=ISS

GO:0031643 "positive regulation of myelination" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

UNIPROTKB|Q32NQ8 rnf10 "RING finger protein 10" [Xenopus laevis (taxid:8355)]

 Score = 423 (154.0 bits), Expect = 6.0e-39, P = 6.0e-39
 Identities = 72/137 (52%), Positives = 96/137 (70%)

Query:    38 YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAP 97
             +NKE FLQANCQFVV    DY +H  DPD LV W++++Q+R F +E   CPICL  P A 
Sbjct:   157 FNKELFLQANCQFVVSDVNDYSVHFTDPDTLVSWDFVEQVRIFSHEVASCPICLYPPVAA 216

Query:    98 QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQ 157
             ++TRCGH FCWPCILHYL+LS+K W +CPICY ++   DLKS  +      +V +++T Q
Sbjct:   217 KITRCGHIFCWPCILHYLSLSEKDWSRCPICYSSIIKKDLKSVVATETHLYSVGDKITMQ 276

Query:   158 LMKRERGSTVVSPVAQW 174
             LM+RE+G  V  P ++W
Sbjct:   277 LMRREKGVLVAMPKSKW 293

GO:0005634 "nucleus" evidence=ISS

GO:0010626 "negative regulation of Schwann cell proliferation" evidence=ISS

GO:0031643 "positive regulation of myelination" evidence=ISS

GO:0044212 "transcription regulatory region DNA binding" evidence=ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISS

RGD|1309282 Rnf10 "ring finger protein 10" [Rattus norvegicus (taxid:10116)]

 Score = 423 (154.0 bits), Expect = 7.6e-39, P = 7.6e-39
 Identities = 75/140 (53%), Positives = 97/140 (69%)

Query:    36 HK-YNKEQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLP 94
             HK +NKE FLQANCQFVV   +DY  +  DPD LV W++++Q+R   +E   CPICL  P
Sbjct:   173 HKPFNKELFLQANCQFVVSEDQDYTANFADPDTLVNWDFVEQVRICSHEVPSCPICLYPP 232

Query:    95 RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
              A ++TRCGH FCW CILHYL+LS+++W KCPICY +VH  DLKS  +   R   V + +
Sbjct:   233 TAAKITRCGHIFCWACILHYLSLSERTWSKCPICYSSVHKKDLKSVVATESRQYVVGDTI 292

Query:   155 TFQLMKRERGSTVVSPVAQW 174
             T QLMKRE+G  V  P ++W
Sbjct:   293 TMQLMKREKGVLVALPKSKW 312

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA;ISO

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010626 "negative regulation of Schwann cell proliferation" evidence=IDA

GO:0031643 "positive regulation of myelination" evidence=IMP

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

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

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q3UIW5	RNF10_MOUSE	No assigned EC number	0.5571	0.5720	0.1728	yes	N/A
Q5XI59	RNF10_RAT	No assigned EC number	0.5357	0.5720	0.1733	yes	N/A
Q08E13	RNF10_BOVIN	No assigned EC number	0.55	0.5720	0.1716	yes	N/A
Q8N5U6	RNF10_HUMAN	No assigned EC number	0.5428	0.5720	0.1713	yes	N/A

EC Number Prediction by EFICAz Software

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	243
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	2e-10
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-08
PLN03208	193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	5e-08
smart00184	40	smart00184, RING, Ring finger	2e-07
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	5e-05
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	7e-05
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	7e-05
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	1e-04
pfam13445	55	pfam13445, zf-RING_LisH, RING-type zinc-finger, Li	0.001

>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 58.8 bits (142), Expect = 2e-10
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 74  IQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
              +      D KC +CL+ P  P  T CGH FC  C+L  ++ + K +  CP+C   V+
Sbjct: 205 KNGLPFIPLADYKCFLCLEEPEVPSCTPCGHLFCLSCLL--ISWTKKKYEFCPLCRAKVY 262

Query: 134 LGD 136
              
Sbjct: 263 PKK 265

Length = 271

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

 Score = 51.0 bits (122), Expect = 3e-09
 Identities = 26/47 (55%), Positives = 30/47 (63%), Gaps = 5/47 (10%)

Query: 83  EDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           E+++CPICLDL R P + T CGH FC  CIL YL        KCPIC
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKK----SKCPIC 43

Length = 45

>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 = 18/44 (40%), Positives = 23/44 (52%), Gaps = 4/44 (9%)

Query: 86  KCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +CPICL+  R P  +  CGH FC  CI  +L         CP+C
Sbjct: 1   ECPICLEEFREPVVLLPCGHVFCRSCIDKWL---KSGKNTCPLC 41

Length = 45

>gnl|CDD|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional

 Score = 51.2 bits (122), Expect = 5e-08
 Identities = 25/61 (40%), Positives = 30/61 (49%), Gaps = 12/61 (19%)

Query: 84  DIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWR------------KCPICYEA 131
           D  C ICLD  R P +T CGH FCWPCI  +   S+ S +            KCP+C   
Sbjct: 18  DFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSD 77

Query: 132 V 132
           V
Sbjct: 78  V 78

Length = 193

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

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 87  CPICLD-LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           CPICL+   + P +  CGH FC  CI  +L   +     CPIC
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGN---NTCPIC 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|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 42.8 bits (101), Expect = 3e-06
 Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 7/45 (15%)

Query: 87  CPICLD---LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           CPICLD         +  CGH F   C+  +L    +S   CP+C
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWL----RSSNTCPLC 43

Length = 46

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

 Score = 40.5 bits (95), Expect = 2e-05
 Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 87  CPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           CPICL+ P+ P  +  CGH FC  CIL +L   +     CP+C
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWL---ESGNVTCPLC 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|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 43.5 bits (102), Expect = 5e-05
 Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 4/44 (9%)

Query: 85  IKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           ++C IC D    P +T C H FC  CI   L+       KCP+C
Sbjct: 27  LRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP----KCPLC 66

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|227547 COG5222, COG5222, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 43.2 bits (101), Expect = 7e-05
 Identities = 27/66 (40%), Positives = 31/66 (46%), Gaps = 11/66 (16%)

Query: 64  DPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSW 122
            PDQ+ K +         N  +KCP+C  L R P  T  CGH FC  CI   L  SD   
Sbjct: 261 IPDQVYKMQ-------PPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDF-- 311

Query: 123 RKCPIC 128
            KCP C
Sbjct: 312 -KCPNC 316

Length = 427

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

 Score = 38.9 bits (91), Expect = 7e-05
 Identities = 19/47 (40%), Positives = 22/47 (46%), Gaps = 6/47 (12%)

Query: 83  EDIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
           ED  C ICL+ PR      CGH C C  C     +      +KCPIC
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSK-----KKCPIC 42

Length = 49

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

 Score = 42.4 bits (99), Expect = 1e-04
 Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 85  IKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYE 130
           ++C IC      P  T CGH FC  CI  +L         CP+C E
Sbjct: 26  LRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP----FCPVCRE 67

Length = 391

>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation motif

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 6/45 (13%)

Query: 87  CPICLDL----PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPI 127
           CPI  ++       P M  CGH +    +        K   KCP 
Sbjct: 13  CPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGK--FKCPY 55

This zinc-finger is the dimerisation motif for LisH proteins, and is also a typical RING-type of plant ubiquitin ligases. Length = 55

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	243
KOG2164|consensus	513		99.78
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.46
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.38
KOG0823|consensus	230		99.37
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.3
KOG0317|consensus	293		99.22
KOG0287|consensus	442		99.21
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.2
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.13
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.13
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.1
KOG0320|consensus	187		99.1
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.1
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.05
PHA02929	238	N1R/p28-like protein; Provisional	99.05
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.02
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.98
PHA02926	242	zinc finger-like protein; Provisional	98.9
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.89
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.86
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.83
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.82
KOG2177|consensus	386		98.82
PF14634	44	zf-RING_5: zinc-RING finger domain	98.77
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.74
KOG0978|consensus	698		98.64
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.54
KOG4628|consensus	348		98.4
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.39
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.38
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.35
KOG0802|consensus	543		98.28
KOG0311|consensus	381		98.22
KOG0824|consensus	324		98.16
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.03
KOG4159|consensus	398		98.02
KOG2660|consensus	331		98.02
KOG4172|consensus	62		98.0
KOG2879|consensus	298		97.97
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.96
COG5152	259	Uncharacterized conserved protein, contains RING a	97.77
KOG4692|consensus	489		97.66
KOG1002|consensus	791		97.65
KOG0804|consensus	493		97.58
KOG0297|consensus	391		97.56
KOG1645|consensus	463		97.53
KOG1813|consensus	313		97.49
KOG4265|consensus	349		97.31
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.29
KOG0828|consensus	636		97.26
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.14
KOG1785|consensus	563		97.09
KOG1039|consensus	344		97.08
KOG0827|consensus	465		97.02
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	96.98
KOG1734|consensus	328		96.81
COG5219	1525	Uncharacterized conserved protein, contains RING Z	96.63
KOG4367|consensus	699		96.57
KOG3039|consensus	303		96.5
KOG4275|consensus	350		96.5
KOG1493|consensus	84		96.5
KOG1001|consensus	674		96.48
KOG0825|consensus	1134		96.34
KOG1571|consensus	355		96.29
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.06
KOG4185|consensus	296		96.03
PF04641	260	Rtf2: Rtf2 RING-finger	95.98
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.86
KOG0826|consensus	357		95.79
KOG3800|consensus	300		95.76
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.74
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.62
KOG2930|consensus	114		95.61
KOG1941|consensus	518		95.27
KOG4739|consensus	233		94.97
KOG4362|consensus	684		94.68
COG5236	493	Uncharacterized conserved protein, contains RING Z	94.54
KOG3161|consensus	861		94.43
KOG1814|consensus	445		94.4
KOG3002|consensus	299		94.35
KOG2817|consensus	394		94.04
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	93.79
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	93.57
PHA03096	284	p28-like protein; Provisional	93.54
KOG4445|consensus	368		93.51
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.6
KOG2932|consensus	389		92.57
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	92.36
KOG2114|consensus	933		92.22
KOG3039|consensus	303		92.13
KOG0298|consensus	1394		91.91
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	91.18
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.17
KOG1428|consensus	3738		90.93
PHA02825	162	LAP/PHD finger-like protein; Provisional	90.29
KOG3970|consensus	299		90.04
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	89.2
KOG1940|consensus	276		88.41
KOG3579|consensus	352		88.1
KOG3899|consensus	381		87.68
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	87.55
KOG1952|consensus	950		87.06
COG5109	396	Uncharacterized conserved protein, contains RING Z	86.9
KOG1812|consensus	384		86.89
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	84.82
KOG3268|consensus	234		84.45
PHA02862	156	5L protein; Provisional	84.27
KOG1815|consensus	444		83.93
KOG2169|consensus	636		83.62
KOG1100|consensus	207		82.37
COG3813	84	Uncharacterized protein conserved in bacteria [Fun	80.4

>KOG2164|consensus

Probab=99.78  E-value=1.2e-19  Score=165.76  Aligned_cols=116  Identities=41%  Similarity=0.757  Sum_probs=98.6

Q ss_pred             hhhhccceeEEEcCCCcccccCCCCcccCChhhHhhhhccCCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhC-C
Q psy3978          41 EQFLQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALS-D  119 (243)
Q Consensus        41 ~~~~~~n~~f~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~-~  119 (243)
                      +.|++|||+|+|. .++|.....+||.+++|+++.++....  +..||||++.+..|+++.|||.||+.||.+||... .
T Consensus       146 q~f~~any~fvv~-~gd~~~qn~dpD~p~~~e~i~qv~~~t--~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~  222 (513)
T KOG2164|consen  146 QTFLNANYRFVVD-EGDYVLQNTDPDAPVDWEDIFQVYGST--DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAI  222 (513)
T ss_pred             hhhhccchheeec-ccchhhhccCCccccchHHhhhhhcCc--CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcc
Confidence            3799999999999 999999999999999999999976443  89999999999999999999999999999999987 3


Q ss_pred             CCCCCCCCCCccccCCCCcchhHHHHhhhccCccceeeeeeecCC
Q psy3978         120 KSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKRERG  164 (243)
Q Consensus       120 ~~~~~CP~Cr~~~~~~~l~~~~~~~~~~~~~~~~~~l~l~~r~~~  164 (243)
                      ..+..||+|+..+..+++.++.......     ...++++++..|
T Consensus       223 ~~~~~CPiC~s~I~~kdl~pv~~e~~qk-----ke~l~~~~~~ng  262 (513)
T KOG2164|consen  223 KGPCSCPICRSTITLKDLLPVFIEDDQK-----KEELKLHQDPNG  262 (513)
T ss_pred             cCCccCCchhhhccccceeeeeeccccc-----cHHHHHHhcccC
Confidence            4557999999999999999988765521     112555555554

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

Probab=99.46  E-value=4.2e-14  Score=89.01  Aligned_cols=42  Identities=43%  Similarity=0.959  Sum_probs=33.5

Q ss_pred             ccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          87 CPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        87 CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      ||||+++|.+|++++|||+||..||.+|++...+....||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999999999999999999999999998765444689987

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.38  E-value=3e-13  Score=111.08  Aligned_cols=63  Identities=40%  Similarity=0.857  Sum_probs=52.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhC------------CCCCCCCCCCCccccCCCCcchhHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALS------------DKSWRKCPICYEAVHLGDLKSFRSV  143 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~------------~~~~~~CP~Cr~~~~~~~l~~~~~~  143 (243)
                      ..+++.|+||++.+.+|++++|||.||+.||.+|+...            .+....||+|+..+....+.+++..
T Consensus        15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr   89 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR   89 (193)
T ss_pred             CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence            45778999999999999999999999999999998642            1123689999999988887776544

>KOG0823|consensus

Probab=99.37  E-value=2.6e-13  Score=113.41  Aligned_cols=63  Identities=35%  Similarity=0.896  Sum_probs=54.4

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVI  144 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~  144 (243)
                      .-..+.|.||++...+||++.|||.|||.||.+|+..+... ..||+|+..+....+.|++-..
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~-~~cPVCK~~Vs~~~vvPlYGrG  106 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNS-KECPVCKAEVSIDTVVPLYGRG  106 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCC-eeCCccccccccceEEeeeccC
Confidence            45678999999999999999999999999999999977543 6899999999988877766543

>smart00504 Ubox Modified RING finger domain

Probab=99.30  E-value=4.6e-12  Score=86.41  Aligned_cols=58  Identities=19%  Similarity=0.341  Sum_probs=51.7

Q ss_pred             CccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          84 DIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      ++.||||++.+.+|++++|||+||..||.+|+...    ..||+|+..+...++.++..+..
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~----~~cP~~~~~~~~~~l~~~~~l~~   58 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSH----GTDPVTGQPLTHEDLIPNLALKS   58 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHC----CCCCCCcCCCChhhceeCHHHHH
Confidence            46799999999999999999999999999999874    68999999998888888766654

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

>KOG0317|consensus

Probab=99.22  E-value=5.5e-12  Score=108.49  Aligned_cols=53  Identities=36%  Similarity=0.951  Sum_probs=48.0

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL  137 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l  137 (243)
                      .+....|.+|++...+|.-|+|||.|||.||..|....    ..||+||..+.+.++
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek----~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEK----AECPLCREKFQPSKV  288 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccc----cCCCcccccCCCcce
Confidence            46668999999999999999999999999999999987    579999999987654

>KOG0287|consensus

Probab=99.21  E-value=3.3e-12  Score=111.71  Aligned_cols=62  Identities=31%  Similarity=0.706  Sum_probs=57.3

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+.++|-||.++|..|++++|||+||.-||..++..+    ..||.|+..+...+++.+..+..+
T Consensus        20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~----p~CP~C~~~~~Es~Lr~n~il~Ei   81 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYK----PQCPTCCVTVTESDLRNNRILDEI   81 (442)
T ss_pred             hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccC----CCCCceecccchhhhhhhhHHHHH
Confidence            56778999999999999999999999999999999988    799999999999999998887654

>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=99.20  E-value=1.2e-11  Score=76.66  Aligned_cols=38  Identities=58%  Similarity=1.318  Sum_probs=33.2

Q ss_pred             ccccCCCCCCc-EEcCCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          87 CPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        87 CpICl~~~~~p-~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      |+||++.+.+| +.++|||+||..|+.+|++.+    ..||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~----~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKN----PKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCT----SB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCc----CCCcCC
Confidence            89999999999 579999999999999999884    799988

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

Probab=99.13  E-value=4.8e-11  Score=84.19  Aligned_cols=62  Identities=23%  Similarity=0.388  Sum_probs=50.4

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      .+++.|||+.++|.+|+++++||+|+..||.+|+....   ..||.|+..+...++.+|..+...
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~---~~~P~t~~~l~~~~l~pn~~Lk~~   63 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNG---GTDPFTRQPLSESDLIPNRALKSA   63 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTS---SB-TTT-SB-SGGGSEE-HHHHHH
T ss_pred             CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCC---CCCCCCCCcCCcccceECHHHHHH
Confidence            57889999999999999999999999999999999843   799999999999999998887643

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.13  E-value=4e-11  Score=109.27  Aligned_cols=61  Identities=33%  Similarity=0.670  Sum_probs=54.0

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      .+..+.|+||++.+.+|++++|||.||..||..|+...    ..||+|+..+....+..+..+..
T Consensus        23 Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~----~~CP~Cr~~~~~~~Lr~N~~L~~   83 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ----PKCPLCRAEDQESKLRSNWLVSE   83 (397)
T ss_pred             cccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC----CCCCCCCCccccccCccchHHHH
Confidence            57889999999999999999999999999999999865    58999999998877877776644

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

>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=99.10  E-value=6.7e-11  Score=77.22  Aligned_cols=47  Identities=43%  Similarity=1.013  Sum_probs=40.2

Q ss_pred             CCccccccCCCCCCcEEcCCCcc-ccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          83 EDIKCPICLDLPRAPQMTRCGHC-FCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ++..|+||++.+.++++++|||. ||..|+.+|+...    ..||+||+++.
T Consensus         1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRK----KKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTT----SBBTTTTBB-S
T ss_pred             CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccC----CCCCcCChhhc
Confidence            35679999999999999999999 9999999999855    79999999874

...

>KOG0320|consensus

Probab=99.10  E-value=4.2e-11  Score=96.34  Aligned_cols=55  Identities=38%  Similarity=0.855  Sum_probs=46.4

Q ss_pred             CCCccccccCCCCCC--cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          82 NEDIKCPICLDLPRA--PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        82 ~~~~~CpICl~~~~~--p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      +..+.|||||+.+..  |+.+.|||+||..||...++..    ..||+|++.+..+.+..+
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~----~~CP~C~kkIt~k~~~rI  185 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT----NKCPTCRKKITHKQFHRI  185 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHHhC----CCCCCcccccchhhheec
Confidence            455899999998764  5669999999999999999887    799999998887776544

>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=99.10  E-value=4.1e-11  Score=76.12  Aligned_cols=40  Identities=38%  Similarity=0.917  Sum_probs=33.9

Q ss_pred             cccccCCCCC---CcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCC
Q psy3978          86 KCPICLDLPR---APQMTRCGHCFCWPCILHYLALSDKSWRKCPICY  129 (243)
Q Consensus        86 ~CpICl~~~~---~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr  129 (243)
                      .|+||++.+.   ..+.++|||.||..||.+|+..+    ..||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~----~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN----NSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS----SB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC----CcCCccC
Confidence            5999999773   45668999999999999999986    6999996

...

>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=99.05  E-value=1.7e-10  Score=72.01  Aligned_cols=40  Identities=45%  Similarity=1.114  Sum_probs=35.7

Q ss_pred             ccccCCCCCCcE-EcCCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          87 CPICLDLPRAPQ-MTRCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        87 CpICl~~~~~p~-~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      |+||++.+..|+ +++|||.||..||.+|+....  ...||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~--~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSG--SVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTS--SSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcC--CccCCcC
Confidence            899999999999 799999999999999999532  2789998

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.05  E-value=1.5e-10  Score=98.94  Aligned_cols=48  Identities=27%  Similarity=0.746  Sum_probs=40.2

Q ss_pred             CCCccccccCCCCCCc--------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRAP--------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p--------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .++..|+||++.+.++        ++++|||.||..||.+|+...    ..||+||..+.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~----~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----NTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC----CCCCCCCCEee
Confidence            4568999999976543        457899999999999999865    69999998765

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

Probab=99.02  E-value=1.8e-10  Score=72.56  Aligned_cols=39  Identities=41%  Similarity=0.964  Sum_probs=24.3

Q ss_pred             ccccCCCCCC----cEEcCCCccccHHHHHHHHHhCCCCCCCCC
Q psy3978          87 CPICLDLPRA----PQMTRCGHCFCWPCILHYLALSDKSWRKCP  126 (243)
Q Consensus        87 CpICl~~~~~----p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP  126 (243)
                      ||||.+ +.+    |++|+|||+||..||.+++..+....+.||
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 877    999999999999999999997643347787

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

Probab=98.98  E-value=5.1e-11  Score=80.39  Aligned_cols=58  Identities=29%  Similarity=0.776  Sum_probs=32.4

Q ss_pred             CCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          82 NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      ++.+.|++|.+.+.+|+. ..|.|+||+.||...+.      ..||+|..+...++++.|+.+..
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw~qD~~~NrqLd~   63 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG------SECPVCHTPAWIQDIQINRQLDS   63 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT------TB-SSS--B-S-SS----HHHHH
T ss_pred             HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC------CCCCCcCChHHHHHHHhhhhhhc
Confidence            456789999999999986 58999999999977443      46999999999999999988765

>PHA02926 zinc finger-like protein; Provisional

Probab=98.90  E-value=9.6e-10  Score=91.67  Aligned_cols=53  Identities=25%  Similarity=0.636  Sum_probs=40.9

Q ss_pred             CCCCccccccCCCCCC---------cEEcCCCccccHHHHHHHHHhCC--CCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRA---------PQMTRCGHCFCWPCILHYLALSD--KSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~---------p~~~~CgH~FC~~Ci~~~~~~~~--~~~~~CP~Cr~~~~  133 (243)
                      ...+.+|+||++...+         ++..+|+|.||..||..|.....  +....||+||..+.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4667899999997532         34568999999999999998642  22367999998765

>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=98.89  E-value=1.9e-09  Score=67.56  Aligned_cols=44  Identities=41%  Similarity=1.060  Sum_probs=37.0

Q ss_pred             cccccCCCCCCcEEcC-CCccccHHHHHHHHHhCCCCCCCCCCCCccc
Q psy3978          86 KCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAV  132 (243)
Q Consensus        86 ~CpICl~~~~~p~~~~-CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~  132 (243)
                      .|+||++.+..++.+. |||.||..|+..|+....   ..||.|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~---~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGK---NTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCc---CCCCCCCCcC
Confidence            4999999987777654 999999999999998732   6899998753

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

Probab=98.86  E-value=1.2e-09  Score=93.19  Aligned_cols=53  Identities=36%  Similarity=0.815  Sum_probs=45.7

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHH-HHHhCCCCCCCCCCCCccccCCCC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILH-YLALSDKSWRKCPICYEAVHLGDL  137 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~-~~~~~~~~~~~CP~Cr~~~~~~~l  137 (243)
                      ..+..|+||++.+..|..++|||.||+.||.. |-..+.   -.||+||+.+..+++
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~---~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKY---EFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhcc---ccCchhhhhccchhh
Confidence            56889999999999999999999999999999 766652   359999998876654

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

Probab=98.83  E-value=1.5e-09  Score=93.57  Aligned_cols=60  Identities=30%  Similarity=0.539  Sum_probs=51.1

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVI  144 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~  144 (243)
                      ....+.|-||-+.+..|..|+|||+||.-||.+++..+    ..||+||.......++......
T Consensus        22 LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~q----p~CP~Cr~~~~esrlr~~s~~~   81 (391)
T COG5432          22 LDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQ----PFCPVCREDPCESRLRGSSGSR   81 (391)
T ss_pred             chhHHHhhhhhheeecceecccccchhHHHHHHHhcCC----CCCccccccHHhhhcccchhHH
Confidence            44567899999999999999999999999999999987    6899999988776666554443

>smart00184 RING Ring finger

Probab=98.82  E-value=4.8e-09  Score=63.43  Aligned_cols=39  Identities=46%  Similarity=1.213  Sum_probs=34.8

Q ss_pred             ccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          87 CPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        87 CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      |+||++....++.++|||.||..|+..|+....   ..||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~---~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGN---NTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCc---CCCCCC
Confidence            899999989999999999999999999998332   679987

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)

>KOG2177|consensus

Probab=98.82  E-value=2.5e-09  Score=92.82  Aligned_cols=94  Identities=22%  Similarity=0.475  Sum_probs=68.8

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHhhh------------
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRAR------------  148 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~~~------------  148 (243)
                      ..+++.||||++.+..|++++|||+||..|+..++. ..   ..||.|+. ... .+.++..+.....            
T Consensus        10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~---~~Cp~cr~-~~~-~~~~n~~l~~~~~~~~~~~~~~~~~   83 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GP---LSCPVCRP-PSR-NLRPNVLLANLVERLRQLRLSRPLG   83 (386)
T ss_pred             ccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CC---cCCcccCC-chh-ccCccHHHHHHHHHHHhcCCccccc
Confidence            568899999999999998899999999999999988 22   79999995 322 5555555543211            


Q ss_pred             -----ccCccceeeeeeecCCCeeEeeccCCCCCCCC
Q psy3978         149 -----AVNEEVTFQLMKRERGSTVVSPVAQWDFHPTD  180 (243)
Q Consensus       149 -----~~~~~~~l~l~~r~~~~~~~~~~s~~~~~~~~  180 (243)
                           ...+...+.++|.+.+...|..|.....|..+
T Consensus        84 ~~~~~c~~~~~~~~~~c~~~~~~~c~~c~~~~~h~~h  120 (386)
T KOG2177|consen   84 SKEELCEKHGEELKLFCEEDEKLLCVLCRESGEHRGH  120 (386)
T ss_pred             ccchhhhhcCCcceEEecccccccCCCCCCcccccCC
Confidence                 01112226788888888888888876677644

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.77  E-value=5.4e-09  Score=66.35  Aligned_cols=41  Identities=41%  Similarity=1.010  Sum_probs=33.9

Q ss_pred             cccccCCCC---CCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCc
Q psy3978          86 KCPICLDLP---RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYE  130 (243)
Q Consensus        86 ~CpICl~~~---~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~  130 (243)
                      .|+||.+.+   ..|++++|||+||..|+..+.. .   ...||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~-~---~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG-K---SVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC-C---CCCCcCCCC
Confidence            499999988   3577899999999999998882 2   279999974

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

Probab=98.74  E-value=3.1e-09  Score=74.94  Aligned_cols=40  Identities=35%  Similarity=0.933  Sum_probs=32.3

Q ss_pred             cccccCCCCCC------------c-EEcCCCccccHHHHHHHHHhCCCCCCCCCCCC
Q psy3978          86 KCPICLDLPRA------------P-QMTRCGHCFCWPCILHYLALSDKSWRKCPICY  129 (243)
Q Consensus        86 ~CpICl~~~~~------------p-~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr  129 (243)
                      .|+||++.+.+            + +..+|||.|+..||.+|+..+    ..||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN----NTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS----SB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC----CcCCCCC
Confidence            49999998833            2 335899999999999999887    6999997

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 ....

>KOG0978|consensus

Probab=98.64  E-value=8.8e-09  Score=99.04  Aligned_cols=58  Identities=31%  Similarity=0.687  Sum_probs=52.9

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR  141 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~  141 (243)
                      ..+-+.||+|..-+.+.+++.|||.||..|+...+..+.   ..||.|.++|...|+.++.
T Consensus       640 yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRq---RKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  640 YKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQ---RKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             HHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhc---CCCCCCCCCCCcccccccC
Confidence            567899999999999999999999999999999998876   7999999999999887653

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.54  E-value=6.6e-08  Score=85.16  Aligned_cols=57  Identities=26%  Similarity=0.624  Sum_probs=43.2

Q ss_pred             CCccccccCCC-CCCcE---Ec-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhH
Q psy3978          83 EDIKCPICLDL-PRAPQ---MT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS  142 (243)
Q Consensus        83 ~~~~CpICl~~-~~~p~---~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~  142 (243)
                      ++..||+|... ...|.   ++ +|||.||.+|+..+|....   ..||.|+..+....+++...
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~---~~CP~C~~~lrk~~fr~q~F   63 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGS---GSCPECDTPLRKNNFRVQLF   63 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCC---CCCCCCCCccchhhcccccc
Confidence            34679999983 44443   22 6999999999999886543   68999999998887665443

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).

>KOG4628|consensus

Probab=98.40  E-value=1.5e-07  Score=84.24  Aligned_cols=47  Identities=28%  Similarity=0.666  Sum_probs=40.4

Q ss_pred             cccccCCCCCCc---EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          86 KCPICLDLPRAP---QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        86 ~CpICl~~~~~p---~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      .|.||+|.+...   ++|||+|.|+..||..|+....   ..||+|+..+...
T Consensus       231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r---~~CPvCK~di~~~  280 (348)
T KOG4628|consen  231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTR---TFCPVCKRDIRTD  280 (348)
T ss_pred             eEEEeecccccCCeeeEecCCCchhhccchhhHhhcC---ccCCCCCCcCCCC
Confidence            899999988764   5589999999999999999874   6799999876543

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

Probab=98.39  E-value=2.1e-07  Score=82.88  Aligned_cols=49  Identities=35%  Similarity=0.806  Sum_probs=42.0

Q ss_pred             CCCCccccccCCCC-CC------------cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLP-RA------------PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~-~~------------p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ..++..|.||++.+ ..            |..++|||.++..|+..|++.+    .+||+||.++.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq----QTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ----QTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc----cCCCcccCccc
Confidence            57888999999974 32            3678999999999999999988    69999999853

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

Probab=98.38  E-value=3.5e-07  Score=65.60  Aligned_cols=50  Identities=30%  Similarity=0.672  Sum_probs=36.2

Q ss_pred             CccccccCCCCC-----------C-cEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          84 DIKCPICLDLPR-----------A-PQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        84 ~~~CpICl~~~~-----------~-p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      +..|.||...|.           + |++ -.|+|.|+..||.+|+..+.. ...||+||+....
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~-~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS-KGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC-CCCCCCcCCeeee
Confidence            445666665543           1 444 379999999999999997532 2699999997653

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

Probab=98.35  E-value=5.2e-07  Score=78.43  Aligned_cols=50  Identities=26%  Similarity=0.627  Sum_probs=41.1

Q ss_pred             CCCccccccCCCCCC---cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRA---PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~---p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .....|.||++.+..   -+.+||.|.|+..|+..|+....   ..||+||.++++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~---~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS---NKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc---ccCCccCCCCCC
Confidence            445789999997753   24589999999999999998543   799999998864

>KOG0802|consensus

Probab=98.28  E-value=3.4e-07  Score=87.66  Aligned_cols=49  Identities=29%  Similarity=0.649  Sum_probs=43.1

Q ss_pred             CCCccccccCCCCCC-----cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRA-----PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~-----p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..+..|+||.+.+..     |..++|||.||..|+..|++..    ..||+||..+..
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~----qtCP~CR~~~~~  342 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ----QTCPTCRTVLYD  342 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHh----CcCCcchhhhhc
Confidence            457789999999887     7889999999999999999997    699999985543

>KOG0311|consensus

Probab=98.22  E-value=1.1e-07  Score=84.23  Aligned_cols=51  Identities=33%  Similarity=0.773  Sum_probs=44.2

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ...++.|||||+++...+++ .|+|.||..||..-+....   ..||.||+.+..
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn---~ecptcRk~l~S   91 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGN---NECPTCRKKLVS   91 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcC---CCCchHHhhccc
Confidence            45678899999999998887 5999999999998888775   799999988753

>KOG0824|consensus

Probab=98.16  E-value=1.2e-06  Score=76.20  Aligned_cols=49  Identities=24%  Similarity=0.589  Sum_probs=43.1

Q ss_pred             CccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          84 DIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      .-.|+||+....-|+.+.|+|.||.-||........   ..|++||.++...
T Consensus         7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk---~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDK---KTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccCCcCccccccchhhhhhhcchhhcCC---CCCceecCCCCcc
Confidence            346999999999999999999999999998777664   6799999999764

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

Probab=98.03  E-value=2.7e-06  Score=56.95  Aligned_cols=45  Identities=36%  Similarity=0.792  Sum_probs=31.3

Q ss_pred             CCCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPI  127 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~  127 (243)
                      ..-.+.|||.+..+.+|+. ..|||+|....|.+|+...  +...||+
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~--~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN--GSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT--S-EE-SC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc--CCCCCCC
Confidence            3456889999999999988 5899999999999999432  2378998

>KOG4159|consensus

Probab=98.02  E-value=2.4e-06  Score=78.23  Aligned_cols=50  Identities=28%  Similarity=0.739  Sum_probs=45.2

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ...++.|.||...+..|+.++|||+||..||.+.+...    ..||.|+..+..
T Consensus        81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~----~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQE----TECPLCRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccC----CCCccccccccc
Confidence            47889999999999999999999999999999977755    799999998875

>KOG2660|consensus

Probab=98.02  E-value=2.3e-06  Score=75.37  Aligned_cols=62  Identities=32%  Similarity=0.642  Sum_probs=49.9

Q ss_pred             CCCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC----CCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG----DLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~----~l~~~~~~~~~  146 (243)
                      ......|.+|..++.++.+ +.|-|+||.+||.+++...    ..||.|...+...    .++....+...
T Consensus        12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~----~~CP~C~i~ih~t~pl~ni~~Drtlqdi   78 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES----KYCPTCDIVIHKTHPLLNIRSDRTLQDI   78 (331)
T ss_pred             cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh----ccCCccceeccCccccccCCcchHHHHH
Confidence            4567889999999999987 4799999999999999986    7999999888653    34444455444

>KOG4172|consensus

Probab=98.00  E-value=1.1e-06  Score=57.20  Aligned_cols=46  Identities=33%  Similarity=0.887  Sum_probs=39.9

Q ss_pred             ccccccCCCCCCcEEcCCCc-cccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          85 IKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        85 ~~CpICl~~~~~p~~~~CgH-~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .+|.||.+.+.+.+...||| -.|..|-.+.++...   ..||+||+++.
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~---g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALH---GCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccC---CcCcchhhHHH
Confidence            46999999999999999999 679999998887543   79999999764

>KOG2879|consensus

Probab=97.97  E-value=5.8e-06  Score=71.13  Aligned_cols=51  Identities=35%  Similarity=0.916  Sum_probs=41.8

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .....+||+|.+.+..|.+. +|||+||..||..-.....  .+.||.|...+.
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a--sf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA--SFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh--hcccCccCCCCc
Confidence            45678899999999999886 5999999999987665432  279999988765

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

Probab=97.96  E-value=4.9e-06  Score=72.36  Aligned_cols=79  Identities=37%  Similarity=0.631  Sum_probs=58.0

Q ss_pred             cceeEEEcCCCcccccCCCCcccCChhhHhhhhc---cCCCC----------ccccccCCCCCCcEEc-CCCccccHHHH
Q psy3978          46 ANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRG---FGNED----------IKCPICLDLPRAPQMT-RCGHCFCWPCI  111 (243)
Q Consensus        46 ~n~~f~v~~~~~~~~~~~~~~~~~~~~~~~~v~~---~~~~~----------~~CpICl~~~~~p~~~-~CgH~FC~~Ci  111 (243)
                      +|...++.+.+.|.+...+   ...|+.-.+-..   ...++          +.||.|..++..|+.+ .|||.||..||
T Consensus       226 ~~a~imit~EG~yVv~qpd---vqsWe~Yq~r~~a~~~~~Dqv~k~~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci  302 (427)
T COG5222         226 SNAAIMITPEGGYVVAQPD---VQSWEKYQQRTKAVAEIPDQVYKMQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECI  302 (427)
T ss_pred             cccceEEcCCCCeEEeccc---hHHHHHHHHHHHhhhhCchhhhccCCCCccccCcchhhhhhCcccCccccchHHHHHH
Confidence            4566778888888765544   445665332211   12222          8999999999999998 58999999999


Q ss_pred             HHHHHhCCCCCCCCCCCCc
Q psy3978         112 LHYLALSDKSWRKCPICYE  130 (243)
Q Consensus       112 ~~~~~~~~~~~~~CP~Cr~  130 (243)
                      ..-|....   +.||.|..
T Consensus       303 ~~al~dsD---f~CpnC~r  318 (427)
T COG5222         303 GTALLDSD---FKCPNCSR  318 (427)
T ss_pred             hhhhhhcc---ccCCCccc
Confidence            98887776   99999965

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

Probab=97.77  E-value=8.2e-06  Score=67.08  Aligned_cols=46  Identities=30%  Similarity=0.703  Sum_probs=39.7

Q ss_pred             CccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          84 DIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .+.|-||-..+..|+.+.|||.||..|..+-+...    ..|-+|.+...
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg----~~C~~Cgk~t~  241 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKG----DECGVCGKATY  241 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccC----Ccceecchhhc
Confidence            47899999999999999999999999988766554    68999987553

>KOG4692|consensus

Probab=97.66  E-value=8.5e-06  Score=72.38  Aligned_cols=52  Identities=31%  Similarity=0.595  Sum_probs=46.2

Q ss_pred             ccCCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          79 GFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        79 ~~~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .+..++-.||||..-...++..||+|.-|+.||.+++.+.    +.|-.|+..+..
T Consensus       417 lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~----k~CFfCktTv~~  468 (489)
T KOG4692|consen  417 LPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNC----KRCFFCKTTVID  468 (489)
T ss_pred             CCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcC----CeeeEecceeee
Confidence            4456788999999999999999999999999999999987    689999887753

>KOG1002|consensus

Probab=97.65  E-value=2.3e-06  Score=79.43  Aligned_cols=96  Identities=15%  Similarity=0.310  Sum_probs=64.3

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCC-CCCCCCCCCCccccCCCCcchhHH------------HHh-
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSD-KSWRKCPICYEAVHLGDLKSFRSV------------IKR-  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~-~~~~~CP~Cr~~~~~~~l~~~~~~------------~~~-  146 (243)
                      ..++..|.+|.+...+++.+.|.|.||..||.+|+..-. ....+||+|...+....-.+....            ..+ 
T Consensus       533 nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRin  612 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRIN  612 (791)
T ss_pred             ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcc
Confidence            466788999999999999999999999999999887432 222799999987765432222110            000 


Q ss_pred             --hhccCc-----cceeeeeeecCCCeeEeeccCCCC
Q psy3978         147 --ARAVNE-----EVTFQLMKRERGSTVVSPVAQWDF  176 (243)
Q Consensus       147 --~~~~~~-----~~~l~l~~r~~~~~~~~~~s~~~~  176 (243)
                        .++.+.     ..++.+|...+++...+++|+...
T Consensus       613 m~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTS  649 (791)
T KOG1002|consen  613 MDDWQSSTKIEALVEELYFLRERDRTAKSIVFSQFTS  649 (791)
T ss_pred             hhhhcchhHHHHHHHHHHHHHHcccchhhhhHHHHHH
Confidence              011111     123456777788888888887654

>KOG0804|consensus

Probab=97.58  E-value=2e-05  Score=71.96  Aligned_cols=47  Identities=26%  Similarity=0.699  Sum_probs=38.8

Q ss_pred             CCCCccccccCCCCCCcE----EcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRAPQ----MTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~----~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ..+..+||||++.+-..+    .+.|.|+|...|+..|+.      ..||+||....
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~------~scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD------SSCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeecccccchHHHhhccc------CcChhhhhhcC
Confidence            457789999999876543    368999999999999986      68999997655

>KOG0297|consensus

Probab=97.56  E-value=3.3e-05  Score=71.18  Aligned_cols=55  Identities=36%  Similarity=0.874  Sum_probs=47.2

Q ss_pred             CCCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          81 GNEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      ..+.+.|++|...+.+|+. +.|||.||..|+..|+...    ..||.|+..+......+
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~----~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNH----QKCPVCRQELTQAEELP   73 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccC----cCCcccccccchhhccC
Confidence            4677899999999999999 4999999999999999984    79999988876654443

>KOG1645|consensus

Probab=97.53  E-value=2.3e-05  Score=70.84  Aligned_cols=60  Identities=27%  Similarity=0.573  Sum_probs=46.5

Q ss_pred             CCccccccCCCCCCc-----EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHH
Q psy3978          83 EDIKCPICLDLPRAP-----QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVI  144 (243)
Q Consensus        83 ~~~~CpICl~~~~~p-----~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~  144 (243)
                      ...+||||++.+..|     +.+.|||.|-..||++|+...  ....||.|......+.+++...+.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~--~~~~cp~c~~katkr~i~~e~alR   67 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK--TKMQCPLCSGKATKRQIRPEYALR   67 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhh--hhhhCcccCChhHHHHHHHHHHHH
Confidence            346799999976655     346899999999999999522  237899999888877777665553

>KOG1813|consensus

Probab=97.49  E-value=3.1e-05  Score=67.34  Aligned_cols=46  Identities=37%  Similarity=0.798  Sum_probs=40.3

Q ss_pred             CccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          84 DIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .+.|-||..++..||++.|||.||..|....+...    ..|++|.+...
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~----~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKG----EKCYVCSQQTH  286 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhccccccC----Ccceecccccc
Confidence            46799999999999999999999999998777655    68999987664

>KOG4265|consensus

Probab=97.31  E-value=0.00018  Score=64.31  Aligned_cols=48  Identities=29%  Similarity=0.763  Sum_probs=40.5

Q ss_pred             CCCccccccCCCCCCcEEcCCCc-cccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH-~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      +...+|-||+....+-+++||.| -.|..|.....-+.    ..||+||.++.
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~----n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQT----NNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhh----cCCCccccchH
Confidence            45678999999999999999999 57999987665444    58999999875

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

Probab=97.29  E-value=0.00039  Score=44.97  Aligned_cols=42  Identities=26%  Similarity=0.648  Sum_probs=33.9

Q ss_pred             cccccCC--CCCCcEEcCCC-----ccccHHHHHHHHHhCCCCCCCCCCCC
Q psy3978          86 KCPICLD--LPRAPQMTRCG-----HCFCWPCILHYLALSDKSWRKCPICY  129 (243)
Q Consensus        86 ~CpICl~--~~~~p~~~~Cg-----H~FC~~Ci~~~~~~~~~~~~~CP~Cr  129 (243)
                      .|-||++  ...++.+.||.     |.++..|+.+|+..+.+  ..||+|.
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~--~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGN--KTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCC--CcCCCCC
Confidence            3889997  45667778885     78999999999987743  5899994

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

>KOG0828|consensus

Probab=97.26  E-value=0.00016  Score=66.97  Aligned_cols=49  Identities=24%  Similarity=0.600  Sum_probs=37.8

Q ss_pred             CCCccccccCCCCCC-----------------cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRA-----------------PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~-----------------p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      +....|+||+....-                 -+.+||.|.|+..|+.+|+..-+   ..||+||.+++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk---l~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK---LICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc---ccCCccCCCCC
Confidence            455679999974321                 13469999999999999998543   68999999875

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

Probab=97.14  E-value=7.5e-05  Score=52.08  Aligned_cols=50  Identities=26%  Similarity=0.763  Sum_probs=24.7

Q ss_pred             CccccccCCCCC-C---cEE----cCCCccccHHHHHHHHHhCCCC-------CCCCCCCCcccc
Q psy3978          84 DIKCPICLDLPR-A---PQM----TRCGHCFCWPCILHYLALSDKS-------WRKCPICYEAVH  133 (243)
Q Consensus        84 ~~~CpICl~~~~-~---p~~----~~CgH~FC~~Ci~~~~~~~~~~-------~~~CP~Cr~~~~  133 (243)
                      +..|+||..... .   |..    ..|+..|+..||.+|+....+.       ...||.|+.++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            467999998654 2   333    2699999999999999854211       136999998875

>KOG1785|consensus

Probab=97.09  E-value=0.00021  Score=64.61  Aligned_cols=48  Identities=23%  Similarity=0.682  Sum_probs=41.0

Q ss_pred             ccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          85 IKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        85 ~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..|-||-+--.+-.+-+|||..|..|+..|....++  ..||.||..+.-
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~g--q~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEG--QTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCC--CCCCceeeEecc
Confidence            469999998888888899999999999999866542  799999987753

>KOG1039|consensus

Probab=97.08  E-value=0.00031  Score=63.37  Aligned_cols=52  Identities=25%  Similarity=0.733  Sum_probs=40.2

Q ss_pred             CCCccccccCCCCCCcE-----E---cCCCccccHHHHHHHHHhCC---CCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRAPQ-----M---TRCGHCFCWPCILHYLALSD---KSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~-----~---~~CgH~FC~~Ci~~~~~~~~---~~~~~CP~Cr~~~~  133 (243)
                      ..+..|-||++...+..     .   .+|.|.||..||..|-....   +..+.||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            56789999999776655     3   46999999999999985432   12378999998764

>KOG0827|consensus

Probab=97.02  E-value=0.00032  Score=63.23  Aligned_cols=90  Identities=21%  Similarity=0.469  Sum_probs=52.1

Q ss_pred             cccccCCCCCCcE----EcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHhhhccCccceeeeeee
Q psy3978          86 KCPICLDLPRAPQ----MTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKR  161 (243)
Q Consensus        86 ~CpICl~~~~~p~----~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~~~~~~~~~~l~l~~r  161 (243)
                      .|.||.+.+-.-.    +-.|||+|+..|+.+|++..... ..||.|+-.+..+.+....... ........+.....++
T Consensus         6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~-R~cpic~ik~~~r~~~N~~~~d-~vvEe~~Vld~~~~K~   83 (465)
T KOG0827|consen    6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN-RGCPICQIKLQERHVANPSTVD-HVVEESVVLDWDVGKK   83 (465)
T ss_pred             eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc-CCCCceeecccceeeechhhhh-hhhccchhhhHHHHHh
Confidence            5999976543322    22499999999999999987522 6899999656655544211111 1111111122224555


Q ss_pred             cCCCeeEeeccCCCCC
Q psy3978         162 ERGSTVVSPVAQWDFH  177 (243)
Q Consensus       162 ~~~~~~~~~~s~~~~~  177 (243)
                      ..|.........|+.-
T Consensus        84 ~~gkvk~~~s~~~~~K   99 (465)
T KOG0827|consen   84 CGGKVKYSVSPGWPYK   99 (465)
T ss_pred             hccchhhhcCcCCccc
Confidence            5666655555555544

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

Probab=96.98  E-value=0.00083  Score=47.34  Aligned_cols=29  Identities=28%  Similarity=0.580  Sum_probs=26.2

Q ss_pred             CCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978         101 RCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus       101 ~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .|.|.|...||.+|+..+    ..||++++...
T Consensus        53 ~CnHaFH~HCI~rWL~Tk----~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTK----GVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhC----CCCCCCCceeE
Confidence            699999999999999986    69999998764

>KOG1734|consensus

Probab=96.81  E-value=0.00028  Score=60.82  Aligned_cols=56  Identities=29%  Similarity=0.527  Sum_probs=42.3

Q ss_pred             CCCccccccCCCCCCc----------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          82 NEDIKCPICLDLPRAP----------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p----------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      .++-.|.||...+...          ..++|+|+|+-.||..|-.-.++  .+||.|++.+..+...+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKk--qtCPYCKekVdl~rmfs  287 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKK--QTCPYCKEKVDLKRMFS  287 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCC--CCCchHHHHhhHhhhcc
Confidence            4566799999755432          35799999999999999876654  69999998876544433

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

Probab=96.63  E-value=0.00059  Score=67.64  Aligned_cols=51  Identities=24%  Similarity=0.656  Sum_probs=39.3

Q ss_pred             CCCCccccccCCCCC--C---c--EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPR--A---P--QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~--~---p--~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .....+|+||...+.  +   |  +.-.|.|-|+..|+.+|+..+..  ..||+||..++
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~--s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSAR--SNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCC--CCCCccccccc
Confidence            456678999997553  1   2  22359999999999999998754  79999997664

>KOG4367|consensus

Probab=96.57  E-value=0.0012  Score=60.52  Aligned_cols=37  Identities=32%  Similarity=0.836  Sum_probs=33.3

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALS  118 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~  118 (243)
                      ++++.||||...+.+|++++|||+.|..|....+.+.
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~t   38 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQT   38 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhcccC
Confidence            5789999999999999999999999999998766554

>KOG3039|consensus

Probab=96.50  E-value=0.002  Score=55.00  Aligned_cols=54  Identities=15%  Similarity=0.296  Sum_probs=45.4

Q ss_pred             CCCccccccCCCCCCcE----EcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          82 NEDIKCPICLDLPRAPQ----MTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~----~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      ...+.||||.+.+.+.+    .-+|||+||..|+.+++...    ..||+|..++..+++..
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D----~v~pv~d~plkdrdiI~  276 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD----MVDPVTDKPLKDRDIIG  276 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc----ccccCCCCcCcccceEe
Confidence            36688999999887653    34899999999999998876    79999999998887654

>KOG4275|consensus

Probab=96.50  E-value=0.00043  Score=60.26  Aligned_cols=42  Identities=36%  Similarity=0.844  Sum_probs=34.9

Q ss_pred             CccccccCCCCCCcEEcCCCc-cccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          84 DIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~~~CgH-~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ...|.||++.+.+-+.|+||| +-|..|-.+.        ..||+||+.+.
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm--------~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM--------NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcccc--------ccCchHHHHHH
Confidence            567999999999999999999 6799885432        58999998653

>KOG1493|consensus

Probab=96.50  E-value=0.0011  Score=46.29  Aligned_cols=47  Identities=30%  Similarity=0.627  Sum_probs=34.4

Q ss_pred             cccccCCCCCC------------cEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          86 KCPICLDLPRA------------PQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        86 ~CpICl~~~~~------------p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .|-||.-.|..            |.++ .|.|.|...||.+|+..... ...||+||....
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts-q~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS-QGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc-cccCCcchheeE
Confidence            56666655432            3333 59999999999999986543 278999998764

>KOG1001|consensus

Probab=96.48  E-value=0.00067  Score=66.47  Aligned_cols=49  Identities=33%  Similarity=0.745  Sum_probs=42.3

Q ss_pred             ccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCC
Q psy3978          85 IKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGD  136 (243)
Q Consensus        85 ~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~  136 (243)
                      ..|+||++ ...++++.|||.||..|+...+.....  ..||.|+..+....
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~--~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSEN--APCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccC--CCCcHHHHHHHHHH
Confidence            89999999 888899999999999999999887753  47999998776543

>KOG0825|consensus

Probab=96.34  E-value=0.00086  Score=65.29  Aligned_cols=49  Identities=20%  Similarity=0.469  Sum_probs=38.7

Q ss_pred             CCCccccccCCCCCCcEE---cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRAPQM---TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~---~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .....||+|+..+.+..+   .+|+|.||..||..|-...    .+||+||..+..
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a----qTCPiDR~EF~~  172 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA----QTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc----ccCchhhhhhhe
Confidence            345679999876655433   4799999999999998876    599999987754

>KOG1571|consensus

Probab=96.29  E-value=0.0022  Score=57.55  Aligned_cols=45  Identities=33%  Similarity=0.890  Sum_probs=35.6

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ....-|.||++.+.+.+.++|||.-|  |..-....     ..||+||..+.
T Consensus       303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l-----~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHL-----PQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccceeeecCCcEEE--chHHHhhC-----CCCchhHHHHH
Confidence            44567999999999999999999877  76544333     57999998764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.06  E-value=0.0035  Score=41.18  Aligned_cols=48  Identities=23%  Similarity=0.568  Sum_probs=36.8

Q ss_pred             CCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCC
Q psy3978          83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGD  136 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~  136 (243)
                      .+..|-.|...-...++++|||..|..|..-.-      ...||.|..++...+
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~r------YngCPfC~~~~~~~~   53 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGER------YNGCPFCGTPFEFDD   53 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhh------ccCCCCCCCcccCCC
Confidence            455677888887888899999999999975321      268999999886543

>KOG4185|consensus

Probab=96.03  E-value=0.0041  Score=55.06  Aligned_cols=46  Identities=33%  Similarity=0.717  Sum_probs=38.2

Q ss_pred             CccccccCCCCC------CcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccc
Q psy3978          84 DIKCPICLDLPR------APQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAV  132 (243)
Q Consensus        84 ~~~CpICl~~~~------~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~  132 (243)
                      .+.|-||-+.+.      .|+.+.|||+||..|+...+....   ..||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~---i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSR---ILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCce---eeccCCCCcc
Confidence            356999998664      478899999999999998887764   6889999984

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.98  E-value=0.0071  Score=52.76  Aligned_cols=54  Identities=20%  Similarity=0.423  Sum_probs=41.9

Q ss_pred             CCCCccccccCCCCCCc---E-EcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          81 GNEDIKCPICLDLPRAP---Q-MTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p---~-~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      ....+.|||....|..-   + +.+|||+|+..+|.+.- ..    ..||+|..++...++.+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~----~~Cp~c~~~f~~~DiI~  167 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KS----KKCPVCGKPFTEEDIIP  167 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-cc----ccccccCCccccCCEEE
Confidence            46678999999988542   2 24999999999999873 12    57999999998776554

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

Probab=95.86  E-value=0.0095  Score=46.24  Aligned_cols=53  Identities=19%  Similarity=0.605  Sum_probs=44.4

Q ss_pred             CCCccccccCCCCCCcEEcC----CCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          82 NEDIKCPICLDLPRAPQMTR----CGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~----CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      ....+|.||.|...+...+.    ||-..|..|-...|+... -...||+|+.++...
T Consensus        78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~-~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN-LYPVCPVCKTSFKSS  134 (140)
T ss_pred             CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc-cCCCCCccccccccc
Confidence            45679999999999988873    999999999999988764 347999999988654

>KOG0826|consensus

Probab=95.79  E-value=0.0077  Score=53.44  Aligned_cols=49  Identities=29%  Similarity=0.760  Sum_probs=40.4

Q ss_pred             CCCCccccccCCCCCCcEEcC-CCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~-CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ..+.-.||||+..-.+|..+. -|-+||+.|+..++...    ..||+-..+..
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~----~~CPVT~~p~~  346 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNY----GHCPVTGYPAS  346 (357)
T ss_pred             CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhc----CCCCccCCcch
Confidence            456678999999988887765 59999999999999966    68998766543

>KOG3800|consensus

Probab=95.76  E-value=0.0077  Score=52.57  Aligned_cols=51  Identities=25%  Similarity=0.730  Sum_probs=39.8

Q ss_pred             cccccCC-CCCCcEE----cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          86 KCPICLD-LPRAPQM----TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        86 ~CpICl~-~~~~p~~----~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      .||+|.. .+.+|-+    -+|||..|-+|+...+..+.   ..||.|...+....++.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~---~~CpeC~~iLRk~nfr~   57 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP---AQCPECMVILRKNNFRV   57 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC---CCCCcccchhhhcccch
Confidence            4999987 3444422    38999999999999998876   79999999887766553

>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=95.74  E-value=0.013  Score=46.87  Aligned_cols=35  Identities=26%  Similarity=0.758  Sum_probs=26.1

Q ss_pred             CCccccccCCCCCCcEEcCC------------Cccc-cHHHHHHHHHh
Q psy3978          83 EDIKCPICLDLPRAPQMTRC------------GHCF-CWPCILHYLAL  117 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~~C------------gH~F-C~~Ci~~~~~~  117 (243)
                      ++.+||||++.+-++|.|-|            +.+| ...|+.+|-+.
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka   48 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKA   48 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHH
Confidence            46789999999999998754            3222 46888888764

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

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

Probab=95.62  E-value=0.0065  Score=38.96  Aligned_cols=43  Identities=28%  Similarity=0.686  Sum_probs=21.2

Q ss_pred             ccccCCCCCC--cEEc--CCCccccHHHHHHHHHhCCCCCCCCCCCCccc
Q psy3978          87 CPICLDLPRA--PQMT--RCGHCFCWPCILHYLALSDKSWRKCPICYEAV  132 (243)
Q Consensus        87 CpICl~~~~~--p~~~--~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~  132 (243)
                      ||+|.+.+..  -...  +||+..|..|..+.+....   ..||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~---g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEG---GRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS----SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccC---CCCCCCCCCC
Confidence            7899987622  2223  5899999999888776433   7999999864

>KOG2930|consensus

Probab=95.61  E-value=0.0088  Score=44.30  Aligned_cols=27  Identities=30%  Similarity=0.764  Sum_probs=24.4

Q ss_pred             CCCccccHHHHHHHHHhCCCCCCCCCCCCcc
Q psy3978         101 RCGHCFCWPCILHYLALSDKSWRKCPICYEA  131 (243)
Q Consensus       101 ~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~  131 (243)
                      .|.|.|+..||.+|++.+    ..||+|.+.
T Consensus        80 ~CNHaFH~hCisrWlktr----~vCPLdn~e  106 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTR----NVCPLDNKE  106 (114)
T ss_pred             ecchHHHHHHHHHHHhhc----CcCCCcCcc
Confidence            599999999999999988    689999764

>KOG1941|consensus

Probab=95.27  E-value=0.0076  Score=54.66  Aligned_cols=48  Identities=25%  Similarity=0.574  Sum_probs=37.3

Q ss_pred             CCCccccccCCCCC--Cc--EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcc
Q psy3978          82 NEDIKCPICLDLPR--AP--QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEA  131 (243)
Q Consensus        82 ~~~~~CpICl~~~~--~p--~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~  131 (243)
                      +-++.|..|.+.+.  +-  .-+||.|+|+..|+.+++.++.  ...||.||+.
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~--~rsCP~Crkl  414 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG--TRSCPNCRKL  414 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC--CCCCccHHHH
Confidence            45788999999643  22  2379999999999999997653  2799999943

>KOG4739|consensus

Probab=94.97  E-value=0.0075  Score=51.39  Aligned_cols=49  Identities=31%  Similarity=0.891  Sum_probs=33.0

Q ss_pred             ccccccCCCC-CCcE-EcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          85 IKCPICLDLP-RAPQ-MTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        85 ~~CpICl~~~-~~p~-~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      .-|..|..-. .+|. +|.|+|+||..|...-..      ..||.|+.++....+..
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~------~~C~lCkk~ir~i~l~~   54 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP------DVCPLCKKSIRIIQLNR   54 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCc------cccccccceeeeeeccc
Confidence            3588787643 3443 479999999999753211      38999999876544433

>KOG4362|consensus

Probab=94.68  E-value=0.0059  Score=59.29  Aligned_cols=62  Identities=23%  Similarity=0.587  Sum_probs=48.5

Q ss_pred             hhhccCCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCc
Q psy3978          76 QIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK  138 (243)
Q Consensus        76 ~v~~~~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~  138 (243)
                      +|+....-.++||||......|+.+.|-|.||..|+...+..... ...||+|+..+..+..+
T Consensus        13 ~vi~~~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~-~~~~~lc~~~~eK~s~~   74 (684)
T KOG4362|consen   13 QVINAMQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKG-PKQCALCKSDIEKRSLR   74 (684)
T ss_pred             hHHHHHhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCc-cccchhhhhhhhhhhcc
Confidence            344445678899999999999999999999999999877766543 37899999766554433

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

Probab=94.54  E-value=0.084  Score=47.38  Aligned_cols=49  Identities=29%  Similarity=0.733  Sum_probs=38.7

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcc
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEA  131 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~  131 (243)
                      .++...|-||-+-+.-...+||+|..|.-|-.+.-..-..  +.||+|+..
T Consensus        58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~--K~C~~CrTE  106 (493)
T COG5236          58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQ--KGCPLCRTE  106 (493)
T ss_pred             ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhc--cCCCccccc
Confidence            5778889999998887788999999999998764332111  689999864

>KOG3161|consensus

Probab=94.43  E-value=0.015  Score=55.88  Aligned_cols=38  Identities=34%  Similarity=0.788  Sum_probs=30.0

Q ss_pred             CCccccccCCCCC----CcEEcCCCccccHHHHHHHHHhCCCCCCCCC
Q psy3978          83 EDIKCPICLDLPR----APQMTRCGHCFCWPCILHYLALSDKSWRKCP  126 (243)
Q Consensus        83 ~~~~CpICl~~~~----~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP  126 (243)
                      +.+.|+||+..|.    .|+.+.|||+.|..|+.....      ..||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh------ccCC
Confidence            3345999988764    588899999999999986654      4677

>KOG1814|consensus

Probab=94.40  E-value=0.022  Score=52.02  Aligned_cols=49  Identities=29%  Similarity=0.606  Sum_probs=35.1

Q ss_pred             CCCCccccccCCCCCC---cEEcCCCccccHHHHHHHHHhCCC----CCCCCCCCC
Q psy3978          81 GNEDIKCPICLDLPRA---PQMTRCGHCFCWPCILHYLALSDK----SWRKCPICY  129 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~---p~~~~CgH~FC~~Ci~~~~~~~~~----~~~~CP~Cr  129 (243)
                      ....+.|.||++....   -+.++|+|.||..|+..|+...-.    ....||-+.
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            4567899999996543   244899999999999999875321    124677543

>KOG3002|consensus

Probab=94.35  E-value=0.033  Score=49.54  Aligned_cols=46  Identities=26%  Similarity=0.657  Sum_probs=37.4

Q ss_pred             CCCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ..+.+.||||.+.+..|+. -.=||.-|..|-.+..       ..||.|+.++.
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~-------~~CP~Cr~~~g   91 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS-------NKCPTCRLPIG   91 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhhhhc-------ccCCccccccc
Confidence            5577889999999998865 3458999999976332       68999999887

>KOG2817|consensus

Probab=94.04  E-value=0.038  Score=50.29  Aligned_cols=52  Identities=21%  Similarity=0.361  Sum_probs=39.5

Q ss_pred             CCCCccccccCCC---CCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDL---PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~---~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ....+.|||=.+.   -..|+++.|||+.|..-+.+....... .+.||.|.....
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~-sfKCPYCP~e~~  385 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQ-SFKCPYCPVEQL  385 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCe-eeeCCCCCcccC
Confidence            3566899997663   345888999999999999988776532 389999965443

>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=93.79  E-value=0.024  Score=36.70  Aligned_cols=46  Identities=28%  Similarity=0.715  Sum_probs=22.6

Q ss_pred             ccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCC-CCCCCCCCCCcc
Q psy3978          85 IKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSD-KSWRKCPICYEA  131 (243)
Q Consensus        85 ~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~-~~~~~CP~Cr~~  131 (243)
                      +.|||....+..|+. ..|.|.-|.+= ..|+.... .+...||+|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            679999999999987 58999877542 33443221 122789999763

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.

>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=93.57  E-value=0.027  Score=41.81  Aligned_cols=33  Identities=27%  Similarity=0.583  Sum_probs=27.0

Q ss_pred             cCCCCccccccCCCCCCcEE--cCCCccccHHHHH
Q psy3978          80 FGNEDIKCPICLDLPRAPQM--TRCGHCFCWPCIL  112 (243)
Q Consensus        80 ~~~~~~~CpICl~~~~~p~~--~~CgH~FC~~Ci~  112 (243)
                      ...+...|++|...+.....  .||||.|+..|+.
T Consensus        74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            35667789999998877654  5999999999974

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

>PHA03096 p28-like protein; Provisional

Probab=93.54  E-value=0.044  Score=48.39  Aligned_cols=45  Identities=24%  Similarity=0.289  Sum_probs=31.3

Q ss_pred             ccccccCCCCCC-c-------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCc
Q psy3978          85 IKCPICLDLPRA-P-------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYE  130 (243)
Q Consensus        85 ~~CpICl~~~~~-p-------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~  130 (243)
                      -.|.||++.... +       ....|.|.||..|+..|....... ..||.|+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~-e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYK-ETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhc-ccCccccc
Confidence            679999995432 1       223699999999999998865421 45555544

>KOG4445|consensus

Probab=93.51  E-value=0.022  Score=50.06  Aligned_cols=53  Identities=28%  Similarity=0.665  Sum_probs=38.7

Q ss_pred             CCCccccccCCCCCC-c--EEcCCCccccHHHHHHHHHhCC-------------------CCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRA-P--QMTRCGHCFCWPCILHYLALSD-------------------KSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~-p--~~~~CgH~FC~~Ci~~~~~~~~-------------------~~~~~CP~Cr~~~~~  134 (243)
                      .....|.|||.-|.+ |  ..|+|-|-|+..|+.+|+..-.                   .-...||+||..+..
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            345689999987654 3  3479999999999999886310                   011579999988764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.60  E-value=0.09  Score=47.05  Aligned_cols=52  Identities=19%  Similarity=0.536  Sum_probs=35.8

Q ss_pred             CccccccCCCCCC--cEE--cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCc
Q psy3978          84 DIKCPICLDLPRA--PQM--TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK  138 (243)
Q Consensus        84 ~~~CpICl~~~~~--p~~--~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~  138 (243)
                      +..||+|++.+..  --.  -+||-..|.-|....-..-.   ..||.||......+++
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~ln---grcpacrr~y~denv~   69 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLN---GRCPACRRKYDDENVR   69 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhcc---CCChHhhhhcccccee
Confidence            3349999997643  222  36898888888765444333   6899999988766544

>KOG2932|consensus

Probab=92.57  E-value=0.039  Score=48.72  Aligned_cols=43  Identities=33%  Similarity=0.613  Sum_probs=30.5

Q ss_pred             CccccccCCCC-CCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccc
Q psy3978          84 DIKCPICLDLP-RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAV  132 (243)
Q Consensus        84 ~~~CpICl~~~-~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~  132 (243)
                      .-.|.-|--.+ .-.++++|.|+||..|...-   ..   +.||.|-..+
T Consensus        90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~---~d---K~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARSD---SD---KICPLCDDRV  133 (389)
T ss_pred             eEeecccCCcceeeecccccchhhhhhhhhcC---cc---ccCcCcccHH
Confidence            34677777643 44678999999999997521   11   6899997554

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

Probab=92.36  E-value=0.042  Score=46.85  Aligned_cols=50  Identities=26%  Similarity=0.617  Sum_probs=37.9

Q ss_pred             CCccccccCC-CCCCcEE--c--C-CCccccHHHHHHHHHhCCCCCCCCC--CCCccccCC
Q psy3978          83 EDIKCPICLD-LPRAPQM--T--R-CGHCFCWPCILHYLALSDKSWRKCP--ICYEAVHLG  135 (243)
Q Consensus        83 ~~~~CpICl~-~~~~p~~--~--~-CgH~FC~~Ci~~~~~~~~~~~~~CP--~Cr~~~~~~  135 (243)
                      .+..||||.. .+-.|-+  +  | |-|..|-+|+.+.+..+.   ..||  -|.+.+...
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp---AqCP~~gC~kILRK~   66 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP---AQCPYKGCGKILRKI   66 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC---CCCCCccHHHHHHHh
Confidence            4568999997 3444422  2  4 999999999999998876   7999  787766543

>KOG2114|consensus

Probab=92.22  E-value=0.082  Score=52.45  Aligned_cols=39  Identities=31%  Similarity=0.716  Sum_probs=33.5

Q ss_pred             ccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCc
Q psy3978          85 IKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYE  130 (243)
Q Consensus        85 ~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~  130 (243)
                      ..|..|-..+.-|++ ..|||+|+..|+.    .+.   ..||.|+.
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~---~~CP~C~~  880 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKE---DKCPKCLP  880 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhc----cCc---ccCCccch
Confidence            589999999999977 7999999999987    222   79999977

>KOG3039|consensus

Probab=92.13  E-value=0.12  Score=44.26  Aligned_cols=38  Identities=26%  Similarity=0.280  Sum_probs=33.3

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALS  118 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~  118 (243)
                      +.+...|..|+..+.+|++++=||.||..||.+++..+
T Consensus        40 iK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaq   77 (303)
T KOG3039|consen   40 IKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQ   77 (303)
T ss_pred             cCCcceeeeecccccCCccCCCCeeeeHHHHHHHHHHH
Confidence            34556789999999999999999999999999988654

>KOG0298|consensus

Probab=91.91  E-value=0.04  Score=56.82  Aligned_cols=48  Identities=35%  Similarity=0.726  Sum_probs=41.0

Q ss_pred             CCCCccccccCCCCC-CcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccc
Q psy3978          81 GNEDIKCPICLDLPR-APQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAV  132 (243)
Q Consensus        81 ~~~~~~CpICl~~~~-~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~  132 (243)
                      ..+...|+||++.+. ...+..|||.+|..|+..|+..+    ..||.|....
T Consensus      1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~----s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYAS----SRCPICKSIK 1198 (1394)
T ss_pred             hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHh----ccCcchhhhh
Confidence            445668999999887 56778999999999999999998    7999997543

>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=91.18  E-value=0.09  Score=41.08  Aligned_cols=35  Identities=23%  Similarity=0.501  Sum_probs=27.3

Q ss_pred             CccccccCCCCCC--cEE-cCCC------ccccHHHHHHHHHhC
Q psy3978          84 DIKCPICLDLPRA--PQM-TRCG------HCFCWPCILHYLALS  118 (243)
Q Consensus        84 ~~~CpICl~~~~~--p~~-~~Cg------H~FC~~Ci~~~~~~~  118 (243)
                      ..+|.||++...+  .++ ++||      |.||..|+.+|-...
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence            6789999997766  655 5665      789999999995443

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.

>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=91.17  E-value=0.21  Score=31.24  Aligned_cols=40  Identities=25%  Similarity=0.613  Sum_probs=24.1

Q ss_pred             ccccCCCCCCcEEc---CCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          87 CPICLDLPRAPQMT---RCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        87 CpICl~~~~~p~~~---~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      |.+|.++....+.=   .|+-.++..|+..|+.....  ..||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~--~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSN--PKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS---B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCC--CCCcCC
Confidence            67888888777763   49989999999999987642  369987

; PDB: 3NW0_A 2CT0_A.

>KOG1428|consensus

Probab=90.93  E-value=0.19  Score=52.73  Aligned_cols=56  Identities=29%  Similarity=0.530  Sum_probs=40.4

Q ss_pred             CCCccccccCCC--CCCcE-EcCCCccccHHHHHHHHHhCCC------CCCCCCCCCccccCCCC
Q psy3978          82 NEDIKCPICLDL--PRAPQ-MTRCGHCFCWPCILHYLALSDK------SWRKCPICYEAVHLGDL  137 (243)
Q Consensus        82 ~~~~~CpICl~~--~~~p~-~~~CgH~FC~~Ci~~~~~~~~~------~~~~CP~Cr~~~~~~~l  137 (243)
                      ..+..|-||+..  -..|. .+.|+|.|+..|..+.++++=.      +...||+|..++..--+
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~L 3548 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVL 3548 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHH
Confidence            456679999973  33454 4899999999999988876521      12479999988865433

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=90.29  E-value=0.41  Score=38.46  Aligned_cols=50  Identities=22%  Similarity=0.423  Sum_probs=36.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCC--c---cccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCG--H---CFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      +..+..|=||.+... +..-||.  .   .-+.+|+.+|+..+..  ..|+.|...+.
T Consensus         5 s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~--~~CeiC~~~Y~   59 (162)
T PHA02825          5 SLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKN--KSCKICNGPYN   59 (162)
T ss_pred             CCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCC--CcccccCCeEE
Confidence            456778999998754 3334654  3   2389999999997643  78999998765

>KOG3970|consensus

Probab=90.04  E-value=0.32  Score=41.27  Aligned_cols=52  Identities=21%  Similarity=0.473  Sum_probs=39.9

Q ss_pred             CCccccccCCCCCC--cEEcCCCccccHHHHHHHHHhCCC----CCCCCCCCCccccC
Q psy3978          83 EDIKCPICLDLPRA--PQMTRCGHCFCWPCILHYLALSDK----SWRKCPICYEAVHL  134 (243)
Q Consensus        83 ~~~~CpICl~~~~~--p~~~~CgH~FC~~Ci~~~~~~~~~----~~~~CP~Cr~~~~~  134 (243)
                      -...|..|...+..  .+.+-|-|.|++.|+.+|-.+-..    .+..||.|...+-.
T Consensus        49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            34569999997764  455789999999999999875432    13689999887754

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

Probab=89.20  E-value=0.28  Score=44.66  Aligned_cols=36  Identities=22%  Similarity=0.606  Sum_probs=26.6

Q ss_pred             CCccccHHHHHHHHHhCC---------CCCCCCCCCCccccCCCC
Q psy3978         102 CGHCFCWPCILHYLALSD---------KSWRKCPICYEAVHLGDL  137 (243)
Q Consensus       102 CgH~FC~~Ci~~~~~~~~---------~~~~~CP~Cr~~~~~~~l  137 (243)
                      |....|..|+-+|+..++         .+...||+||+.+...|+
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV  355 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV  355 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence            344558899999998654         133689999999876654

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

>KOG1940|consensus

Probab=88.41  E-value=0.29  Score=42.94  Aligned_cols=45  Identities=27%  Similarity=0.767  Sum_probs=35.2

Q ss_pred             CCCccccccCCCC----CCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCc
Q psy3978          82 NEDIKCPICLDLP----RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYE  130 (243)
Q Consensus        82 ~~~~~CpICl~~~----~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~  130 (243)
                      ..+..||||.+.+    ..|..++|||.-...|+......+    ..||+|.+
T Consensus       156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~----y~CP~C~~  204 (276)
T KOG1940|consen  156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG----YTCPICSK  204 (276)
T ss_pred             cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC----CCCCcccc
Confidence            3455699999854    456668999999988888776654    89999977

>KOG3579|consensus

Probab=88.10  E-value=0.31  Score=42.72  Aligned_cols=39  Identities=21%  Similarity=0.660  Sum_probs=33.7

Q ss_pred             CCCCccccccCCCCCCcEEcCC----CccccHHHHHHHHHhCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRC----GHCFCWPCILHYLALSD  119 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~C----gH~FC~~Ci~~~~~~~~  119 (243)
                      ....+.|.+|.+.+.+...+.|    .|.||..|-.+.++.+.
T Consensus       265 ~~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg  307 (352)
T KOG3579|consen  265 PSAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG  307 (352)
T ss_pred             CCCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence            3456999999999999888777    69999999999998765

>KOG3899|consensus

Probab=87.68  E-value=0.31  Score=42.86  Aligned_cols=37  Identities=19%  Similarity=0.635  Sum_probs=28.0

Q ss_pred             CCccccHHHHHHHHHhCC---------CCCCCCCCCCccccCCCCc
Q psy3978         102 CGHCFCWPCILHYLALSD---------KSWRKCPICYEAVHLGDLK  138 (243)
Q Consensus       102 CgH~FC~~Ci~~~~~~~~---------~~~~~CP~Cr~~~~~~~l~  138 (243)
                      |....|.+|+.+|+....         ++...||+||+.+...++.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~  370 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH  370 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence            556678899999997653         2347999999998776643

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

Probab=87.55  E-value=0.35  Score=30.79  Aligned_cols=40  Identities=33%  Similarity=0.806  Sum_probs=24.8

Q ss_pred             ccccCCCCC--CcEEcCCCc-----cccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          87 CPICLDLPR--APQMTRCGH-----CFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        87 CpICl~~~~--~p~~~~CgH-----~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      |-||++.-.  .|.+.||+-     ..+..|+.+|+..+..  ..|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~--~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGN--RKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT---SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCC--CcCCCC
Confidence            668887432  256777652     4578999999997542  578887

>KOG1952|consensus

Probab=87.06  E-value=1.3  Score=44.40  Aligned_cols=51  Identities=31%  Similarity=0.684  Sum_probs=39.7

Q ss_pred             cCCCCccccccCCCCC--CcEE--cCCCccccHHHHHHHHHhCCC---CCCCCCCCCc
Q psy3978          80 FGNEDIKCPICLDLPR--APQM--TRCGHCFCWPCILHYLALSDK---SWRKCPICYE  130 (243)
Q Consensus        80 ~~~~~~~CpICl~~~~--~p~~--~~CgH~FC~~Ci~~~~~~~~~---~~~~CP~Cr~  130 (243)
                      ...+.++|-||.+.+.  .|+.  ..|-|+|...||.+|-...+.   ....||.|..
T Consensus       187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            3678899999999764  4554  368999999999999886432   3478999984

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=86.90  E-value=0.38  Score=42.74  Aligned_cols=50  Identities=26%  Similarity=0.403  Sum_probs=37.6

Q ss_pred             CCCCccccccCCCC---CCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcc
Q psy3978          81 GNEDIKCPICLDLP---RAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEA  131 (243)
Q Consensus        81 ~~~~~~CpICl~~~---~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~  131 (243)
                      ....+.||+=-+.-   ..|+++.|||+.-..-+.+...++. -.+.||.|...
T Consensus       333 fHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~-~~FKCPYCP~~  385 (396)
T COG5109         333 FHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGV-LSFKCPYCPEM  385 (396)
T ss_pred             ccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCc-EEeeCCCCCcc
Confidence            45678999866643   4589999999999998887665543 23899999654

>KOG1812|consensus

Probab=86.89  E-value=0.34  Score=44.72  Aligned_cols=54  Identities=28%  Similarity=0.712  Sum_probs=36.1

Q ss_pred             CCccccccC-CCCCCcE---EcCCCccccHHHHHHHHHhCC--CCCCCCCC--CCccccCCC
Q psy3978          83 EDIKCPICL-DLPRAPQ---MTRCGHCFCWPCILHYLALSD--KSWRKCPI--CYEAVHLGD  136 (243)
Q Consensus        83 ~~~~CpICl-~~~~~p~---~~~CgH~FC~~Ci~~~~~~~~--~~~~~CP~--Cr~~~~~~~  136 (243)
                      ...+|.||. +.+....   +..|+|.||..|+.+++....  +....||.  |...+....
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~  206 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLES  206 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHH
Confidence            357899999 4433322   357999999999999998552  22256764  655555443

>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=84.82  E-value=0.29  Score=31.21  Aligned_cols=34  Identities=29%  Similarity=0.808  Sum_probs=22.9

Q ss_pred             cEEcCCC-ccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          97 PQMTRCG-HCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        97 p~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      --.+.|. |-.|..|+...+..+    ..||+|..+++.
T Consensus        13 k~Li~C~dHYLCl~CLt~ml~~s----~~C~iC~~~LPt   47 (50)
T PF03854_consen   13 KGLIKCSDHYLCLNCLTLMLSRS----DRCPICGKPLPT   47 (50)
T ss_dssp             SSEEE-SS-EEEHHHHHHT-SSS----SEETTTTEE---
T ss_pred             CCeeeecchhHHHHHHHHHhccc----cCCCcccCcCcc
Confidence            3356786 888999999888776    589999988764

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.

>KOG3268|consensus

Probab=84.45  E-value=0.92  Score=37.15  Aligned_cols=53  Identities=25%  Similarity=0.565  Sum_probs=36.0

Q ss_pred             CCCccccccCCCCCCcEE-------cCCCccccHHHHHHHHHhCC--C-----CCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRAPQM-------TRCGHCFCWPCILHYLALSD--K-----SWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~-------~~CgH~FC~~Ci~~~~~~~~--~-----~~~~CP~Cr~~~~~  134 (243)
                      .+...|-||..+--+..+       ..||..|+.-|+..|++.--  +     -...||.|-.++..
T Consensus       163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            444568888765433322       46999999999999997421  0     01379999887754

>PHA02862 5L protein; Provisional

Probab=84.27  E-value=1.2  Score=35.31  Aligned_cols=47  Identities=23%  Similarity=0.538  Sum_probs=34.4

Q ss_pred             ccccccCCCCCCcEEcCCCc-----cccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          85 IKCPICLDLPRAPQMTRCGH-----CFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        85 ~~CpICl~~~~~p~~~~CgH-----~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..|=||.+.-.+. .-||.-     --+..|+.+|+..+.+  ..|+.|+.+...
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k--~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKK--KECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCC--cCccCCCCeEEE
Confidence            3589999875444 356542     3478999999986643  799999988754

>KOG1815|consensus

Probab=83.93  E-value=0.76  Score=43.18  Aligned_cols=54  Identities=33%  Similarity=0.610  Sum_probs=38.7

Q ss_pred             CCCccccccCCCCCC-cEEcCCCccccHHHHHHHHHhCCC--CC--CCCC--CCCccccCC
Q psy3978          82 NEDIKCPICLDLPRA-PQMTRCGHCFCWPCILHYLALSDK--SW--RKCP--ICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~-p~~~~CgH~FC~~Ci~~~~~~~~~--~~--~~CP--~Cr~~~~~~  135 (243)
                      ....+|.||.+.+.. ...+.|||.||..|...++...-.  ..  ..||  -|.+.+...
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~  128 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGED  128 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCc
Confidence            556789999998775 555799999999999999986421  11  3455  466666543

>KOG2169|consensus

Probab=83.62  E-value=1.5  Score=43.21  Aligned_cols=90  Identities=18%  Similarity=0.292  Sum_probs=55.1

Q ss_pred             CCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHhhhccCccceeeeeee
Q psy3978          83 EDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEVTFQLMKR  161 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~~~~~~~~~~l~l~~r  161 (243)
                      -.+.|||+...+.-|.. ..|+|.-|.+-..-.-.+..++...||+|.+......+........+.....+. ...+...
T Consensus       305 vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~iD~~~~~iL~~~~~~-~~ev~~~  383 (636)
T KOG2169|consen  305 VSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLIIDGYFLNILQSCQAN-VEEVEVS  383 (636)
T ss_pred             eEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchhhhHHHHHHHhhccCC-CcceEec
Confidence            45789998887666654 679998888765433334445668999999988877776555544444333332 1222333


Q ss_pred             cCCCeeEeeccC
Q psy3978         162 ERGSTVVSPVAQ  173 (243)
Q Consensus       162 ~~~~~~~~~~s~  173 (243)
                      .+|+-.+++.+.
T Consensus       384 ~dGsw~pi~~~~  395 (636)
T KOG2169|consen  384 EDGSWKPIPEEA  395 (636)
T ss_pred             CCCceecCcccc
Confidence            346655555554

>KOG1100|consensus

Probab=82.37  E-value=0.49  Score=39.90  Aligned_cols=39  Identities=31%  Similarity=0.732  Sum_probs=30.5

Q ss_pred             ccccCCCCCCcEEcCCCc-cccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          87 CPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        87 CpICl~~~~~p~~~~CgH-~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      |-.|.+.-..-..+||.| .+|..|-..        ...||+|+.+..
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES--------LRICPICRSPKT  200 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc--------CccCCCCcChhh
Confidence            999998877766789997 889999432        167999987654

>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.40  E-value=1.8  Score=30.14  Aligned_cols=36  Identities=19%  Similarity=0.399  Sum_probs=28.5

Q ss_pred             CccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHH
Q psy3978         103 GHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVI  144 (243)
Q Consensus       103 gH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~  144 (243)
                      .|+||..|....+.      ..||.|...+..+.+++...+.
T Consensus        28 EcTFCadCae~~l~------g~CPnCGGelv~RP~RPaa~L~   63 (84)
T COG3813          28 ECTFCADCAENRLH------GLCPNCGGELVARPIRPAAKLA   63 (84)
T ss_pred             eeehhHhHHHHhhc------CcCCCCCchhhcCcCChHHHHh
Confidence            47899999987664      5899999999888877765543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	243
1jm7_A	112	Solution Structure Of The Brca1/bard1 Ring-domain H		2e-05
2ecv_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-05
2ysl_A	73	Solution Structure Of The Ring Domain (1-66) From T		4e-05
2ysj_A	63	Solution Structure Of The Ring Domain (1-56) From T		1e-04
2ecw_A	85	Solution Structure Of The Zinc Finger, C3hc4 Type (		2e-04

>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain Heterodimer Length = 112

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 69  VKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           ++ E +Q +     + ++CPICL+L + P  T+C H FC  C+L  L    K   +CP+C
Sbjct: 6   LRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLN-QKKGPSQCPLC 64

>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Tripartite Motif-Containing Protein 5 Length = 85

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCIL--HYLALSDKSWRKCPICYEAVHLGDLKSF 140
           E++ CPICL+L   P    CGH FC  C+   H  ++ DK    CP+C  +    +++  
Sbjct: 18  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPN 77
Query: 141 RSV 143
           R V
Sbjct: 78  RHV 80

>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From Tripartite Motif-containing Protein 31 Length = 73

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAV 132
           E++ CPICLD+ + P    CGH FC  CI   +  +   + KCP+C  +V
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQ-IGETSCGFFKCPLCKTSV 67

>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From Tripartite Motif-containing Protein 31 Length = 63

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           E++ CPICLD+ + P    CGH FC  CI   +  +   + KCP+C
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQ-IGETSCGFFKCPLC 63

>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Tripartite Motif Protein 30 Length = 85

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCI-LHYLALSDKSWR-KCPICYEAVHLGDLK 138
           E++ CPICL+L + P    C H FC  CI L+Y +  +   +  CP+C      G+LK
Sbjct: 18  EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK 75

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	243
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-12
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-12
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-12
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-12
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	1e-11
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-11
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-11
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-11
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-11
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-11
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-11
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	5e-11
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	6e-11
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	7e-11
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-10
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-10
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-10
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-10
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-10
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	3e-10
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-09
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-09
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-09
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	4e-09
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	6e-09
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-08
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-08
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-08
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-08
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-08
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-07
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-07
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	9e-06
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	2e-05
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	3e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	4e-05
2ect_A	78	Ring finger protein 126; metal binding protein, st	5e-05
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	5e-05
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-04
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	6e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	7e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	7e-04

>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 = 61.1 bits (148), Expect = 2e-12
 Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 4/63 (6%)

Query: 82  NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF 140
            E  +C IC++  R  ++   C    C+ CI  +L         CP C   + L +L + 
Sbjct: 20  AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQ---CPHCRAPLQLRELVNC 76

Query: 141 RSV 143
           R  
Sbjct: 77  RWA 79

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

 Score = 60.9 bits (148), Expect = 2e-12
 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 5/59 (8%)

Query: 82  NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS 139
           ++ ++C IC +      +  +C H +C  CI  +L+       +CP C   V   DLK+
Sbjct: 20  DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK----TQCPTCCVTVTEPDLKN 74

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

 Score = 59.9 bits (145), Expect = 3e-12
 Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 5/72 (6%)

Query: 82  NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR 141
               +C IC    + P +T+C H FC  C L +   +     +C IC +    G     +
Sbjct: 13  EIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRAT----PRCYICDQPTG-GIFNPAK 67

Query: 142 SVIKRARAVNEE 153
            ++ + +     
Sbjct: 68  ELMAKLQKSGPS 79

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

 Score = 58.7 bits (142), Expect = 5e-12
 Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 4/46 (8%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
              +C ICL     P    C H FC+ C+     L     ++C +C
Sbjct: 14  TVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG----KRCALC 55

>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 = 58.0 bits (141), Expect = 1e-11
 Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRK---CPICYEAVHLGDLK 138
           E++ CPICL+L   P    CGH  C  CI      +  S      CP+C  +     L+
Sbjct: 11  EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQ 69

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

 Score = 57.8 bits (140), Expect = 1e-11
 Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
           E++ CPICLD+ + P    CGH FC  CI      +   + KCP+C  +V    ++
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQIGE-TSCGFFKCPLCKTSVRKNAIR 73

>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 = 58.6 bits (142), Expect = 2e-11
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
           + ++CPICL+L + P  T+C H FC  C+L  L       + CP+C   +    L+
Sbjct: 20  KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQ-CPLCKNDITKRSLQ 74

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

 Score = 57.3 bits (139), Expect = 2e-11
 Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYL--ALSDKSWRKCPICYEAVHLGDLK 138
           E++ CPICL+L   P    CGH FC  C+      ++ DK    CP+C  +    +++
Sbjct: 18  EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR 75

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

 Score = 58.0 bits (140), Expect = 3e-11
 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 10/76 (13%)

Query: 83  EDIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS-- 139
           + ++C  C ++ R P  +  C H FC  C+   +         CP+CY    + DLK   
Sbjct: 21  KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQDLKINR 74

Query: 140 -FRSVIKRARAVNEEV 154
              S+I+    +   +
Sbjct: 75  QLDSMIQLCSKLRNLL 90

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

 Score = 57.0 bits (138), Expect = 4e-11
 Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYL--ALSDKSWRKCPICYEAVHLGDLK 138
           E++ CPICL+L + P    C H FC  CI        +      CP+C      G+LK
Sbjct: 18  EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK 75

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

 Score = 58.1 bits (140), Expect = 5e-11
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 67  QLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCP 126
           Q  K E +  +      +++C IC +         C H FC  CI  ++    K   +CP
Sbjct: 47  QAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWM----KRKIECP 102

Query: 127 IC 128
           IC
Sbjct: 103 IC 104

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

 Score = 55.9 bits (135), Expect = 5e-11
 Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 11/62 (17%)

Query: 83  EDIKCPICLDL-------PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG 135
             + CPIC+D         R    T CGH FC  C+   L    K+   CP C + ++  
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTCRKKINHK 57

Query: 136 DL 137
             
Sbjct: 58  RY 59

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

 Score = 55.4 bits (134), Expect = 6e-11
 Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
            +  C +CL+  + P +  CGH FC  CI  +    ++ +  CP+C
Sbjct: 14  VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFP-CPVC 58

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

 Score = 55.6 bits (134), Expect = 7e-11
 Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 3/55 (5%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
           +  KC  C  +  +P+ T CGH FC  C+   L+    S  KC  C E++    +
Sbjct: 14  DKYKCEKCHLVLCSPKQTECGHRFCESCMAALLS---SSSPKCTACQESIVKDKV 65

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

 Score = 54.7 bits (132), Expect = 1e-10
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           E++ CPICLD+ + P    CGH FC  CI      S   ++ CP+C
Sbjct: 19  EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFK-CPLC 63

>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 = 56.5 bits (136), Expect = 1e-10
 Identities = 20/98 (20%), Positives = 32/98 (32%), Gaps = 5/98 (5%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS 142
            + +C IC+++   P    C H  C PC    +   +K+   CP C   V        R 
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTV---EKASLCCPFCRRRVSSWTRYHTRR 70

Query: 143 VIKRARAVNEEVTFQLMKR--ERGSTVVSPVAQWDFHP 178
                  +   +     +    R S   S     D+ P
Sbjct: 71  NSLVNVELWTIIQKHYPRECKLRASGQESEEVADDYQP 108

>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 = 56.1 bits (135), Expect = 2e-10
 Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 3/46 (6%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           E  +C  C +L   P  T C H  C  C+             CP C
Sbjct: 51  ETFQCICCQELVFRPITTVCQHNVCKDCLDRSF---RAQVFSCPAC 93

>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 = 56.0 bits (135), Expect = 2e-10
 Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 3/64 (4%)

Query: 82  NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR 141
               +CPICL   R    T CGH FC  CI+  +     +  KCP+  E +    L    
Sbjct: 16  ESKYECPICLMALREAVQTPCGHRFCKACIIKSIR---DAGHKCPVDNEILLENQLFPDN 72

Query: 142 SVIK 145
              +
Sbjct: 73  FAKR 76

>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 = 54.1 bits (130), Expect = 2e-10
 Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 11/63 (17%)

Query: 82  NEDIKCPICLDL-------PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL 134
           +  + CPIC+D         R    T CGH FC  C+   L    K+   CP C + ++ 
Sbjct: 8   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTCRKKINH 63

Query: 135 GDL 137
              
Sbjct: 64  KRY 66

>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 = 56.5 bits (136), Expect = 3e-10
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)

Query: 82  NEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
           + ++ CPICLD+ +    T+ C H FC  CI+  L   +K    CP C + + 
Sbjct: 52  HSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKE---CPTCRKKLV 101

>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 = 54.9 bits (132), Expect = 3e-10
 Identities = 22/68 (32%), Positives = 27/68 (39%), Gaps = 7/68 (10%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL----K 138
           + I C IC  +   P  T C H FC  CIL  L         CP C       DL    K
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCL---KVMGSYCPSCRYPCFPTDLESPVK 78

Query: 139 SFRSVIKR 146
           SF +++  
Sbjct: 79  SFLNILNS 86

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

 Score = 52.6 bits (126), Expect = 1e-09
 Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 11/54 (20%)

Query: 82  NEDIKCPICLD-------LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +  + CPIC+D         R    T CGH FC  C+   L    K+   CP C
Sbjct: 13  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTC 62

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

 Score = 52.4 bits (126), Expect = 1e-09
 Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 5/53 (9%)

Query: 82  NEDIKCPICLD-LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
              I C IC   L  A  +T C H FC  CI+ +   S     +CP C   VH
Sbjct: 13  TPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS----NRCPKCNIVVH 61

>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 = 56.3 bits (135), Expect = 2e-09
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
               C IC +  +  ++  CGH  C  C+  +    +   + CP C
Sbjct: 331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQ---ESEGQGCPFC 373

>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 = 53.9 bits (129), Expect = 2e-09
 Identities = 12/46 (26%), Positives = 15/46 (32%), Gaps = 3/46 (6%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +   C  C +L   P  T C H  C  C+             CP C
Sbjct: 77  QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSF---KAQVFSCPAC 119

>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 = 50.9 bits (122), Expect = 4e-09
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 83  EDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +++ C IC D+     +   CG+ +C  CI   L  SD+    CP C
Sbjct: 14  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDE--HTCPTC 58

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

 Score = 50.1 bits (120), Expect = 6e-09
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 7/53 (13%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG 135
           + ++C  C    + P++  C H  C  C+       + S  +CPIC     LG
Sbjct: 5   QFLRCQQCQAEAKCPKLLPCLHTLCSGCL-------EASGMQCPICQAPWPLG 50

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

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 83  EDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +++ C IC D+     +   CG+ +C  CI   L  SD+    CP C
Sbjct: 12  DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEH--TCPTC 56

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

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 5/63 (7%)

Query: 83  EDIKCPICLDL----PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
           E ++CPIC++        P++  CGH  C  C+   LA S    R CP C +   +  L 
Sbjct: 14  EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVR-CPFCSKITRITSLT 72

Query: 139 SFR 141
              
Sbjct: 73  QLT 75

>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 = 52.6 bits (125), Expect = 2e-08
 Identities = 19/76 (25%), Positives = 27/76 (35%), Gaps = 8/76 (10%)

Query: 84  DIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPI--CYEAVHLGDLK-- 138
           ++ CPI      AP    +C H F    I +YL       R CP   C + V + D    
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTT--RDCPQAACSQVVSMRDFVRD 238

Query: 139 -SFRSVIKRARAVNEE 153
                  K A+    +
Sbjct: 239 PIMELRCKIAKMKESQ 254

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

 Score = 50.6 bits (120), Expect = 2e-08
 Identities = 19/55 (34%), Positives = 24/55 (43%), Gaps = 11/55 (20%)

Query: 81  GNEDIKCPICLDL-------PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           G+  + CPIC+D         R    T CGH FC  C+   L    K+   CP C
Sbjct: 4   GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTC 54

>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 = 50.5 bits (120), Expect = 3e-08
 Identities = 13/58 (22%), Positives = 20/58 (34%), Gaps = 3/58 (5%)

Query: 82  NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS 139
                C  C ++ R P   +CGH +C  C+   L       + C  C       +  S
Sbjct: 29  EAKYLCSACRNVLRRPFQAQCGHRYCSFCLASIL---SSGPQNCAACVHEGIYEEGIS 83

>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 = 49.4 bits (118), Expect = 3e-08
 Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 5/53 (9%)

Query: 82  NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
           N  + C +C            C H FC  CI+ YL  S    + CPIC   VH
Sbjct: 13  NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS----KYCPICDVQVH 61

>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 = 50.5 bits (120), Expect = 4e-08
 Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 3/63 (4%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS 142
              +CPICL   R    T CGH FC  CI+  +  +     KCP+  E +    L     
Sbjct: 17  SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH---KCPVDNEILLENQLFPDNF 73

Query: 143 VIK 145
             +
Sbjct: 74  AKR 76

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

 Score = 46.6 bits (111), Expect = 1e-07
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 83  EDIKCPICLDLPR-APQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
              +CPICL+ P        C H FC+ CI  ++  +      CP+C
Sbjct: 4   VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN----PTCPLC 46

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

 Score = 45.1 bits (107), Expect = 5e-07
 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 5/46 (10%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           ++ +C IC+D  RA  +  C H FC  CI  +        R CPIC
Sbjct: 14  DEEECCICMD-GRADLILPCAHSFCQKCIDKWSDRH----RNCPIC 54

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 94

 Score = 42.3 bits (99), Expect = 9e-06
 Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 9/82 (10%)

Query: 81  GNEDIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWR--KCPI---CYEAVHL 134
           G+    CPI  +  + P +   CGH +    I+  +    K  +   CP     +  +  
Sbjct: 4   GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK 63

Query: 135 GDLK---SFRSVIKRARAVNEE 153
            DL    + R  I+        
Sbjct: 64  SDLIQDEALRRAIENHNKKRHR 85

>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 Length = 61

 Score = 40.0 bits (94), Expect = 2e-05
 Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 87  CPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
           C I   +PR P ++      F    +  Y+  +       PI  E + + ++
Sbjct: 6   CAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT----GNDPITNEPLSIEEI 53

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

 Score = 40.8 bits (96), Expect = 3e-05
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 7/58 (12%)

Query: 74  IQQIRGFGNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWRKCPIC 128
           + +  G   +++ CPIC        +     C H F  PC+  +L  S      CP+C
Sbjct: 30  VTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSG----TCPVC 83

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 40.6 bits (95), Expect = 3e-05
 Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 7/49 (14%)

Query: 87  CPICLDLPRAPQMTR---CGHCFCWPCILHYLAL----SDKSWRKCPIC 128
           C +CL      QMT    C   FC  C+  Y+ L      ++   CP  
Sbjct: 8   CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

>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 = 19/85 (22%), Positives = 37/85 (43%), Gaps = 22/85 (25%)

Query: 63  GDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAP------------------QMTRCGH 104
           G+P+Q+++ +Y ++++    ED  C IC++                       ++T+C H
Sbjct: 7   GEPEQVIR-KYTEELKVAPEED--CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 105 CFCWPCILHYLALSDKSWR-KCPIC 128
            F   C+L      +K    +CP C
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSC 88

>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 = 39.7 bits (93), Expect = 5e-05
 Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 21/57 (36%)

Query: 82  NEDIKCPICLD----------LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
              ++CP+C +          LP       C H F   CI+ +L    +    CP+C
Sbjct: 13  GSGLECPVCKEDYALGESVRQLP-------CNHLFHDSCIVPWL----EQHDSCPVC 58

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 38.8 bits (91), Expect = 5e-05
 Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 8/46 (17%)

Query: 87  CPICLD----LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           CPICL+          +  CGH     C    L    K   +CP+C
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEML----KEGYRCPLC 49

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

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 7/51 (13%)

Query: 81  GNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWRKCPIC 128
            N    C +CL+  +         C H F   C++ +L    +  + CP+C
Sbjct: 12  LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWL----EVRKVCPLC 58

>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 = 36.8 bits (85), Expect = 6e-04
 Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 82  NEDIK-CPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPIC 128
            + +K C IC  L    Q    CG     PC+  Y   + +   +CP C
Sbjct: 12  PDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--RCPHC 58

>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 Length = 79

 Score = 36.7 bits (85), Expect = 6e-04
 Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 9/47 (19%)

Query: 83  EDIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
           E + C +C +         CGH   C  C            + CP+C
Sbjct: 17  EAMLCMVCCEEEINSTFCPCGHTVCCESCA--------AQLQSCPVC 55

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

 Score = 38.9 bits (90), Expect = 7e-04
 Identities = 22/106 (20%), Positives = 39/106 (36%), Gaps = 9/106 (8%)

Query: 26  LMQSLASVHKHKYNKEQFLQANCQ--FVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNE 83
           L+  L      K   EQ LQ   Q  +++    ++ +H     ++ ++        + + 
Sbjct: 124 LVDQLKGKKMRKKEAEQVLQKFVQNKWLIEKEGEFTLHGRAILEMEQYIRET----YPDA 179

Query: 84  DIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPIC 128
              C IC  L    Q    CG     PC+  Y   + +   +CP C
Sbjct: 180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--RCPHC 223

>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 = 36.1 bits (83), Expect = 7e-04
 Identities = 15/51 (29%), Positives = 19/51 (37%), Gaps = 8/51 (15%)

Query: 83  EDIKCPICL-DLPRAPQM----TRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +D  CP C     R P +      CGH  C  C+     L  +    CP C
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCV---DLLFVRGAGNCPEC 49

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	243
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.56
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.52
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.5
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.5
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.49
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.48
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.48
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.47
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.46
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.45
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.45
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.45
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.45
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.44
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.43
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.43
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.42
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.42
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.42
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.41
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.41
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.4
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.4
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.39
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.39
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.38
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.38
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.37
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.37
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.36
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.36
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.35
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.32
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.3
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.3
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.29
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.29
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.29
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.28
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.27
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.27
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.26
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.25
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.25
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.22
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.22
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.22
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.21
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.2
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.17
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.15
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.09
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.09
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.05
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.04
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.03
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.01
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.0
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.97
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.96
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.82
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.81
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.8
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.71
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.7
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.62
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.3
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.29
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.13
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.73
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.45
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.66
3nw0_A	238	Non-structural maintenance of chromosomes element	96.3
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	92.91
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	91.66
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	91.19
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	86.7

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

Probab=99.56  E-value=3.4e-15  Score=105.23  Aligned_cols=62  Identities=23%  Similarity=0.422  Sum_probs=54.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      ..+++.||||++.+.+|++++|||+||..||.+|+..+.   ..||+|+..+...++.++..+..
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~---~~CP~C~~~~~~~~l~~n~~l~~   66 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGH---KTCPKSQETLLHAGLTPNYVLKS   66 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTC---CBCTTTCCBCSSCCCEECTTTHH
T ss_pred             CcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCc---CCCCCCcCCCChhhCccCHHHHH
Confidence            567899999999999999999999999999999997633   78999999998888887776644

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

Probab=99.52  E-value=1.1e-14  Score=104.86  Aligned_cols=62  Identities=16%  Similarity=0.167  Sum_probs=56.3

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+|++++|||+||..||.+|+...    ..||+|+..+...++.++..+...
T Consensus        11 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~----~~cP~~~~~l~~~~l~pn~~L~~~   72 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNS----PTDPFNRQMLTESMLEPVPELKEQ   72 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHC----SBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             CchheECcccCchhcCCeECCCCCEECHHHHHHHHhcC----CCCCCCcCCCChHhcchHHHHHHH
Confidence            56889999999999999999999999999999999864    799999999998899988887543

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

Probab=99.50  E-value=2.1e-14  Score=104.28  Aligned_cols=64  Identities=25%  Similarity=0.524  Sum_probs=54.3

Q ss_pred             CCCCccccccCCCCCCcEEcC-CCccccHHHHHHHHHhCCCCCCCCCCCCccc-cCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAV-HLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~-CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~-~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||++.+.+|++++ |||+||..||..|+.....  ..||+||..+ ....+.++..+...
T Consensus        10 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~--~~CP~Cr~~~~~~~~~~~n~~l~~~   75 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDE--HTCPTCHQNDVSPDALIANKFLRQA   75 (92)
T ss_dssp             CCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTT--CCCTTTCCSSCCTTSCEECHHHHHH
T ss_pred             CCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCC--CcCcCCCCcCCCccccCcCHHHHHH
Confidence            567899999999999999999 9999999999999986532  6899999997 56678887776543

>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=99.50  E-value=5.5e-15  Score=109.42  Aligned_cols=62  Identities=26%  Similarity=0.634  Sum_probs=54.5

Q ss_pred             CCCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      ..+++.|+||++.+.+|+. ++|||+||..||.+|+....   ..||+||..+...++..+..+..
T Consensus        19 l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~l~~~~~~~~   81 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR---AQCPHCRAPLQLRELVNCRWAEE   81 (100)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTC---SBCTTTCCBCCGGGCEECTTHHH
T ss_pred             CCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCc---CCCCCCCCcCCHHHhHhhHHHHH
Confidence            4678899999999999999 99999999999999999874   68999999998888777665543

>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=99.49  E-value=1.8e-14  Score=106.85  Aligned_cols=62  Identities=16%  Similarity=0.168  Sum_probs=56.4

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+|++++|||+||..||.+|+...    ..||+|+.++...++.++..+...
T Consensus        26 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~----~~cP~~~~~l~~~~L~pn~~Lk~~   87 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNS----PTDPFNRQTLTESMLEPVPELKEQ   87 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSC----SBCSSSCCBCCTTSSEECHHHHHH
T ss_pred             CcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcC----CCCCCCCCCCChhhceECHHHHHH
Confidence            57889999999999999999999999999999999853    799999999999999999887654

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

Probab=99.48  E-value=3.9e-14  Score=98.38  Aligned_cols=56  Identities=30%  Similarity=0.524  Sum_probs=49.3

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      ..+.+.|+||++.+.+|+++ +|||+||..||.+|+...    ..||+||..+...++..+
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~~~   68 (72)
T 2djb_A           12 LTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS----NRCPKCNIVVHQTQPLSG   68 (72)
T ss_dssp             CCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHC----SSCTTTCCCCCSSCSCCC
T ss_pred             cCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcC----CcCCCcCcccCccccccc
Confidence            45778999999999999997 999999999999999875    799999999987766543

>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=99.48  E-value=3e-14  Score=105.16  Aligned_cols=62  Identities=11%  Similarity=0.132  Sum_probs=56.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCC-ccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCG-HCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+||+++|| |+||..||.+|+...    ..||+|+.++...++.++..+...
T Consensus        19 ~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~----~~cP~~~~~l~~~~L~pn~~Lk~~   81 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD----QTDPFNRSPLTMDQIRPNTELKEK   81 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS----CBCTTTCSBCCTTTSEECHHHHHH
T ss_pred             CcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhC----CCCCCCCCCCChhhceEcHHHHHH
Confidence            57899999999999999999999 999999999999864    689999999999999998887654

>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=99.47  E-value=3.1e-14  Score=109.21  Aligned_cols=63  Identities=21%  Similarity=0.385  Sum_probs=54.2

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC-CCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL-GDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~-~~l~~~~~~~~~  146 (243)
                      ..+++.||||++.+.+|++++|||+||..||..|+....   ..||+||..+.. ..+.++..+...
T Consensus        49 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~~~~n~~l~~~  112 (124)
T 3fl2_A           49 VEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQV---FSCPACRYDLGRSYAMQVNQPLQTV  112 (124)
T ss_dssp             HHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTC---CBCTTTCCBCCTTCCCCCCHHHHHH
T ss_pred             CccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCc---CCCCCCCccCCCCCCCCCCHHHHHH
Confidence            356789999999999999999999999999999998543   699999999987 677777776543

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

Probab=99.46  E-value=1.6e-14  Score=106.55  Aligned_cols=62  Identities=27%  Similarity=0.643  Sum_probs=54.3

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+.+.|+||++.+.+|+++ +|||+||..||.+|+...    ..||+|+..+...++.++..+...
T Consensus        19 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~~l~~n~~l~~~   81 (99)
T 2y43_A           19 IDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK----TQCPTCCVTVTEPDLKNNRILDEL   81 (99)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC----CBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             CCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCC----CCCCCCCCcCChhhCCcCHHHHHH
Confidence            35678999999999999998 899999999999999865    699999999998888888776543

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

Probab=99.45  E-value=6e-14  Score=99.86  Aligned_cols=62  Identities=32%  Similarity=0.749  Sum_probs=52.5

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCC--CCCCCCCCCCccccCCCCcchhH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSD--KSWRKCPICYEAVHLGDLKSFRS  142 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~--~~~~~CP~Cr~~~~~~~l~~~~~  142 (243)
                      ..+.+.|+||++.+.+|++++|||+||..||..|+....  .....||+|+..+...++.++..
T Consensus        16 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecw_A           16 IKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLH   79 (85)
T ss_dssp             CCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSC
T ss_pred             CccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHH
Confidence            467789999999999999999999999999999999841  11279999999998877776654

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

Probab=99.45  E-value=4.1e-14  Score=96.54  Aligned_cols=54  Identities=31%  Similarity=0.682  Sum_probs=47.3

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL  137 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l  137 (243)
                      ..+.+.|+||++.+.+|+.++|||.||..||.+|+....   ..||+||..+...++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSS---PKCTACQESIVKDKV   65 (66)
T ss_dssp             CCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSS---CCCTTTCCCCCTTTC
T ss_pred             CCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCc---CCCCCCCcCCChhhc
Confidence            467889999999999999999999999999999996432   689999999877654

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

Probab=99.45  E-value=6.8e-14  Score=97.13  Aligned_cols=56  Identities=38%  Similarity=0.843  Sum_probs=47.9

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL  137 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l  137 (243)
                      ..+.+.|+||++.+.+|++++|||.||..||..|+.... ....||+||..+..+++
T Consensus        17 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC-GFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSC-SCCCCSSSCCCCCCCCC
T ss_pred             CccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCC-CCCCCCCCCCcCCcccC
Confidence            567889999999999999999999999999999997421 12689999999887654

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

Probab=99.45  E-value=1.4e-13  Score=97.67  Aligned_cols=58  Identities=26%  Similarity=0.624  Sum_probs=49.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSV  143 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~  143 (243)
                      ..+.+.|+||++.+.+|++++|||+||..||.+|+...    ..||+||..+. ..+.++..+
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~-~~~~~~~~l   69 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRAT----PRCYICDQPTG-GIFNPAKEL   69 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHC----SBCSSSCCBCC-SCCEECHHH
T ss_pred             CCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCC----CcCCCcCcccc-ccCCcHHHH
Confidence            45678999999999999999999999999999999875    79999999986 555555444

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

Probab=99.44  E-value=4e-14  Score=97.70  Aligned_cols=56  Identities=29%  Similarity=0.698  Sum_probs=49.7

Q ss_pred             CCCCccccccCCCCCCc-------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          81 GNEDIKCPICLDLPRAP-------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p-------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      ..++..|+||++.+.+|       +.++|||.||..||.+|+...    ..||+||..+...++.++
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~~~   69 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRYHPI   69 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC----SBCTTTCCBCCCCSCCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC----CCCCCCCCccChhheeec
Confidence            46778999999998887       889999999999999999877    699999999998877654

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

Probab=99.43  E-value=9.8e-14  Score=96.96  Aligned_cols=52  Identities=29%  Similarity=0.599  Sum_probs=45.4

Q ss_pred             CCCCccccccCCCCCCcEEcC-CCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~-CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..+++.|+||++.+.+|++++ |||+||..||.+|+....  ...||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~--~~~CP~Cr~~~~~   64 (74)
T 2yur_A           12 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESD--EHTCPTCHQNDVS   64 (74)
T ss_dssp             SCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSS--SSCCSSSCCSSCC
T ss_pred             CCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcC--CCcCCCCCCcCCC
Confidence            467889999999999999999 999999999999998753  2689999997544

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

Probab=99.43  E-value=5.8e-14  Score=95.51  Aligned_cols=56  Identities=25%  Similarity=0.619  Sum_probs=47.6

Q ss_pred             CCccccccCC-CCCCc----EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchh
Q psy3978          83 EDIKCPICLD-LPRAP----QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR  141 (243)
Q Consensus        83 ~~~~CpICl~-~~~~p----~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~  141 (243)
                      +++.||||++ .+.+|    ++++|||+||..||.+|+....   ..||+||..+...++.+++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~~~~~   62 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA---GNCPECGTPLRKSNFRVQL   62 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS---SSCTTTCCCCSSCCCEEEC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCC---CcCCCCCCccccccceeec
Confidence            4678999999 88887    5689999999999999987643   6899999999988876653

>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=99.42  E-value=3.6e-14  Score=106.55  Aligned_cols=73  Identities=29%  Similarity=0.643  Sum_probs=56.9

Q ss_pred             CChhhHhhhhccCCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhH
Q psy3978          69 VKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS  142 (243)
Q Consensus        69 ~~~~~~~~v~~~~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~  142 (243)
                      ..|+.+........+.+.|+||++.+.+|++++|||+||..||..|+..... ...||+|+..+...++.++..
T Consensus         6 ~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~-~~~CP~Cr~~~~~~~~~~~~~   78 (112)
T 1jm7_A            6 LRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKG-PSQCPLCKNDITKRSLQESTR   78 (112)
T ss_dssp             SSHHHHHHHHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSS-SCCCTTTSCCCCTTTCBCCCS
T ss_pred             HHHHHHHHHHHhccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCC-CCCCcCCCCcCCHhhcCccHH
Confidence            3455554443334567899999999999999999999999999999986532 258999999998877766543

>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=99.42  E-value=2.1e-14  Score=109.17  Aligned_cols=77  Identities=26%  Similarity=0.598  Sum_probs=61.6

Q ss_pred             CCcccCChhhHhhhhccCCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhH
Q psy3978          64 DPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS  142 (243)
Q Consensus        64 ~~~~~~~~~~~~~v~~~~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~  142 (243)
                      +++...+|...........+++.||||++.+.+|+++ +|||+||..||..|+.      ..||+|+..+...++.++..
T Consensus         2 ~~~~~~~~~~~~~~~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~------~~CP~Cr~~~~~~~~~~n~~   75 (117)
T 1jm7_B            2 EPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQDLKINRQ   75 (117)
T ss_dssp             CSSTTCCCHHHHHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT------TBCSSSCCBCSCSSCCCCHH
T ss_pred             CCCcccCccchHHHHHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc------CCCcCCCCcCccccccccHH
Confidence            3444556665444333457889999999999999999 9999999999999986      47999999998888888877


Q ss_pred             HHHh
Q psy3978         143 VIKR  146 (243)
Q Consensus       143 ~~~~  146 (243)
                      +...
T Consensus        76 l~~l   79 (117)
T 1jm7_B           76 LDSM   79 (117)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

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

Probab=99.42  E-value=1.2e-14  Score=102.48  Aligned_cols=62  Identities=29%  Similarity=0.647  Sum_probs=51.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCC---CCCCCCCCCCccccCCCCcchhH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSD---KSWRKCPICYEAVHLGDLKSFRS  142 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~---~~~~~CP~Cr~~~~~~~l~~~~~  142 (243)
                      ..+++.|+||++.+.+|++++|||+||..||.+|+....   .....||+||..+...++.++..
T Consensus         9 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~   73 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQH   73 (79)
T ss_dssp             CCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSS
T ss_pred             cccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHH
Confidence            467889999999999999999999999999999987631   11378999999998776666544

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

Probab=99.41  E-value=7.9e-14  Score=99.22  Aligned_cols=62  Identities=34%  Similarity=0.764  Sum_probs=52.0

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhC--CCCCCCCCCCCccccCCCCcchhH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALS--DKSWRKCPICYEAVHLGDLKSFRS  142 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~--~~~~~~CP~Cr~~~~~~~l~~~~~  142 (243)
                      ..+.+.|+||++.+.+|++++|||.||..|+..|+...  ......||+|+..+...++.++..
T Consensus        16 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRH   79 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCC
T ss_pred             ccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHH
Confidence            46778999999999999999999999999999999872  111279999999998877776654

>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=99.41  E-value=1.5e-13  Score=109.03  Aligned_cols=62  Identities=19%  Similarity=0.401  Sum_probs=54.1

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC-CCcchhHHHHh
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG-DLKSFRSVIKR  146 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~-~l~~~~~~~~~  146 (243)
                      .+.+.|+||++.+.+|++++|||+||..||..|+....   ..||+||..+... .+.++..+...
T Consensus        76 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~l~~n~~l~~l  138 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQV---FSCPACRHDLGQNYIMIPNEILQTL  138 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTC---CBCTTTCCBCCTTCCCCBCHHHHHH
T ss_pred             ccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCC---CcCCCCCccCCCCCCCCCCHHHHHH
Confidence            46789999999999999999999999999999998653   5899999999887 77777776544

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

Probab=99.40  E-value=7.8e-14  Score=109.04  Aligned_cols=50  Identities=26%  Similarity=0.702  Sum_probs=45.1

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      .+++.||||++.+.+|++++|||+||..||..|+...    ..||+||..+...
T Consensus        51 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK----IECPICRKDIKSK  100 (138)
T ss_dssp             HHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTC----SBCTTTCCBCCCE
T ss_pred             cccCCCcccCcccCCceECCCCCCccHHHHHHHHHcC----CcCCCCCCcCCCC
Confidence            4678899999999999999999999999999999865    6899999998654

>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=99.40  E-value=2e-13  Score=99.90  Aligned_cols=66  Identities=23%  Similarity=0.496  Sum_probs=55.5

Q ss_pred             CCCCccccccCCCCCCcEEcC-CCccccHHHHHHHHHhCC--CCCCCCCC--CCcc-ccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSD--KSWRKCPI--CYEA-VHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~-CgH~FC~~Ci~~~~~~~~--~~~~~CP~--Cr~~-~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+||+++ |||+||..||.+||....  .....||+  |+.. +...++.++..+...
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~   75 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRA   75 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHH
Confidence            467899999999999999995 999999999999998641  12268999  9887 888889888887654

>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=99.39  E-value=4e-13  Score=102.18  Aligned_cols=62  Identities=31%  Similarity=0.565  Sum_probs=53.8

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      ..+.+.||||++.+.+|+.++|||+||..||..|+....   ..||+||..+...++.++..+..
T Consensus        15 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~~~~~~l~~   76 (118)
T 3hct_A           15 LESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG---HKCPVDNEILLENQLFPDNFAKR   76 (118)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC---SBCTTTCCBCCGGGCEECHHHHH
T ss_pred             CCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCC---CCCCCCCCCcCHHhcccCHHHHH
Confidence            567889999999999999999999999999999998764   48999999998877766655543

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

Probab=99.39  E-value=8.2e-14  Score=94.00  Aligned_cols=54  Identities=30%  Similarity=0.715  Sum_probs=47.3

Q ss_pred             CCccccccCCCCCCc-------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          83 EDIKCPICLDLPRAP-------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        83 ~~~~CpICl~~~~~p-------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      +++.|+||++.+.+|       +.++|||.||..||.+|+..+    ..||+||..+...++.++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~~~   62 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRYHPI   62 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC----SBCTTTCCBCTTTCEEEC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC----CCCCCCCccCCccceeee
Confidence            467899999998876       789999999999999999885    699999999988776654

>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=99.38  E-value=2e-13  Score=102.17  Aligned_cols=61  Identities=31%  Similarity=0.649  Sum_probs=51.4

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC----CCcchhHHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG----DLKSFRSVIK  145 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~----~l~~~~~~~~  145 (243)
                      ..+++.|+||++.+.+|+++ +|||+||..||..|+...    ..||+|+..+...    .+.++..+..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~~~l~~n~~l~~   77 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS----KYCPICDVQVHKTRPLLNIRSDKTLQD   77 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSC----SBCTTTCCBSCSSCGGGGEEECHHHHH
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhC----CcCcCCCccccccCcccccCcCHHHHH
Confidence            35788999999999999997 999999999999999875    7999999998765    4555555543

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

Probab=99.38  E-value=7.2e-14  Score=96.77  Aligned_cols=51  Identities=25%  Similarity=0.625  Sum_probs=45.3

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      ..+.+.|+||++.+.+|+.++|||.||..||.+|+...    ..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG----KRCALCRQEIPED   62 (71)
T ss_dssp             SSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCS----SBCSSSCCBCCHH
T ss_pred             CCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCC----CcCcCcCchhCHh
Confidence            35678899999999999999999999999999999765    6899999988643

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

Probab=99.37  E-value=5.2e-13  Score=90.11  Aligned_cols=47  Identities=43%  Similarity=0.978  Sum_probs=41.2

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      ..+++.|+||++.+.+|++++|||+||..||.+|+.... ....||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC-GFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCS-SCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCC-CCCcCcCC
Confidence            567889999999999999999999999999999998632 12689998

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

Probab=99.37  E-value=5.9e-13  Score=95.49  Aligned_cols=56  Identities=32%  Similarity=0.770  Sum_probs=47.7

Q ss_pred             CCCCccccccCCCCCC----cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCC
Q psy3978          81 GNEDIKCPICLDLPRA----PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL  137 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~----p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l  137 (243)
                      ..+.+.|+||++.+.+    |++++|||.||..||.+|+.... ....||+||..+...++
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~Cr~~~~~~~i   71 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI-NGVRCPFCSKITRITSL   71 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCS-SCBCCTTTCCCBCCSST
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCC-CCcCCCCCCCcccchhH
Confidence            4677899999999998    99999999999999999998752 12689999998876543

>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=99.36  E-value=3.4e-13  Score=116.23  Aligned_cols=63  Identities=16%  Similarity=0.098  Sum_probs=56.2

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+.+.||||+++|.+||+++|||+||..||.+|+....   ..||+|+.++...++.++..+...
T Consensus       205 ~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~---~~cP~~~~~~~~~~l~~n~~l~~~  267 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG---HFNPVTRSPLTQEQLIPNLAMKEV  267 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC---SSCTTTCCCCCGGGCEECHHHHHH
T ss_pred             CCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCC---CCCcCCCCCCchhcCcccHHHHHH
Confidence            467899999999999999999999999999999998753   459999999998899998887654

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

Probab=99.36  E-value=5.4e-13  Score=108.53  Aligned_cols=63  Identities=16%  Similarity=0.095  Sum_probs=56.7

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      .++.+.||||+++|.+||+++|||+||..||..|+....   ..||+|+.++...++.+|..+...
T Consensus       103 ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~---~tcP~t~~~l~~~~L~pN~~Lk~~  165 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG---HFDPVTRSPLTQDQLIPNLAMKEV  165 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC---SBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             CcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCC---CCCCCCcCCCChhhCcchHHHHHH
Confidence            578899999999999999999999999999999998753   479999999998899999887654

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

Probab=99.35  E-value=3.2e-13  Score=92.43  Aligned_cols=50  Identities=32%  Similarity=0.778  Sum_probs=44.2

Q ss_pred             CCCCccccccCCCCCCc-------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAP-------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p-------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..+...|+||++.+.+|       +.++|||.||..||.+|+...    ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC----SSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC----CCCCCCCCccCc
Confidence            45778899999998877       889999999999999999885    699999998764

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

Probab=99.32  E-value=7.4e-13  Score=93.10  Aligned_cols=56  Identities=21%  Similarity=0.550  Sum_probs=46.7

Q ss_pred             CCCCccccccCCCCCCc---EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          81 GNEDIKCPICLDLPRAP---QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p---~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      ..+...|+||++.+..+   +.++|||.||..||.+|+...    ..||+||..+...++.++
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH----DSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT----CSCTTTCCCCCCSCSCCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC----CcCcCcCCccCCcccCCC
Confidence            45678899999988765   557999999999999999765    689999999987766543

>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=99.30  E-value=1.8e-12  Score=84.83  Aligned_cols=48  Identities=27%  Similarity=0.670  Sum_probs=41.8

Q ss_pred             CCCccccccCCCCCC----cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRA----PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~----p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .++..|+||++.+.+    ++.++|||.||..||.+|+...    ..||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG----YRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT----CCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC----CcCCCCCCcCC
Confidence            456789999998865    7779999999999999999987    68999998764

>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=99.30  E-value=1e-12  Score=99.49  Aligned_cols=55  Identities=36%  Similarity=0.714  Sum_probs=48.1

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      .+++.||||++.+.+|+.++|||+||..||.+|+....   ..||+||..+...++..
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~~~   75 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMG---SYCPSCRYPCFPTDLES   75 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC---SBCTTTCCBCCGGGCBC
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCc---CcCCCCCCCCCHhhccc
Confidence            35678999999999999999999999999999998743   68999999998766543

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

Probab=99.29  E-value=2.2e-12  Score=88.17  Aligned_cols=48  Identities=33%  Similarity=0.855  Sum_probs=42.7

Q ss_pred             CCCccccccCCCCCCc-EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p-~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .++..|+||++.+.+| +.++|||.||..|+.+|+..+    ..||+||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~----~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN----PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS----CSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCc----CcCcCCChhhH
Confidence            4567899999999987 678999999999999999876    69999998875

>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=99.29  E-value=3.3e-13  Score=102.04  Aligned_cols=51  Identities=25%  Similarity=0.681  Sum_probs=45.0

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..+++.|+||++.+.+|++++|||+||..||.+|+....   ..||+||..+..
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~   62 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKAS---LCCPFCRRRVSS   62 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTT---SBCTTTCCBCHH
T ss_pred             CCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCc---CCCCCCCcccCc
Confidence            456788999999999999999999999999999997543   789999998863

>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=99.29  E-value=6.5e-13  Score=106.72  Aligned_cols=63  Identities=29%  Similarity=0.635  Sum_probs=51.4

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccC-CCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL-GDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~-~~l~~~~~~~~~  146 (243)
                      ..+.+.||||++.+.+|+.+ +|||+||..||..|+....   ..||+||..+.. ..+.++..+...
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~l~~~~~l~~~  115 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGN---KECPTCRKKLVSKRSLRPDPNFDAL  115 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTC---CBCTTTCCBCCSGGGEEECHHHHHH
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCc---CCCCCCCCcCCCcccCCcCHHHHHH
Confidence            34667899999999999997 9999999999999998643   789999999854 456666665543

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

Probab=99.28  E-value=1.7e-12  Score=85.78  Aligned_cols=47  Identities=30%  Similarity=0.818  Sum_probs=40.1

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC  128 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~C  128 (243)
                      ..+.+.|+||++.+.+|++++|||+||..||.+|+.... ....||+|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLE-RDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSC-CSCCCSCC
T ss_pred             cccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcC-CCCCCCCC
Confidence            457789999999999999999999999999999976421 12789998

>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=99.27  E-value=4.7e-12  Score=86.85  Aligned_cols=51  Identities=29%  Similarity=0.671  Sum_probs=42.9

Q ss_pred             CCCCccccccCCCCC---CcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          81 GNEDIKCPICLDLPR---APQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        81 ~~~~~~CpICl~~~~---~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      ..+...|+||++.+.   .++.++|||.||..||.+|+...    ..||+||..+...
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN----KKCPICRVDIEAQ   64 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHC----SBCTTTCSBSCSC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcC----CCCcCcCccccCc
Confidence            356678999999874   45779999999999999999986    5899999988653

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

Probab=99.27  E-value=2e-12  Score=84.69  Aligned_cols=49  Identities=27%  Similarity=0.695  Sum_probs=41.9

Q ss_pred             CCCCccccccCCCCCC---cEEcC-CCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRA---PQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~---p~~~~-CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .+++..|+||++.+..   ++.++ |||.||..||.+|+..+    ..||+||+.+.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~~~   54 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH----STCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC----CSCSSSCCCSC
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcC----CcCcCCCCEeE
Confidence            3567789999999877   67776 99999999999999765    68999998764

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

Probab=99.26  E-value=2.9e-12  Score=90.58  Aligned_cols=54  Identities=19%  Similarity=0.506  Sum_probs=43.6

Q ss_pred             CCCCccccccCCCCC--CcEEcC--CCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCC
Q psy3978          81 GNEDIKCPICLDLPR--APQMTR--CGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL  137 (243)
Q Consensus        81 ~~~~~~CpICl~~~~--~p~~~~--CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l  137 (243)
                      .++++.||||++.+.  ++++++  |||+||..|+.+++....   ..||.||+.+....+
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~---~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDEN---GLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSC---SBCTTTCCBCSSCSS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCC---CCCCCCCCccCCCch
Confidence            467889999999774  445555  999999999999886433   789999999987654

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

Probab=99.25  E-value=3e-12  Score=92.95  Aligned_cols=49  Identities=29%  Similarity=0.637  Sum_probs=42.5

Q ss_pred             CCCccccccCCCCCC---cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRA---PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~---p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .++..|+||++.+..   ++.++|||.||..||..|+...    ..||+||..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS----GTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTT----CBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcC----CcCcCcCccCCC
Confidence            466789999998876   6778999999999999999865    699999998764

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

Probab=99.25  E-value=2.8e-12  Score=89.57  Aligned_cols=50  Identities=26%  Similarity=0.580  Sum_probs=43.4

Q ss_pred             CCCCccccccCCCCCCc---EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAP---QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p---~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..+...|+||++.+..+   +.++|||.||..||.+|+...    ..||+||+.+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~----~~CP~Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN----RTCPICRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC----SSCTTTCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC----CcCcCcCCcCCC
Confidence            34667899999988876   678999999999999999876    689999998764

>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=99.23  E-value=6e-12  Score=101.46  Aligned_cols=62  Identities=31%  Similarity=0.565  Sum_probs=53.7

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIK  145 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~  145 (243)
                      ..+.+.||||++.+.+|+.++|||+||..||.+|+....   ..||+||..+...++.++..+..
T Consensus        15 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~~~~~~~~~~   76 (170)
T 3hcs_A           15 LESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG---HKCPVDNEILLENQLFPDNFAKR   76 (170)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC---SBCTTTCCBCCGGGCEECHHHHH
T ss_pred             CCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCC---CCCCCCccCcchhhhhhhHHHHH
Confidence            578899999999999999999999999999999998764   58999999998877766655443

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

Probab=99.22  E-value=6.6e-12  Score=87.28  Aligned_cols=50  Identities=26%  Similarity=0.641  Sum_probs=42.4

Q ss_pred             CCCCccccccCCCCCCcEE---cCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQM---TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~---~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..++..|+||++.+..+..   ++|||.||..||.+|+...    ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~----~~CP~Cr~~~~~   64 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR----KVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC----SBCTTTCCBCSS
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC----CcCCCcCccccc
Confidence            4567789999999876643   4999999999999999886    689999998764

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

Probab=99.22  E-value=2.5e-12  Score=98.83  Aligned_cols=56  Identities=30%  Similarity=0.747  Sum_probs=48.7

Q ss_pred             CCCCccccccCCCCCCc-------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          81 GNEDIKCPICLDLPRAP-------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p-------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      ..+++.|+||++.+.+|       +.++|||+||..||.+|+...    ..||+|+..+....+.++
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~l~~l   66 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRYHPI   66 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC----SBCTTTCCBCTTTCEEEC
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhC----CCCCCCCCcCcccccccc
Confidence            45788999999999888       889999999999999999876    699999999987766554

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

Probab=99.22  E-value=1.4e-12  Score=89.78  Aligned_cols=51  Identities=29%  Similarity=0.677  Sum_probs=44.5

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGD  136 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~  136 (243)
                      ..+...|+||++.+.+ +.++|||.||..||.+|+...    ..||+||..+...+
T Consensus        12 ~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           12 LTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRH----RNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCC----SSCHHHHHCTTCCC
T ss_pred             CCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCc----CcCCCcCCcccCCC
Confidence            4567889999999998 889999999999999998854    79999999887544

>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=99.21  E-value=2e-12  Score=101.54  Aligned_cols=51  Identities=24%  Similarity=0.598  Sum_probs=45.6

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .++++.||||++.+.+|+.++|||+||..||.+|+....   ..||+||..+..
T Consensus        28 l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~---~~CP~Cr~~~~~   78 (141)
T 3knv_A           28 LEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGP---QNCAACVHEGIY   78 (141)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSC---EECHHHHHTTCC
T ss_pred             CCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCC---CCCCCCCCcccc
Confidence            678899999999999999999999999999999997653   589999997643

>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=99.20  E-value=1.2e-11  Score=93.09  Aligned_cols=54  Identities=22%  Similarity=0.544  Sum_probs=42.4

Q ss_pred             CCCccccccCCCCCCcE------------------EcCCCccccHHHHHHHHHhCC-CCCCCCCCCCccccCC
Q psy3978          82 NEDIKCPICLDLPRAPQ------------------MTRCGHCFCWPCILHYLALSD-KSWRKCPICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~------------------~~~CgH~FC~~Ci~~~~~~~~-~~~~~CP~Cr~~~~~~  135 (243)
                      ..+..|+||++.+..+.                  .++|||.||..||..|+.... .....||+||..+...
T Consensus        23 ~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            34568999999886654                  689999999999999996532 1226999999988643

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

Probab=99.17  E-value=3.3e-12  Score=84.36  Aligned_cols=47  Identities=28%  Similarity=0.704  Sum_probs=41.1

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      .+.+.|+||++.+.+|++++|||+||..||..|   .    ..||+||..+...
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~---~----~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS---G----MQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS---S----SSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCeEEcCCCCcccHHHHccC---C----CCCCcCCcEeecC
Confidence            567889999999999999999999999999762   1    6899999988754

>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=99.15  E-value=9.2e-12  Score=106.25  Aligned_cols=64  Identities=30%  Similarity=0.536  Sum_probs=55.8

Q ss_pred             CCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCC--CCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPI--CYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~--Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ...++.||||+++|.+||+. .|||+||..||.+|+....  ...||+  |+..+...++.++..+...
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~--~~~CPvtGCr~~l~~~dL~pN~~L~~l  244 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYT--TRDCPQAACSQVVSMRDFVRDPIMELR  244 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCS--CEECSGGGCSCEECGGGEEECHHHHHH
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCC--CCCCCcccccCcCchhhCCcCHHHHHH
Confidence            57889999999999999984 9999999999999997642  268999  9999999999998887543

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

Probab=99.09  E-value=2.1e-11  Score=93.56  Aligned_cols=56  Identities=30%  Similarity=0.747  Sum_probs=48.9

Q ss_pred             CCCCccccccCCCCCCc-------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          81 GNEDIKCPICLDLPRAP-------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p-------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      ..+...|+||++.+.++       +.++|||.||..||.+|+...    ..||+||..+..+++.++
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~~~  131 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRYHPI  131 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC----SBCTTTCCBCCGGGEEEE
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC----CCCCCCCCcCChhcceee
Confidence            46778899999988776       889999999999999999987    799999999987776554

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

Probab=99.09  E-value=3.1e-11  Score=85.73  Aligned_cols=49  Identities=22%  Similarity=0.496  Sum_probs=40.2

Q ss_pred             CCccccccCCCCCC--------------cEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          83 EDIKCPICLDLPRA--------------PQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        83 ~~~~CpICl~~~~~--------------p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      ++..|+||++.+.+              ++.+ +|||.||..||.+|+..+    ..||+||+.+...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN----NRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC----CBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC----CCCCCcCCCcchh
Confidence            45679999998866              4444 699999999999999876    6999999987643

>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=99.05  E-value=1e-10  Score=79.32  Aligned_cols=49  Identities=24%  Similarity=0.641  Sum_probs=43.0

Q ss_pred             CCCCccccccCCCCCCcEEc--CCCcc-ccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          81 GNEDIKCPICLDLPRAPQMT--RCGHC-FCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~--~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ..++..|+||++.+.+++.+  +|||. ||..|+.+|+..+    ..||+||..+.
T Consensus         5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CPiCR~~i~   56 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRN----KPCPVCRQPIQ   56 (64)
T ss_dssp             CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTT----CCCTTTCCCCC
T ss_pred             CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcC----CcCCCcCcchh
Confidence            35667899999999999987  99999 8999999999765    68999999875

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

Probab=99.04  E-value=4.1e-11  Score=83.59  Aligned_cols=46  Identities=35%  Similarity=0.787  Sum_probs=40.7

Q ss_pred             CCCCccccccCCCCCCcEEcCCCcc-ccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHC-FCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..++..|+||++.+.+|+.++|||. ||..|+..|        ..||+||..+..
T Consensus        21 ~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~~   67 (74)
T 4ic3_A           21 LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV--------DKCPMCYTVITF   67 (74)
T ss_dssp             HHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC--------SBCTTTCCBCSE
T ss_pred             CccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC--------ccCCCcCcCccC
Confidence            3467889999999999999999999 999999876        489999998764

>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=99.03  E-value=1.3e-10  Score=78.10  Aligned_cols=54  Identities=19%  Similarity=0.379  Sum_probs=47.9

Q ss_pred             CccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchh
Q psy3978          84 DIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR  141 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~  141 (243)
                      .+.||||++.+.+|+++ +|||+|++.||.+|+..+    ..||+++.++...++.++.
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~----~~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT----GNDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH----SBCTTTCCBCCGGGCEECC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhC----CCCcCCcCCCChhhcEECc
Confidence            36799999999999999 999999999999999876    4699999999888877654

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

Probab=99.01  E-value=2.9e-10  Score=102.42  Aligned_cols=51  Identities=22%  Similarity=0.599  Sum_probs=44.6

Q ss_pred             CCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~  135 (243)
                      .....|+||++.+.+|+.++|||.||..|+..|+....   ..||+||..+...
T Consensus       330 ~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~---~~CP~CR~~i~~~  380 (389)
T 2y1n_A          330 STFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG---QGCPFCRCEIKGT  380 (389)
T ss_dssp             TSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTC---SBCTTTCCBCCEE
T ss_pred             CCCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCC---CCCCCCCCccCCc
Confidence            44579999999999999999999999999999998433   7899999988753

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

Probab=99.00  E-value=1.4e-10  Score=80.96  Aligned_cols=45  Identities=36%  Similarity=0.837  Sum_probs=39.4

Q ss_pred             CCCccccccCCCCCCcEEcCCCcc-ccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHC-FCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .++..|+||++.+.+|+.++|||. ||..|+...        ..||+||..+..
T Consensus        23 ~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~~   68 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV--------DKCPMCYTVITF   68 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC--------SBCTTTCCBCCC
T ss_pred             CCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC--------CCCccCCceecC
Confidence            567789999999999999999999 999999531        689999998864

>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=98.97  E-value=2.5e-10  Score=77.13  Aligned_cols=47  Identities=28%  Similarity=0.678  Sum_probs=41.3

Q ss_pred             CCccccccCCCCCCcEEc--CCCcc-ccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          83 EDIKCPICLDLPRAPQMT--RCGHC-FCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~--~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ....|+||++.+.+++++  +|||. ||..|+.+|+..+    ..||+||.++.
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG----ASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTT----CBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhC----CcCCCcCchhh
Confidence            456799999999999887  99998 9999999988765    68999999875

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

Probab=98.96  E-value=5e-10  Score=83.56  Aligned_cols=47  Identities=23%  Similarity=0.487  Sum_probs=39.8

Q ss_pred             CCccccccCCCCCCc------------------EEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          83 EDIKCPICLDLPRAP------------------QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        83 ~~~~CpICl~~~~~p------------------~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ++..|+||++.+.++                  +.++|||.||..||.+|+..+    ..||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC----SBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC----CcCcCCCCcce
Confidence            456799999988755                  347999999999999999876    79999999864

>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=98.82  E-value=6.4e-10  Score=80.91  Aligned_cols=55  Identities=27%  Similarity=0.617  Sum_probs=42.7

Q ss_pred             CCCccccccCCCCCCcEEc---CCCccccHHHHHHHHHhC--CC--CCCCCCC--CCcc--ccCCC
Q psy3978          82 NEDIKCPICLDLPRAPQMT---RCGHCFCWPCILHYLALS--DK--SWRKCPI--CYEA--VHLGD  136 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~---~CgH~FC~~Ci~~~~~~~--~~--~~~~CP~--Cr~~--~~~~~  136 (243)
                      .+.+.|+||++.+..|.++   +|||.||..|+.+|+...  .+  ....||.  |+..  +....
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~   68 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENE   68 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHH
Confidence            4678899999999888664   799999999999999853  11  1258999  9988  65443

>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=98.81  E-value=9.4e-10  Score=77.68  Aligned_cols=45  Identities=27%  Similarity=0.741  Sum_probs=39.5

Q ss_pred             CCCccccccCCCCCCcEEcCCCcc-ccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRCGHC-FCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .++..|+||++.+.+++.++|||. ||..|+..|        ..||+||..+..
T Consensus        16 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~~   61 (79)
T 2yho_A           16 KEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL--------QSCPVCRSRVEH   61 (79)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC--------SBCTTTCCBCCE
T ss_pred             CCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc--------CcCCCCCchhhC
Confidence            456789999999999999999999 999998754        489999998864

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

Probab=98.80  E-value=4.4e-09  Score=72.08  Aligned_cols=46  Identities=22%  Similarity=0.566  Sum_probs=39.9

Q ss_pred             CCCCccccccCCCCCCcEEcCCCcc-ccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHC-FCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..+...|+||++.+.+++.++|||. ||..|+..    .    ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~----~~CP~CR~~i~~   58 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----F----QQCPMCRQFVQE   58 (68)
T ss_dssp             CCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----C----SSCTTTCCCCCC
T ss_pred             CCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----C----CCCCCCCcchhc
Confidence            4567789999999999999999999 99999983    1    689999998764

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

Probab=98.71  E-value=1.3e-08  Score=71.92  Aligned_cols=52  Identities=25%  Similarity=0.531  Sum_probs=42.7

Q ss_pred             CCCCccccccCCCC--CCcEEcCCC-----ccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLP--RAPQMTRCG-----HCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~--~~p~~~~Cg-----H~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..++..|.||++.+  .++++++|.     |.|+..||.+|+..+..  ..||+|+..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~--~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDT--RCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCC--SBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCC--CCCCCCCCeeec
Confidence            34567899999876  467888996     99999999999997632  589999998865

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

Probab=98.70  E-value=2.1e-09  Score=81.52  Aligned_cols=47  Identities=23%  Similarity=0.480  Sum_probs=0.9

Q ss_pred             CCccccccCCCCCCc-----------------EE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          83 EDIKCPICLDLPRAP-----------------QM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        83 ~~~~CpICl~~~~~p-----------------~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ++..|+||++.+.++                 ++ ++|+|.||..||.+|+..+    ..||+||..+.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~----~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVCPLDNREWE  111 (117)
T ss_dssp             CC-------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC----CcCCCCCCeee
Confidence            445799999988653                 22 5899999999999999886    69999999764

>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=98.62  E-value=5.2e-09  Score=93.36  Aligned_cols=46  Identities=33%  Similarity=0.755  Sum_probs=41.0

Q ss_pred             CCCCccccccCCCCCCcEEcCCCcc-ccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHC-FCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~-FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ..++..|+||++.+.+|+.++|||. ||..|+..|        ..||+||..+..
T Consensus       292 l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~--------~~CP~CR~~i~~  338 (345)
T 3t6p_A          292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL--------RKCPICRGIIKG  338 (345)
T ss_dssp             HHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC--------SBCTTTCCBCCE
T ss_pred             CcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC--------CcCCCCCCCccC
Confidence            4577899999999999999999999 999999866        489999998753

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

Probab=98.30  E-value=5e-07  Score=65.66  Aligned_cols=45  Identities=29%  Similarity=0.665  Sum_probs=38.3

Q ss_pred             cccccCCCCCC-cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          86 KCPICLDLPRA-PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        86 ~CpICl~~~~~-p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .|++|.-++.. .+++||+|.||..|+..|.+...   ..||.|+.++.
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~---k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGD---KMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTC---CBCTTTCCBCS
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccC---CCCcCcCCeee
Confidence            58899886654 57799999999999999988765   79999999875

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

Probab=98.29  E-value=8.5e-07  Score=61.56  Aligned_cols=50  Identities=26%  Similarity=0.588  Sum_probs=39.9

Q ss_pred             CCCccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          82 NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      .....|.||.+.+..... ..|+|.|+..||.+||+.+..  ..||+|+..+.
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~--~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAE--PRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSS--CCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCC--CCCCCCcCcCC
Confidence            344579999998875544 489999999999999986532  68999998765

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

Probab=98.13  E-value=2e-06  Score=57.21  Aligned_cols=52  Identities=21%  Similarity=0.459  Sum_probs=41.1

Q ss_pred             CCCCccccccCCCCCCcEEcCCC--c---cccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCG--H---CFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .++...|.||++...++.++||.  +   .|+..||.+|+..+..  ..||+|+..+..
T Consensus         3 ~~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~--~~C~~C~~~~~~   59 (60)
T 1vyx_A            3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRN--TACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTC--SBCTTTCCBCCC
T ss_pred             CCCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCC--CccCCCCCeeec
Confidence            34667899999877777778864  4   8999999999986532  689999987753

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

Probab=97.73  E-value=7.2e-06  Score=72.41  Aligned_cols=52  Identities=21%  Similarity=0.581  Sum_probs=38.8

Q ss_pred             CCccccccCCCCCC----cEE----cCCCccccHHHHHHHHHhCCC-------CCCCCCCCCccccC
Q psy3978          83 EDIKCPICLDLPRA----PQM----TRCGHCFCWPCILHYLALSDK-------SWRKCPICYEAVHL  134 (243)
Q Consensus        83 ~~~~CpICl~~~~~----p~~----~~CgH~FC~~Ci~~~~~~~~~-------~~~~CP~Cr~~~~~  134 (243)
                      ....|+||++.+.+    |..    ..|||.|+..||.+|+.....       ....||.|+.++..
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            45679999997765    322    379999999999999986321       11379999998763

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

Probab=97.45  E-value=8.2e-05  Score=54.12  Aligned_cols=87  Identities=9%  Similarity=0.175  Sum_probs=53.6

Q ss_pred             CCccccccCCC-CCCcEE--cCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc--CCCCcchhHHHHhhhccCc-ccee
Q psy3978          83 EDIKCPICLDL-PRAPQM--TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH--LGDLKSFRSVIKRARAVNE-EVTF  156 (243)
Q Consensus        83 ~~~~CpICl~~-~~~p~~--~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~--~~~l~~~~~~~~~~~~~~~-~~~l  156 (243)
                      +++.|+||.+. +..|+.  +.|+|+||..|+..+......  .  .  +..+.  ..+..    . ....-..+ ...+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~~~~~--~--~--~h~l~~~~~~~~----~-~~~~C~~H~~e~l   70 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHPNKKP--F--T--GHRLIEPIPDSH----I-RGLMCLEHEDEKV   70 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSCSCSS--S--T--TCCBSSCCCSCC----S-SCCCCSSCSSSCC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhccCCc--c--C--CCeeeccccccC----c-cCCcCcCcCCCcc
Confidence            56889999974 778887  899999999999974332110  0  0  01110  01000    0 01112334 3568


Q ss_pred             eeeeecCCCeeEeeccCCCCCCCC
Q psy3978         157 QLMKRERGSTVVSPVAQWDFHPTD  180 (243)
Q Consensus       157 ~l~~r~~~~~~~~~~s~~~~~~~~  180 (243)
                      .+++.+.+..++..+.....|..+
T Consensus        71 ~~fC~~~~~~iC~~C~~~~~H~~H   94 (101)
T 2jun_A           71 NMYCVTDDQLICALCKLVGRHRDH   94 (101)
T ss_dssp             CEEETTTTEEECHHHHHHTTTSSS
T ss_pred             eEECCCCCCccchhcCCCCCcCCC
Confidence            889999999999888876666543

>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=96.66  E-value=0.002  Score=63.93  Aligned_cols=64  Identities=13%  Similarity=0.134  Sum_probs=56.8

Q ss_pred             ccCCCCccccccCCCCCCcEEcCCC-ccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          79 GFGNEDIKCPICLDLPRAPQMTRCG-HCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        79 ~~~~~~~~CpICl~~~~~p~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ...++++.|||-++++.+||+++-| ++|-+.+|.+|+..+    .+||+-+.++...++.||..+...
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~----~tdP~Tr~~L~~~~liPN~~Lk~~  950 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSD----STDPFNRMPLKLEDVTPNEELRQK  950 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC----CBCTTTCCBCCGGGCEECHHHHHH
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcC----CCCCCCCCCCCcccccccHHHHHH
Confidence            3468899999999999999999998 699999999999864    689999999999999999887643

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

Probab=96.30  E-value=0.0037  Score=52.67  Aligned_cols=50  Identities=26%  Similarity=0.521  Sum_probs=39.8

Q ss_pred             CCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          83 EDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ....|.||.+.......- .|+|.|+..|+..|++...  ...||.|+.....
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~--~~~CP~C~~~W~~  229 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA--EPRCPHCNDYWPH  229 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCS--SCBCTTTCCBCCS
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCC--CCCCCCCCCCCCC
Confidence            467899999987766553 4999999999999997642  2689999987643

>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=92.91  E-value=0.065  Score=37.04  Aligned_cols=37  Identities=24%  Similarity=0.716  Sum_probs=31.0

Q ss_pred             CCCccccccCCCCCCcEEcCC----CccccHHHHHHHHHhC
Q psy3978          82 NEDIKCPICLDLPRAPQMTRC----GHCFCWPCILHYLALS  118 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p~~~~C----gH~FC~~Ci~~~~~~~  118 (243)
                      ...+.|.+|.+.+.+.-...|    +|.||..|-..+++.+
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q   53 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   53 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhc
Confidence            466789999999998766655    6999999999998865

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

Probab=91.66  E-value=0.38  Score=42.80  Aligned_cols=61  Identities=25%  Similarity=0.473  Sum_probs=44.6

Q ss_pred             CccccccCCCCCCcEE-cCCCccccHH--HHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          84 DIKCPICLDLPRAPQM-TRCGHCFCWP--CILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~-~~CgH~FC~~--Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      .+.|||-...+..|+. ..|.|.-|.+  -+.......  +...||+|.+.+...+|.....+...
T Consensus       249 SL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~--~~W~CPIC~k~~~~~dL~ID~~~~~I  312 (371)
T 3i2d_A          249 SLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQI--PTWQCPVCQIDIALENLAISEFVDDI  312 (371)
T ss_dssp             ESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHS--CCCBCTTTCCBCCGGGEEEBHHHHHH
T ss_pred             eecCCCccccccccCcCCcCCCcceECHHHHHHHhhcC--CceeCCCCCcccCHHHeeEcHHHHHH
Confidence            4889999999999987 6899995554  344443333  33899999999988888766555444

>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=91.19  E-value=0.4  Score=42.50  Aligned_cols=61  Identities=18%  Similarity=0.316  Sum_probs=44.1

Q ss_pred             CccccccCCCCCCcEE-cCCCccccH--HHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          84 DIKCPICLDLPRAPQM-TRCGHCFCW--PCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~-~~CgH~FC~--~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      .+.|||-...+..|+. ..|.|.-|.  .-+.......  +...||+|.+.+...+|.....+...
T Consensus       215 SL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~--~~W~CPiC~k~~~~~dL~ID~~~~~I  278 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKK--PTWICPVCDKKAAYESLILDGLFMEI  278 (360)
T ss_dssp             ESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHS--CCCBCTTTCSBCCGGGEEEBHHHHHH
T ss_pred             eeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhC--CCeECCCCCcccCHHHeEEcHHHHHH
Confidence            4789999999999987 689999554  4444433333  34799999999988887765555444

---

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	243
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	7e-13
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	7e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	5e-10
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-08
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-08
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	6e-08
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-07
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	8e-07
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	1e-05
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	3e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-04
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	7e-04
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	8e-04
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.002
d1zbdb_	124	g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat	0.004
d1wgma_	98	g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Hu	0.004

>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 = 60.9 bits (147), Expect = 7e-13
 Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 69  VKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           ++ E +Q +     + ++CPICL+L + P  T+C H FC  C+L  L        +CP+C
Sbjct: 6   LRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPS-QCPLC 64

Query: 129 YEAVHLGDLK 138
              +    L+
Sbjct: 65  KNDITKRSLQ 74

>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 = 57.6 bits (139), Expect = 7e-12
 Identities = 20/57 (35%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS 139
           + I C IC  +   P  T C H FC  CIL  L         CP C       DL+S
Sbjct: 22  KSISCQICEHILADPVETSCKHLFCRICILRCL---KVMGSYCPSCRYPCFPTDLES 75

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.8 bits (129), Expect = 2e-10
 Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 5/71 (7%)

Query: 65  PDQLVKW--EYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSW 122
           P   +K   E  +     G+    C IC +  +  ++  CGH  C  C+  +    +   
Sbjct: 2   PQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQ---ESEG 58

Query: 123 RKCPICYEAVH 133
           + CP C   + 
Sbjct: 59  QGCPFCRCEIK 69

>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 = 51.8 bits (124), Expect = 5e-10
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 7/53 (13%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG 135
           + ++C  C    + P++  C H  C  C+       + S  +CPIC     LG
Sbjct: 5   QFLRCQQCQAEAKCPKLLPCLHTLCSGCL-------EASGMQCPICQAPWPLG 50

>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 = 48.2 bits (114), Expect = 3e-08
 Identities = 21/96 (21%), Positives = 37/96 (38%), Gaps = 10/96 (10%)

Query: 64  DPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSW 122
           +PD    W + +       + ++C  C ++ R P     C H FC  C+   +       
Sbjct: 2   EPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------ 55

Query: 123 RKCPICYEAVHLGDLK---SFRSVIKRARAVNEEVT 155
             CP+CY    + DLK      S+I+    +   + 
Sbjct: 56  TGCPVCYTPAWIQDLKINRQLDSMIQLCSKLRNLLH 91

>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 = 46.9 bits (111), Expect = 4e-08
 Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 5/44 (11%)

Query: 86  KCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +CPICL+ P    M   C H FC+ CI  ++    +    CP+C
Sbjct: 7   RCPICLEDPSNYSMALPCLHAFCYVCITRWI----RQNPTCPLC 46

>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 = 46.6 bits (110), Expect = 6e-08
 Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 3/56 (5%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
           E  +CPI L+L + P +   G  +    I  +L   D   + CP   E +    L 
Sbjct: 7   EYFRCPISLELMKDPVIVSTGQTYERSSIQKWL---DAGHKTCPKSQETLLHAGLT 59

>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 = 44.1 bits (104), Expect = 3e-07
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 8/50 (16%)

Query: 83  EDIKCPICLDLPRAPQMTR----CGHCFCWPCILHYLALSDKSWRKCPIC 128
           + ++C +CL      +  R    CGH F   C+  +L     S   CP+C
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWL----GSHSTCPLC 49

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 8e-07
 Identities = 12/62 (19%), Positives = 19/62 (30%), Gaps = 8/62 (12%)

Query: 83  EDIKCPICLDLPRAPQMTR-----CGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
           +D  CP C          +     CGH  C  C+        +    CP C   +   + 
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF---VRGAGNCPECGTPLRKSNF 58

Query: 138 KS 139
           + 
Sbjct: 59  RV 60

>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 = 40.2 bits (93), Expect = 1e-05
 Identities = 11/64 (17%), Positives = 19/64 (29%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS 142
           + +   I  +L R P +T  G  +    I  +L                  L    + + 
Sbjct: 6   DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKE 65

Query: 143 VIKR 146
           VI  
Sbjct: 66  VIDA 69

>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 = 38.6 bits (89), Expect = 3e-05
 Identities = 10/52 (19%), Positives = 17/52 (32%), Gaps = 5/52 (9%)

Query: 87  CPICLDLPR-APQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
           C I   +PR      +    F    +  Y     K     PI  E + + ++
Sbjct: 3   CAISGKVPRRPVLSPKSRTIFEKSLLEQY----VKDTGNDPITNEPLSIEEI 50

>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 = 37.8 bits (87), Expect = 1e-04
 Identities = 15/54 (27%), Positives = 19/54 (35%), Gaps = 7/54 (12%)

Query: 82  NEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWR----KCPIC 128
           +    C +CL      QMT    C   FC  C+  Y+ L  K        CP  
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.2 bits (82), Expect = 7e-04
 Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 22/85 (25%)

Query: 63  GDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQ------------------MTRCGH 104
           G+P+Q+++ +Y ++++    ED  C IC++                        +T+C H
Sbjct: 7   GEPEQVIR-KYTEELKVAPEED--CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63

Query: 105 CFCWPCILHYLALSDKSWR-KCPIC 128
            F   C+L      +K    +CP C
Sbjct: 64  AFHLLCLLAMYCNGNKDGSLQCPSC 88

>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 = 34.3 bits (78), Expect = 8e-04
 Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 7/48 (14%)

Query: 85  IKCPICLDL----PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           ++CP+C++             CG+  C  C        +     CP C
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENG---LCPAC 45

>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 = 33.3 bits (75), Expect = 0.002
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 7/51 (13%)

Query: 83  EDIKCPICLD-----LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
           +   C IC +       RA   T         C+  +L +S      C IC
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR--NTACQIC 53

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Effector domain of rabphilin-3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 33.9 bits (77), Expect = 0.004
 Identities = 10/59 (16%), Positives = 17/59 (28%), Gaps = 5/59 (8%)

Query: 81  GNEDIKCPIC-----LDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL 134
           G+   +C +C     +    +     C    C  C +            C IC E   +
Sbjct: 45  GDGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICLEQREV 103

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]} Length = 98

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]

 Score = 33.6 bits (76), Expect = 0.004
 Identities = 10/71 (14%), Positives = 21/71 (29%)

Query: 83  EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS 142
           ++   PI   L   P +            +    LSD++            +      + 
Sbjct: 21  DEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKE 80

Query: 143 VIKRARAVNEE 153
            I+R  A  ++
Sbjct: 81  KIQRWLAERKQ 91

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	243
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.57
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.56
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.56
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.55
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.51
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.48
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.39
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.36
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.36
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.29
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.28
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.27
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.07
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	98.96
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.91
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.39
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	93.99
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	82.86

>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=99.57  E-value=8.6e-16  Score=107.63  Aligned_cols=63  Identities=16%  Similarity=0.098  Sum_probs=56.5

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+|++++|||+||..||.+|+....   ..||.|+..+...++.++..+...
T Consensus         4 iP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~---~~cP~c~~~l~~~~l~pN~~L~~~   66 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG---HFNPVTRSPLTQEQLIPNLAMKEV   66 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC---SSCTTTCCCCCGGGCEECHHHHHH
T ss_pred             CCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCC---ccCCCccccccccccccHHHHHHH
Confidence            568999999999999999999999999999999998754   689999999998888888877544

>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=99.56  E-value=1.3e-15  Score=106.23  Aligned_cols=63  Identities=22%  Similarity=0.404  Sum_probs=56.1

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+|++++|||+||..||.+|+..+.   ..||.|+..+...++.+|..+...
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~---~~cP~~~~~l~~~~l~pN~~L~~~   67 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGH---KTCPKSQETLLHAGLTPNYVLKSL   67 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTC---CBCTTTCCBCSSCCCEECTTTHHH
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCC---CCCCcccccCCcccccchHHHHHH
Confidence            568899999999999999999999999999999998654   689999999999888888776543

>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=99.56  E-value=3.8e-16  Score=114.67  Aligned_cols=62  Identities=31%  Similarity=0.714  Sum_probs=52.8

Q ss_pred             CCCCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHH
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSV  143 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~  143 (243)
                      ..+.+.||||++++.+|++++|||+||..||.+|+..... ...||+||..+..+++.++..+
T Consensus        18 l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~-~~~CP~Cr~~~~~~~l~~n~~l   79 (103)
T d1jm7a_          18 MQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKG-PSQCPLCKNDITKRSLQESTRF   79 (103)
T ss_dssp             HHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSS-SCCCTTTSCCCCTTTCBCCCSS
T ss_pred             cccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCC-CCcCcCCCCcCChhhCCcCHHH
Confidence            4677899999999999999999999999999999986542 2689999999988877766543

>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=99.55  E-value=9.5e-16  Score=108.66  Aligned_cols=53  Identities=36%  Similarity=0.741  Sum_probs=47.3

Q ss_pred             CCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCc
Q psy3978          83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK  138 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~  138 (243)
                      +++.||||++.+.+|++++|||+||+.||.+|++.+.   ..||.||.++...++.
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~---~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMG---SYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC---SBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCC---CcCcccCCCCChhhcc
Confidence            4578999999999999999999999999999998654   6899999999877665

>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=99.51  E-value=8.9e-16  Score=111.41  Aligned_cols=78  Identities=26%  Similarity=0.576  Sum_probs=64.5

Q ss_pred             CCCcccCChhhHhhhhccCCCCccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchh
Q psy3978          63 GDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR  141 (243)
Q Consensus        63 ~~~~~~~~~~~~~~v~~~~~~~~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~  141 (243)
                      ++|+....|....++.....+.+.||||++++.+|+++ +|||+||..||.+|+.      ..||.||..+...++.++.
T Consensus         1 ~~p~~~~~~~~~~~~l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~------~~CP~Cr~~~~~~~l~~n~   74 (97)
T d1jm7b_           1 MEPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQDLKINR   74 (97)
T ss_dssp             CCSSTTCCCHHHHHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT------TBCSSSCCBCSCSSCCCCH
T ss_pred             CCCCcccccHhHHHHHHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh------ccccccCCcCchhhCcccH
Confidence            35667777888766655567889999999999999975 8999999999999973      4699999999988888887


Q ss_pred             HHHHh
Q psy3978         142 SVIKR  146 (243)
Q Consensus       142 ~~~~~  146 (243)
                      .+...
T Consensus        75 ~l~~l   79 (97)
T d1jm7b_          75 QLDSM   79 (97)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>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=99.48  E-value=7e-15  Score=95.94  Aligned_cols=52  Identities=19%  Similarity=0.404  Sum_probs=46.4

Q ss_pred             ccccccCCCCCCcEEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcch
Q psy3978          85 IKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF  140 (243)
Q Consensus        85 ~~CpICl~~~~~p~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~  140 (243)
                      +.||||++.+.+|+++ .|||+||..||.+|+..+    ..||+||.++...++.++
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~----~~CP~c~~~l~~~dLipi   53 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT----GNDPITNEPLSIEEIVEI   53 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH----SBCTTTCCBCCGGGCEEC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhc----cCCCccCCcCCHHhceeC
Confidence            4699999999999987 699999999999999987    689999999988777554

>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=99.47  E-value=5.5e-14  Score=98.02  Aligned_cols=51  Identities=22%  Similarity=0.611  Sum_probs=44.4

Q ss_pred             CCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCC
Q psy3978          83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGD  136 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~  136 (243)
                      +...|+||++.+.+|++++|||.||..||.+|+..+.   ..||+||..+...+
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~---~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG---QGCPFCRCEIKGTE   72 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTC---CSCTTTCCCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCc---CcCCCCCcCccCCc
Confidence            4457999999999999999999999999999998653   68999999987543

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=6.2e-14  Score=94.12  Aligned_cols=54  Identities=22%  Similarity=0.591  Sum_probs=42.9

Q ss_pred             CCccccccCCCCC-----CcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcc
Q psy3978          83 EDIKCPICLDLPR-----APQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS  139 (243)
Q Consensus        83 ~~~~CpICl~~~~-----~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~  139 (243)
                      ++..||||++.+.     ..++++|||.||..||.+|+....   ..||+||+.+...+++.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~---~~CP~CR~~i~~~~~~~   60 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA---GNCPECGTPLRKSNFRV   60 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS---SSCTTTCCCCSSCCCEE
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCc---CCCCCCCcCcccccccc
Confidence            5678999998532     125679999999999999997653   57999999998776543

>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=99.36  E-value=2.7e-13  Score=98.23  Aligned_cols=62  Identities=11%  Similarity=0.132  Sum_probs=55.2

Q ss_pred             CCCCccccccCCCCCCcEEcCCC-ccccHHHHHHHHHhCCCCCCCCCCCCccccCCCCcchhHHHHh
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRCG-HCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRSVIKR  146 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~~  146 (243)
                      ..+++.||||+++|.+||+++|| |+||+.||.+|+..+    ..||+|+.++...++.++..+...
T Consensus        19 ~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~----~~~P~~~~~l~~~~L~pN~~Lr~~   81 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD----QTDPFNRSPLTMDQIRPNTELKEK   81 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS----CBCTTTCSBCCTTTSEECHHHHHH
T ss_pred             CcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhc----CCcccccccccchhhcchHHHHHH
Confidence            46789999999999999999876 589999999999765    689999999999999999888654

>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=99.36  E-value=2.6e-13  Score=91.82  Aligned_cols=46  Identities=37%  Similarity=0.947  Sum_probs=40.1

Q ss_pred             CccccccCCCCCCcEE-cCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          84 DIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        84 ~~~CpICl~~~~~p~~-~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ...||||++.+.++++ ++|||+||..||.+|+..+    ..||+||..+.
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~----~~CP~CR~~i~   51 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN----PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS----CSTTTTCCCCC
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhC----CcCCCCCcchH
Confidence            3469999999987755 7999999999999999986    68999998764

>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=99.29  E-value=1.2e-13  Score=89.79  Aligned_cols=47  Identities=28%  Similarity=0.693  Sum_probs=40.5

Q ss_pred             CCccccccCCCCCCcEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccCCC
Q psy3978          83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGD  136 (243)
Q Consensus        83 ~~~~CpICl~~~~~p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~~~  136 (243)
                      +.+.|+||++.+.+|++++|||+||..||.+|       ...||+||..+....
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~-------~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS-------GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS-------SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC-------CCcCcCCCCcccCCC
Confidence            45789999999999999999999999998643       168999999987654

>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=99.28  E-value=6.1e-13  Score=86.16  Aligned_cols=48  Identities=29%  Similarity=0.749  Sum_probs=39.9

Q ss_pred             CCCCccccccCCCCCCc---EEc-CCCccccHHHHHHHHHhCCCCCCCCCCCCccc
Q psy3978          81 GNEDIKCPICLDLPRAP---QMT-RCGHCFCWPCILHYLALSDKSWRKCPICYEAV  132 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p---~~~-~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~  132 (243)
                      .+++..|+||++.+...   +.+ .|||.||..||.+|+..+    ..||+||..+
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~----~~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH----STCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC----CSCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC----CcCCCCCCEe
Confidence            35677899999988653   344 699999999999999876    6899999876

>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=99.27  E-value=6.5e-13  Score=85.04  Aligned_cols=47  Identities=21%  Similarity=0.534  Sum_probs=38.6

Q ss_pred             ccccccCCCCCC----cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          85 IKCPICLDLPRA----PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        85 ~~CpICl~~~~~----p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      ++||||++.+..    ++.++|||.||..||.+|+....   ..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~---~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDEN---GLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSC---CBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcC---CCCCccCCcCCC
Confidence            479999997753    34468999999999999998654   689999998764

>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=99.07  E-value=5.4e-11  Score=87.97  Aligned_cols=54  Identities=24%  Similarity=0.568  Sum_probs=41.2

Q ss_pred             CCCccccccCCCCCCc------------------EEcCCCccccHHHHHHHHHhCCC-CCCCCCCCCccccCC
Q psy3978          82 NEDIKCPICLDLPRAP------------------QMTRCGHCFCWPCILHYLALSDK-SWRKCPICYEAVHLG  135 (243)
Q Consensus        82 ~~~~~CpICl~~~~~p------------------~~~~CgH~FC~~Ci~~~~~~~~~-~~~~CP~Cr~~~~~~  135 (243)
                      ..+..|+||++.+..+                  ..++|||.||..||..|+..... ....||+||+.+..+
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            3456799999876432                  45799999999999999986531 225899999987554

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=2.4e-10  Score=80.71  Aligned_cols=45  Identities=24%  Similarity=0.547  Sum_probs=36.7

Q ss_pred             ccccccCCCCCC------------------cEEcCCCccccHHHHHHHHHhCCCCCCCCCCCCcccc
Q psy3978          85 IKCPICLDLPRA------------------PQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH  133 (243)
Q Consensus        85 ~~CpICl~~~~~------------------p~~~~CgH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~  133 (243)
                      ..|+||++.+.+                  ++.++|||.||..||.+|+..+    .+||+||+.+.
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR~~~~   84 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVCPLDNREWE   84 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC----SBCSSSCSBCC
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC----CcCCCCCCccc
Confidence            348999876543                  2447899999999999999986    68999999875

>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=98.91  E-value=3.7e-10  Score=73.94  Aligned_cols=52  Identities=19%  Similarity=0.400  Sum_probs=42.3

Q ss_pred             CCCCccccccCCCCCCcEEcCC-----CccccHHHHHHHHHhCCCCCCCCCCCCccccC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRC-----GHCFCWPCILHYLALSDKSWRKCPICYEAVHL  134 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~C-----gH~FC~~Ci~~~~~~~~~~~~~CP~Cr~~~~~  134 (243)
                      .++...|+||++.+.++.+.+|     +|.||..||.+|+..+.+  ..||+||+.+..
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~--~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRN--TACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTC--SBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCC--CCCcccCCeeec
Confidence            4677889999998887776654     599999999999976532  689999998764

>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=98.39  E-value=8.4e-08  Score=67.81  Aligned_cols=48  Identities=23%  Similarity=0.509  Sum_probs=35.1

Q ss_pred             CCccccccCCCCCC---cEEcCCCccccHHHHHHHHHhC----CCCCCCCCCCCc
Q psy3978          83 EDIKCPICLDLPRA---PQMTRCGHCFCWPCILHYLALS----DKSWRKCPICYE  130 (243)
Q Consensus        83 ~~~~CpICl~~~~~---p~~~~CgH~FC~~Ci~~~~~~~----~~~~~~CP~Cr~  130 (243)
                      ....|+||++.+..   +..++|||.||..|+..|+...    ......||.|.-
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            45679999997743   4456899999999999999753    111246998643

>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=93.99  E-value=0.023  Score=36.63  Aligned_cols=38  Identities=24%  Similarity=0.701  Sum_probs=31.3

Q ss_pred             CCCCccccccCCCCCCcEEcCC----CccccHHHHHHHHHhC
Q psy3978          81 GNEDIKCPICLDLPRAPQMTRC----GHCFCWPCILHYLALS  118 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~C----gH~FC~~Ci~~~~~~~  118 (243)
                      ....+.|.+|.+.+.+.-...|    +|.||..|-..+++.+
T Consensus         5 ~~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q   46 (80)
T d2cs3a1           5 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   46 (80)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CCCceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhc
Confidence            3456889999999998766655    6999999999998865

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.86  E-value=0.45  Score=31.30  Aligned_cols=49  Identities=20%  Similarity=0.407  Sum_probs=34.1

Q ss_pred             CCCCccccccCCCCCCcEEcC---CCccccHHHHHHHH-HhCC-----------CCCCCCCCCCc
Q psy3978          81 GNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYL-ALSD-----------KSWRKCPICYE  130 (243)
Q Consensus        81 ~~~~~~CpICl~~~~~p~~~~---CgH~FC~~Ci~~~~-~~~~-----------~~~~~CP~Cr~  130 (243)
                      ...+..|+|| +.+..-..++   |+.+|+..|+.+.= .+..           ..+..|+.|..
T Consensus        12 v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~n   75 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDN   75 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCC
T ss_pred             CCcCcccccc-CcccccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhcc
Confidence            4567789999 6676666665   78999999998762 1111           12368999854