Psyllid ID: psy18179

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------11
Protein Sequence
MDNEDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWENCRY
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccHHccccccccccccHHHHHHHHHHHccccccccccccHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHcccHHHHHHcccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
mdnedcnsnntltpdsVLCLVCQgilikpiklpcnhhvCLECLQRicdnsnlscpmcRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVdqklfdqddgvwencry
Flexible Loop (DISEMBL)
mdnedcnsnntltpdsVLCLVCQGILIKPIKLPCNHHVCLECLQRIcdnsnlscpMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKevdqklfdqddgvwencry
Low Complexity Region (SEG)
MDNEDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWENCRY
Disordered region (IsUnstruct)
**************DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWE****
Disordered Region (DISOPRED)
****************VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY**********************
Disordered Region (DISEMBL)
*********NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWENCRY
Disordered Region (DISPRO)
*********NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLF************
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDNEDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWENCRY
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	108	2.2.26 [Sep-21-2011]
Q6INS5	557	E3 ubiquitin-protein liga	N/A	N/A	0.759	0.147	0.402	1e-14
B0BLU1	535	E3 ubiquitin-protein liga	yes	N/A	0.759	0.153	0.390	2e-14
B2RYR0	564	E3 ubiquitin-protein liga	yes	N/A	0.75	0.143	0.407	4e-14
Q80XJ2	565	E3 ubiquitin-protein liga	yes	N/A	0.75	0.143	0.407	6e-14
Q7T308	474	E3 ubiquitin-protein liga	yes	N/A	0.861	0.196	0.354	1e-13
Q8IYW5	571	E3 ubiquitin-protein liga	yes	N/A	0.666	0.126	0.416	5e-13
Q0IIM1	573	E3 ubiquitin-protein liga	yes	N/A	0.666	0.125	0.416	2e-12
E7FAP1	630	E3 ubiquitin-protein liga	no	N/A	0.824	0.141	0.344	3e-11
Q1L5Z9	754	LON peptidase N-terminal	no	N/A	0.703	0.100	0.309	9e-07
Q9CWS1	417	E3 ubiquitin-protein liga	no	N/A	0.444	0.115	0.4	1e-06

>sp|Q6INS5|RN168_XENLA E3 ubiquitin-protein ligase RNF168 OS=Xenopus laevis GN=rnf168 PE=2 SV=1

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 50/82 (60%)

Query: 18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDE 77
          +C +CQ IL++P+ LPC H +C  C Q   + ++L CP CRKR+S W R +     L++ 
Sbjct: 15 ICPICQEILLEPVTLPCKHTLCNPCFQMTVEKASLCCPFCRKRVSTWARLHSRTRTLVNT 74

Query: 78 NLWNQIQKYYKKEVDQKLFDQD 99
           LW +IQK Y KE  ++   Q+
Sbjct: 75 ELWERIQKQYPKECQRRASGQE 96

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with ube2n/ubc13 to amplify the rnf8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the rnf8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of tp53bp1 and brca1.
Xenopus laevis (taxid: 8355)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|B0BLU1|RN168_XENTR E3 ubiquitin-protein ligase RNF168 OS=Xenopus tropicalis GN=rnf168 PE=2 SV=1

 Score = 77.4 bits (189), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 32/82 (39%), Positives = 51/82 (62%)

Query: 18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDE 77
          +C +CQ IL++P+ LPC H +C  C Q   + ++L CP CRKR+S W R++     L+++
Sbjct: 15 ICPICQEILLEPVTLPCKHTLCNPCFQMTVEKASLCCPFCRKRVSTWARQHSRTRTLVNK 74

Query: 78 NLWNQIQKYYKKEVDQKLFDQD 99
           LW  IQK Y K+  ++   Q+
Sbjct: 75 ELWEVIQKQYPKQCQRRASGQE 96

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with ube2n/ubc13 to amplify the rnf8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the rnf8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of tp53bp1 and brca1.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|B2RYR0|RN168_RAT E3 ubiquitin-protein ligase RNF168 OS=Rattus norvegicus GN=Rnf168 PE=2 SV=1

 Score = 77.0 bits (188), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 51/81 (62%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
          C +C  IL++P+ LPCNH +C  C Q   + +NL CP CR+R+S W R +   + L++ +
Sbjct: 16 CGICMEILVEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLVNTD 75

Query: 79 LWNQIQKYYKKEVDQKLFDQD 99
          LW  IQK+Y KE   ++  Q+
Sbjct: 76 LWEIIQKHYAKECKLRISGQE 96

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with UBE2N/UBC13 to amplify the RNF8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the RNF8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of TP53BP1 and BRCA1.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q80XJ2|RN168_MOUSE E3 ubiquitin-protein ligase RNF168 OS=Mus musculus GN=Rnf168 PE=2 SV=3

 Score = 75.9 bits (185), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 51/81 (62%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
          C +C  IL++P+ LPCNH +C  C Q   + +NL CP CR+R+S W R +   + L++ +
Sbjct: 16 CGICMEILLEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLVNTD 75

Query: 79 LWNQIQKYYKKEVDQKLFDQD 99
          LW  IQK+Y KE   ++  Q+
Sbjct: 76 LWEIIQKHYAKECKLRISGQE 96

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with UBE2N/UBC13 to amplify the RNF8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the RNF8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of TP53BP1 and BRCA1.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7T308|RN168_DANRE E3 ubiquitin-protein ligase RNF168 OS=Danio rerio GN=rnf168 PE=2 SV=1

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 33/93 (35%), Positives = 50/93 (53%)

Query: 8   SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRR 67
           S+  L     +C VC  I ++P+ LPC H  C  C     D SN+ CP+CRKR+S W R 
Sbjct: 15  SSGGLKRSDCVCPVCLEIFLEPVTLPCMHTFCKPCFLETVDKSNMCCPLCRKRVSTWARL 74

Query: 68  NKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDD 100
           N     L++  LW +IQ  +  + ++++   DD
Sbjct: 75  NSRNKTLVNMELWRRIQDAFPSQCERRVQGIDD 107

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with ube2n/ubc13 to amplify the rnf8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the rnf8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of tp53bp1 and brca1.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8IYW5|RN168_HUMAN E3 ubiquitin-protein ligase RNF168 OS=Homo sapiens GN=RNF168 PE=1 SV=1

 Score = 72.8 bits (177), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 30/72 (41%), Positives = 46/72 (63%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
          C +C  IL++P+ LPCNH +C  C Q   + ++L CP CR+R+S W R +   + L++  
Sbjct: 16 CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVE 75

Query: 79 LWNQIQKYYKKE 90
          LW  IQK+Y +E
Sbjct: 76 LWTIIQKHYPRE 87

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with UBE2N/UBC13 to amplify the RNF8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the RNF8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of TP53BP1 and BRCA1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q0IIM1|RN168_BOVIN E3 ubiquitin-protein ligase RNF168 OS=Bos taurus GN=RNF168 PE=2 SV=2

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 30/72 (41%), Positives = 44/72 (61%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
          C +C  IL +P+ LPCNH +C  C +   + ++L CP CR+R+S W R     + L++  
Sbjct: 16 CQICVEILFEPVTLPCNHTLCKPCFESTVEKASLCCPFCRRRVSSWARYRSRTNSLVNME 75

Query: 79 LWNQIQKYYKKE 90
          LW  IQK+Y KE
Sbjct: 76 LWEIIQKHYPKE 87

E3 ubiquitin-protein ligase required for accumulation of repair proteins to sites of DNA damage. Acts with UBE2N/UBC13 to amplify the RNF8-dependent histone ubiquitination. Recruited to sites of DNA damage at double-strand breaks (DSBs) by binding to ubiquitinated histone H2A and ubiquitinates histone H2A and H2AX, leading to amplify the RNF8-dependent H2A ubiquitination and promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrate ubiquitinated histones H2A and H2AX at DNA lesions to the threshold required for recruitment of TP53BP1 and BRCA1.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|E7FAP1|RN169_DANRE E3 ubiquitin-protein ligase RNF169 OS=Danio rerio GN=rnf169 PE=3 SV=1

 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 31/90 (34%), Positives = 51/90 (56%), Gaps = 1/90 (1%)

Query: 12  LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDF 71
           L+ +   C VC  IL++P+ +PC H VCL C QR     +L CP+CR R+S W R+    
Sbjct: 29  LSLEEARCPVCSEILLEPVTMPCGHSVCLHCFQRTVKLISLCCPLCRLRVSSWARKQSRE 88

Query: 72  SLLIDENLWNQIQKYYKKEVDQKLFDQDDG 101
             L++  LW  ++  + +   +++ +Q DG
Sbjct: 89  KSLVNAELWELVRLSHPERCKRRM-EQRDG 117

Probable E3 ubiquitin-protein ligase that acts as a negative regulator of double-strand breaks (DSBs) repair following DNA damage.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q1L5Z9|LONF2_HUMAN LON peptidase N-terminal domain and RING finger protein 2 OS=Homo sapiens GN=LONRF2 PE=2 SV=3

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 26/84 (30%), Positives = 51/84 (60%), Gaps = 8/84 (9%)

Query: 19  CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWL-RRNKDFSLLIDE 77
           C +C  +L +P+  PC H  CL+CL+R  D++   CP+C+ +LS  L  RN + ++L +E
Sbjct: 449 CALCMRLLFEPVTTPCGHTFCLKCLERCLDHAP-HCPLCKDKLSELLASRNFNITVLAEE 507

Query: 78  NLWNQIQKYYKKEVD--QKLFDQD 99
            ++    +Y   E+   ++++D++
Sbjct: 508 LIF----RYLPDELSDRKRIYDEE 527

Homo sapiens (taxid: 9606)

>sp|Q9CWS1|RN135_MOUSE E3 ubiquitin-protein ligase RNF135 OS=Mus musculus GN=Rnf135 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 7/55 (12%)

Query: 12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRI-------CDNSNLSCPMCRK 59
          L+ D + C++CQG+L +P  LPC H  CL CL  +        D    +CP+CRK
Sbjct: 14 LSEDDLSCIICQGLLDQPTTLPCGHSFCLRCLHDLWVSKRGAVDGCPWACPICRK 68

Acts as an E2-dependent E3 ubiquitin-protein ligase, involved in innate immune defense against viruses. Ubiquitinates DDX58 and is required for full activation of the DDX58 signaling resulting in interferon beta production.

Mus musculus (taxid: 10090)

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	108
326430762	465	hypothetical protein PTSG_01034 [Salping	0.75	0.174	0.433	2e-16
328724837	394	PREDICTED: hypothetical protein LOC10016	0.861	0.236	0.404	8e-16
157117835	730	hypothetical protein AaeL_AAEL001357 [Ae	0.759	0.112	0.414	9e-16
326925712	574	PREDICTED: e3 ubiquitin-protein ligase R	0.851	0.160	0.423	1e-14
307207595	926	RING finger protein 168 [Harpegnathos sa	0.722	0.084	0.435	1e-14
118094925	605	PREDICTED: E3 ubiquitin-protein ligase R	0.851	0.152	0.413	2e-14
405958055	868	hypothetical protein CGI_10012050 [Crass	0.870	0.108	0.340	2e-14
332021529	846	E3 ubiquitin-protein ligase [Acromyrmex	0.703	0.089	0.434	3e-14
410926879	218	PREDICTED: E3 ubiquitin-protein ligase R	0.972	0.481	0.380	4e-14
307190469	882	RING finger protein 168 [Camponotus flor	0.722	0.088	0.435	4e-14

>gi|326430762|gb|EGD76332.1| hypothetical protein PTSG_01034 [Salpingoeca sp. ATCC 50818]

 Score = 89.4 bits (220), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 36/83 (43%), Positives = 53/83 (63%), Gaps = 2/83 (2%)

Query: 18  LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDE 77
           +C +C G+LI P+ LPC H VC EC +RI + SN+ CPMCR+RL +W R+ K    ++D+
Sbjct: 52  VCFLCMGLLIPPVVLPCTHRVCEECFRRIEELSNMECPMCRRRLHVWCRKLK--GSVVDQ 109

Query: 78  NLWNQIQKYYKKEVDQKLFDQDD 100
            LW ++Q+ Y K+      D  D
Sbjct: 110 TLWEEMQRLYPKQCQAHTKDLGD 132

Source: Salpingoeca sp. ATCC 50818

Species: Salpingoeca sp. ATCC 50818

Genus: Salpingoeca

Family: Salpingoecidae

Order: Choanoflagellida

Superkingdom: Eukaryota

>gi|328724837|ref|XP_001947631.2| PREDICTED: hypothetical protein LOC100167466 [Acyrthosiphon pisum]

 Score = 87.8 bits (216), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 38/94 (40%), Positives = 62/94 (65%), Gaps = 1/94 (1%)

Query: 12  LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNK-D 70
           L  + V C+ C+ I ++P+ +PC H +CLEC + + D +   CPMCR+R+S WLR+ K D
Sbjct: 10  LNFEEVFCIACRSIYLQPVTMPCGHTLCLECFKSMVDLTAYQCPMCRRRISNWLRKFKHD 69

Query: 71  FSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWE 104
           +  +++  LW  I++ Y  EV ++L D+DDG+ E
Sbjct: 70  WDAMLNVKLWEAIKQQYPVEVQKRLNDEDDGLEE 103

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157117835|ref|XP_001653059.1| hypothetical protein AaeL_AAEL001357 [Aedes aegypti] gi|108883323|gb|EAT47548.1| AAEL001357-PA [Aedes aegypti]

 Score = 87.4 bits (215), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 34/82 (41%), Positives = 48/82 (58%)

Query: 12  LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDF 71
           L  D +LC VCQ +L++P+ LPC H  C  CL    + +NL+CP CRKR   W R     
Sbjct: 46  LQLDDILCTVCQSVLVEPVFLPCQHRFCRNCLSGTIEKNNLNCPCCRKRFGTWYRNASRV 105

Query: 72  SLLIDENLWNQIQKYYKKEVDQ 93
           + L+ E LWN IQ  ++  +D+
Sbjct: 106 NKLVHEQLWNAIQSQFRDYLDE 127

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|326925712|ref|XP_003209054.1| PREDICTED: e3 ubiquitin-protein ligase RNF168-like [Meleagris gallopavo]

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/92 (42%), Positives = 57/92 (61%)

Query: 8  SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRR 67
          S   L+ D  LC +C  I ++P+ LPCNH +C  C Q   +N++L CP CR+R+S W R 
Sbjct: 5  SEAPLSLDDCLCQICMEIFVEPVTLPCNHTICNSCFQLTVENASLCCPFCRRRVSSWARY 64

Query: 68 NKDFSLLIDENLWNQIQKYYKKEVDQKLFDQD 99
          N   + LI+  LW +IQK Y KE ++++  QD
Sbjct: 65 NARRNTLINWELWEKIQKKYPKECERRINGQD 96

Source: Meleagris gallopavo

Species: Meleagris gallopavo

Genus: Meleagris

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|307207595|gb|EFN85259.1| RING finger protein 168 [Harpegnathos saltator]

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 34/78 (43%), Positives = 53/78 (67%)

Query: 17  VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLID 76
           ++C VC+GILI+P+ LPC H++CL CL+   ++++LSCP+CR R+  WLR       L++
Sbjct: 28  LMCPVCRGILIEPVTLPCTHNLCLRCLKGTFEHNSLSCPLCRLRVGSWLRTATKSETLVN 87

Query: 77  ENLWNQIQKYYKKEVDQK 94
             LW  I+  + KEV+ K
Sbjct: 88  HGLWEFIRTKFPKEVEDK 105

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|118094925|ref|XP_001233498.1| PREDICTED: E3 ubiquitin-protein ligase RNF168 [Gallus gallus]

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/92 (41%), Positives = 57/92 (61%)

Query: 8  SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRR 67
          S   L+ D  LC +C  + ++P+ LPCNH +C  C Q   +N++L CP CR+R+S W R 
Sbjct: 5  SEAPLSLDDCLCQICMEVFVEPVTLPCNHTICNSCFQLTVENASLCCPFCRRRVSSWARY 64

Query: 68 NKDFSLLIDENLWNQIQKYYKKEVDQKLFDQD 99
          N   + LI+  LW +IQK Y KE ++++  QD
Sbjct: 65 NARRNTLINWELWEKIQKKYPKECERRINGQD 96

Source: Gallus gallus

Species: Gallus gallus

Genus: Gallus

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|405958055|gb|EKC24219.1| hypothetical protein CGI_10012050 [Crassostrea gigas]

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 32/94 (34%), Positives = 62/94 (65%)

Query: 11  TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKD 70
           TL+ +  +C +C  I+++P+ +PC H +C  C ++  + ++L+CPMCR R+S+W RR+  
Sbjct: 26  TLSVEDCMCPICMCIMVEPVTMPCKHTLCYPCFKQNVEEASLACPMCRVRISVWARRSSK 85

Query: 71  FSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWE 104
              L+++ LW QIQ+ + ++V+++    DD + E
Sbjct: 86  NGTLVNKKLWTQIQQLFPEKVEKRQKGLDDSIEE 119

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|332021529|gb|EGI61894.1| E3 ubiquitin-protein ligase [Acromyrmex echinatior]

 Score = 82.4 bits (202), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 33/76 (43%), Positives = 51/76 (67%)

Query: 19  CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
           C +C+GILI+P+ LPC H++CL CLQ   ++++L+CP+CR R+  WLR       L++  
Sbjct: 28  CPICRGILIEPVTLPCTHNLCLRCLQGTFEHNSLTCPLCRVRVGSWLRTATKSETLVNHG 87

Query: 79  LWNQIQKYYKKEVDQK 94
           LW  I+  + KEV+ K
Sbjct: 88  LWQLIRSKFPKEVENK 103

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|410926879|ref|XP_003976896.1| PREDICTED: E3 ubiquitin-protein ligase RNF168-like [Takifugu rubripes]

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 40/105 (38%), Positives = 56/105 (53%)

Query: 1   MDNEDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKR 60
           M        +TLT     C VC  IL +P+ LPC H  C  C     D + L CP+CRKR
Sbjct: 1   MSGRGGRRESTLTLQDCRCPVCLEILCEPVTLPCTHTFCKGCFLESVDKATLCCPLCRKR 60

Query: 61  LSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWEN 105
           +S W R+N   + L+++ LWNQIQ  +     ++L  QD G+ +N
Sbjct: 61  VSTWARQNSRNNTLVNQQLWNQIQDQFPLHCQRRLSGQDGGMEDN 105

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|307190469|gb|EFN74494.1| RING finger protein 168 [Camponotus floridanus]

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 34/78 (43%), Positives = 53/78 (67%)

Query: 17  VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLID 76
           ++C VC+GILI+P+ LPC H++CL CL+   ++++LSCP+CR R+  WLR       L++
Sbjct: 25  LMCPVCRGILIEPVTLPCTHNLCLRCLKGTFEHNSLSCPLCRVRVGSWLRNATKSETLVN 84

Query: 77  ENLWNQIQKYYKKEVDQK 94
             LW  I+  + KEV+ K
Sbjct: 85  HGLWELIRTKFPKEVENK 102

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	108
UNIPROTKB|E1BSL1	572	E1BSL1 "Uncharacterized protei	0.851	0.160	0.413	8.5e-18
UNIPROTKB|Q6INS5	557	rnf168 "E3 ubiquitin-protein l	0.759	0.147	0.402	2.5e-15
UNIPROTKB|B0BLU1	535	rnf168 "E3 ubiquitin-protein l	0.759	0.153	0.390	2.9e-15
RGD|1585168	564	Rnf168 "ring finger protein 16	0.75	0.143	0.407	4.1e-15
MGI|MGI:1917488	565	Rnf168 "ring finger protein 16	0.824	0.157	0.377	4.2e-15
UNIPROTKB|F1M8E0	565	Rnf168 "E3 ubiquitin-protein l	0.75	0.143	0.407	4.2e-15
UNIPROTKB|F8WD60	116	RNF168 "E3 ubiquitin-protein l	0.75	0.698	0.382	8.8e-15
UNIPROTKB|G3X8D4	190	RNF168 "E3 ubiquitin-protein l	0.75	0.426	0.382	1.4e-14
RGD|1560267	197	RGD1560267 "similar to ring fi	0.731	0.401	0.392	3.8e-14
ZFIN|ZDB-GENE-030131-6013	474	rnf168 "ring finger protein 16	0.861	0.196	0.354	7.4e-14

UNIPROTKB|E1BSL1 E1BSL1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 225 (84.3 bits), Expect = 8.5e-18, P = 8.5e-18
 Identities = 38/92 (41%), Positives = 57/92 (61%)

Query:     8 SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRR 67
             S   L+ D  LC +C  + ++P+ LPCNH +C  C Q   +N++L CP CR+R+S W R 
Sbjct:     5 SEAPLSLDDCLCQICMEVFVEPVTLPCNHTICNSCFQLTVENASLCCPFCRRRVSSWARY 64

Query:    68 NKDFSLLIDENLWNQIQKYYKKEVDQKLFDQD 99
             N   + LI+  LW +IQK Y KE ++++  QD
Sbjct:    65 NARRNTLINWELWEKIQKKYPKECERRINGQD 96

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

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

GO:0010212 "response to ionizing radiation" evidence=IEA

GO:0031491 "nucleosome binding" evidence=IEA

GO:0035518 "histone H2A monoubiquitination" evidence=IEA

GO:0035861 "site of double-strand break" evidence=IEA

GO:0036351 "histone H2A-K13 ubiquitination" evidence=IEA

GO:0036352 "histone H2A-K15 ubiquitination" evidence=IEA

GO:0042393 "histone binding" evidence=IEA

GO:0045190 "isotype switching" evidence=IEA

GO:0045739 "positive regulation of DNA repair" evidence=IEA

GO:0045900 "negative regulation of translational elongation" evidence=IEA

GO:0070530 "K63-linked polyubiquitin binding" evidence=IEA

GO:0070535 "histone H2A K63-linked ubiquitination" evidence=IEA

UNIPROTKB|Q6INS5 rnf168 "E3 ubiquitin-protein ligase RNF168" [Xenopus laevis (taxid:8355)]

 Score = 202 (76.2 bits), Expect = 2.5e-15, P = 2.5e-15
 Identities = 33/82 (40%), Positives = 50/82 (60%)

Query:    18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDE 77
             +C +CQ IL++P+ LPC H +C  C Q   + ++L CP CRKR+S W R +     L++ 
Sbjct:    15 ICPICQEILLEPVTLPCKHTLCNPCFQMTVEKASLCCPFCRKRVSTWARLHSRTRTLVNT 74

Query:    78 NLWNQIQKYYKKEVDQKLFDQD 99
              LW +IQK Y KE  ++   Q+
Sbjct:    75 ELWERIQKQYPKECQRRASGQE 96

GO:0000151 "ubiquitin ligase complex" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

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

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

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0035518 "histone H2A monoubiquitination" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0036351 "histone H2A-K13 ubiquitination" evidence=ISS

GO:0036352 "histone H2A-K15 ubiquitination" evidence=ISS

GO:0042393 "histone binding" evidence=ISS

GO:0043130 "ubiquitin binding" evidence=ISS

GO:0045190 "isotype switching" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0045900 "negative regulation of translational elongation" evidence=ISS

GO:0070530 "K63-linked polyubiquitin binding" evidence=ISS

GO:0070534 "protein K63-linked ubiquitination" evidence=ISS

GO:0070535 "histone H2A K63-linked ubiquitination" evidence=ISS

UNIPROTKB|B0BLU1 rnf168 "E3 ubiquitin-protein ligase RNF168" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 201 (75.8 bits), Expect = 2.9e-15, P = 2.9e-15
 Identities = 32/82 (39%), Positives = 51/82 (62%)

Query:    18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDE 77
             +C +CQ IL++P+ LPC H +C  C Q   + ++L CP CRKR+S W R++     L+++
Sbjct:    15 ICPICQEILLEPVTLPCKHTLCNPCFQMTVEKASLCCPFCRKRVSTWARQHSRTRTLVNK 74

Query:    78 NLWNQIQKYYKKEVDQKLFDQD 99
              LW  IQK Y K+  ++   Q+
Sbjct:    75 ELWEVIQKQYPKQCQRRASGQE 96

GO:0000151 "ubiquitin ligase complex" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

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

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

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0035518 "histone H2A monoubiquitination" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0036351 "histone H2A-K13 ubiquitination" evidence=ISS

GO:0036352 "histone H2A-K15 ubiquitination" evidence=ISS

GO:0042393 "histone binding" evidence=ISS

GO:0043130 "ubiquitin binding" evidence=ISS

GO:0045190 "isotype switching" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0045900 "negative regulation of translational elongation" evidence=ISS

GO:0070530 "K63-linked polyubiquitin binding" evidence=ISS

GO:0070534 "protein K63-linked ubiquitination" evidence=ISS

GO:0070535 "histone H2A K63-linked ubiquitination" evidence=ISS

RGD|1585168 Rnf168 "ring finger protein 168, E3 ubiquitin protein ligase" [Rattus norvegicus (taxid:10116)]

 Score = 200 (75.5 bits), Expect = 4.1e-15, P = 4.1e-15
 Identities = 33/81 (40%), Positives = 51/81 (62%)

Query:    19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
             C +C  IL++P+ LPCNH +C  C Q   + +NL CP CR+R+S W R +   + L++ +
Sbjct:    16 CGICMEILVEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLVNTD 75

Query:    79 LWNQIQKYYKKEVDQKLFDQD 99
             LW  IQK+Y KE   ++  Q+
Sbjct:    76 LWEIIQKHYAKECKLRISGQE 96

GO:0000151 "ubiquitin ligase complex" evidence=ISO;ISS

GO:0003682 "chromatin binding" evidence=ISO;ISS

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

GO:0005634 "nucleus" evidence=ISO;ISS

GO:0006302 "double-strand break repair" evidence=ISO;ISS

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

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010212 "response to ionizing radiation" evidence=ISO;ISS

GO:0016567 "protein ubiquitination" evidence=ISO;ISS

GO:0031491 "nucleosome binding" evidence=IEA;ISO

GO:0035518 "histone H2A monoubiquitination" evidence=ISO;ISS

GO:0035861 "site of double-strand break" evidence=ISO;ISS

GO:0036351 "histone H2A-K13 ubiquitination" evidence=ISO;ISS

GO:0036352 "histone H2A-K15 ubiquitination" evidence=ISO;ISS

GO:0042393 "histone binding" evidence=ISO;ISS

GO:0043130 "ubiquitin binding" evidence=ISO;ISS

GO:0045190 "isotype switching" evidence=ISO;ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISO;ISS

GO:0045900 "negative regulation of translational elongation" evidence=ISO;ISS

GO:0070530 "K63-linked polyubiquitin binding" evidence=ISO;ISS

GO:0070534 "protein K63-linked ubiquitination" evidence=ISO;ISS

GO:0070535 "histone H2A K63-linked ubiquitination" evidence=ISO;ISS

MGI|MGI:1917488 Rnf168 "ring finger protein 168" [Mus musculus (taxid:10090)]

 Score = 200 (75.5 bits), Expect = 4.2e-15, P = 4.2e-15
 Identities = 34/90 (37%), Positives = 55/90 (61%)

Query:    19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
             C +C  IL++P+ LPCNH +C  C Q   + +NL CP CR+R+S W R +   + L++ +
Sbjct:    16 CGICMEILLEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLVNTD 75

Query:    79 LWNQIQKYYKKEVDQKLFDQDDG-VWENCR 107
             LW  IQK+Y KE   ++  Q+   + + C+
Sbjct:    76 LWEIIQKHYAKECKLRISGQESKEIIDECQ 105

GO:0000151 "ubiquitin ligase complex" evidence=ISO

GO:0003682 "chromatin binding" evidence=ISO

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

GO:0005634 "nucleus" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006302 "double-strand break repair" evidence=ISO

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

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010212 "response to ionizing radiation" evidence=ISO

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0016568 "chromatin modification" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0031491 "nucleosome binding" evidence=ISO

GO:0035518 "histone H2A monoubiquitination" evidence=ISO

GO:0035861 "site of double-strand break" evidence=ISO

GO:0036351 "histone H2A-K13 ubiquitination" evidence=ISO

GO:0036352 "histone H2A-K15 ubiquitination" evidence=ISO

GO:0042393 "histone binding" evidence=ISO

GO:0043130 "ubiquitin binding" evidence=ISO

GO:0045190 "isotype switching" evidence=IMP

GO:0045739 "positive regulation of DNA repair" evidence=ISO

GO:0045900 "negative regulation of translational elongation" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0070530 "K63-linked polyubiquitin binding" evidence=ISO

GO:0070534 "protein K63-linked ubiquitination" evidence=ISO

GO:0070535 "histone H2A K63-linked ubiquitination" evidence=ISO

UNIPROTKB|F1M8E0 Rnf168 "E3 ubiquitin-protein ligase RNF168" [Rattus norvegicus (taxid:10116)]

 Score = 200 (75.5 bits), Expect = 4.2e-15, P = 4.2e-15
 Identities = 33/81 (40%), Positives = 51/81 (62%)

Query:    19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
             C +C  IL++P+ LPCNH +C  C Q   + +NL CP CR+R+S W R +   + L++ +
Sbjct:    18 CGICMEILVEPVTLPCNHTLCNPCFQSTVEKANLCCPFCRRRVSSWTRYHTRRNSLVNTD 77

Query:    79 LWNQIQKYYKKEVDQKLFDQD 99
             LW  IQK+Y KE   ++  Q+
Sbjct:    78 LWEIIQKHYAKECKLRISGQE 98

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F8WD60 RNF168 "E3 ubiquitin-protein ligase RNF168" [Homo sapiens (taxid:9606)]

 Score = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 31/81 (38%), Positives = 49/81 (60%)

Query:    19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
             C +C  IL++P+ LPCNH +C  C Q   + ++L CP CR+R+S W R +   + L++  
Sbjct:    16 CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVE 75

Query:    79 LWNQIQKYYKKEVDQKLFDQD 99
             LW  IQK+Y +E   +   Q+
Sbjct:    76 LWTIIQKHYPRECKLRASGQE 96

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|G3X8D4 RNF168 "E3 ubiquitin-protein ligase RNF168" [Bos taurus (taxid:9913)]

 Score = 186 (70.5 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 31/81 (38%), Positives = 47/81 (58%)

Query:    19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
             C +C  IL +P+ LPCNH +C  C +   + ++L CP CR+R+S W R     + L++  
Sbjct:    16 CQICVEILFEPVTLPCNHTLCKPCFESTVEKASLCCPFCRRRVSSWARYRSRTNSLVNME 75

Query:    79 LWNQIQKYYKKEVDQKLFDQD 99
             LW  IQK+Y KE   +   Q+
Sbjct:    76 LWEIIQKHYPKECKLRASGQE 96

GO:0008270 "zinc ion binding" evidence=IEA

RGD|1560267 RGD1560267 "similar to ring finger protein 168" [Rattus norvegicus (taxid:10116)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 31/79 (39%), Positives = 47/79 (59%)

Query:    12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDF 71
             L+ +   CL+C   LI+PI +PCNH +C  C + +   +NL CP CR  +S W R +   
Sbjct:    11 LSLEDCQCLLCMEFLIEPITMPCNHTMCKSCFKALLRKTNLFCPFCRSWISSWARYHTHV 70

Query:    72 SLLIDENLWNQIQKYYKKE 90
             + LI++ LW +IQ  Y +E
Sbjct:    71 NSLINKELWERIQTQYPEE 89

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-030131-6013 rnf168 "ring finger protein 168" [Danio rerio (taxid:7955)]

 Score = 187 (70.9 bits), Expect = 7.4e-14, P = 7.4e-14
 Identities = 33/93 (35%), Positives = 50/93 (53%)

Query:     8 SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRR 67
             S+  L     +C VC  I ++P+ LPC H  C  C     D SN+ CP+CRKR+S W R 
Sbjct:    15 SSGGLKRSDCVCPVCLEIFLEPVTLPCMHTFCKPCFLETVDKSNMCCPLCRKRVSTWARL 74

Query:    68 NKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDD 100
             N     L++  LW +IQ  +  + ++++   DD
Sbjct:    75 NSRNKTLVNMELWRRIQDAFPSQCERRVQGIDD 107

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=ISS

GO:0003682 "chromatin binding" evidence=ISS

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

GO:0035518 "histone H2A monoubiquitination" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0045190 "isotype switching" evidence=ISS

GO:0045900 "negative regulation of translational elongation" evidence=ISS

GO:0043130 "ubiquitin binding" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=IEA;ISS

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0036351 "histone H2A-K13 ubiquitination" evidence=ISS

GO:0042393 "histone binding" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0070530 "K63-linked polyubiquitin binding" evidence=ISS

GO:0070534 "protein K63-linked ubiquitination" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0006302 "double-strand break repair" evidence=ISS

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

GO:0036352 "histone H2A-K15 ubiquitination" evidence=ISS

GO:0070535 "histone H2A K63-linked ubiquitination" evidence=ISS

GO:0016568 "chromatin modification" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	108
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	6e-06
COG5222	427	COG5222, COG5222, Uncharacterized conserved protei	2e-05
smart00184	40	smart00184, RING, Ring finger	2e-04
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-04
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-04
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.001
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	0.001

>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 = 39.7 bits (93), Expect = 6e-06
 Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 1/44 (2%)

Query: 19 CLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRL 61
          C +C     +P+ L PC H  C  C+ +   +   +CP+CR  +
Sbjct: 2  CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 41.7 bits (97), Expect = 2e-05
 Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 16  SVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKR 60
           S+ C +C  +L  P+K P C H  C EC+     +S+  CP C ++
Sbjct: 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRK 319

Length = 427

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

 Score = 35.6 bits (82), Expect = 2e-04
 Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 19 CLVCQGILIK-PIKLPCNHHVCLECLQRICDNSNLSCPMC 57
          C +C    +K P+ LPC H  C  C+++  ++ N +CP+C
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 35.2 bits (81), Expect = 4e-04
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 15 DSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRK 59
          + + C +C  +L  P+ L PC H  C EC+ R     +  CP+CR 
Sbjct: 1  EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKS-KCPICRT 45

Length = 45

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

 Score = 35.1 bits (81), Expect = 5e-04
 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 4/45 (8%)

Query: 19 CLVCQGILI---KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKR 60
          C +C        + + LPC H    ECL +   +SN +CP+CR  
Sbjct: 3  CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSN-TCPLCRAP 46

Length = 46

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

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCR 58
          S+ C +C+     P+   C+H  C  C++R C ++   CP+CR
Sbjct: 26 SLRCHICKDFFDVPVLTSCSHTFCSLCIRR-CLSNQPKCPLCR 67

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|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 14/63 (22%)

Query: 12  LTPDSVLCLVC-------------QGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCR 58
           LT     C +C             +G+ + P +LPC H + L CL+   +    +CP+CR
Sbjct: 283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPICR 341

Query: 59  KRL 61
           + +
Sbjct: 342 RPV 344

Length = 491

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	108
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.71
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.63
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.62
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.59
KOG0823|consensus	230		99.57
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.56
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.53
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.48
KOG0317|consensus	293		99.48
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.48
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	99.44
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.44
KOG0287|consensus	442		99.43
KOG0320|consensus	187		99.42
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.4
PHA02929	238	N1R/p28-like protein; Provisional	99.36
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.36
KOG0311|consensus	381		99.3
PF14634	44	zf-RING_5: zinc-RING finger domain	99.29
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.29
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	99.25
PHA02926	242	zinc finger-like protein; Provisional	99.24
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	99.21
KOG2177|consensus	386		99.2
KOG2660|consensus	331		99.17
KOG2164|consensus	513		99.09
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.08
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	99.04
KOG4159|consensus	398		99.03
KOG4628|consensus	348		98.89
COG5152	259	Uncharacterized conserved protein, contains RING a	98.87
KOG0978|consensus	698		98.85
KOG0824|consensus	324		98.79
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.78
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.76
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.74
KOG2879|consensus	298		98.73
KOG0802|consensus	543		98.72
KOG0297|consensus	391		98.68
KOG1813|consensus	313		98.67
COG5222	427	Uncharacterized conserved protein, contains RING Z	98.63
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.58
KOG4172|consensus	62		98.33
KOG1785|consensus	563		98.25
KOG0804|consensus	493		98.23
KOG4265|consensus	349		98.23
KOG1039|consensus	344		98.16
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.1
KOG4185|consensus	296		98.08
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.0
KOG4367|consensus	699		97.96
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.95
KOG1002|consensus	791		97.94
KOG1734|consensus	328		97.92
KOG0828|consensus	636		97.91
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.86
KOG4275|consensus	350		97.81
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.79
KOG3039|consensus	303		97.76
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.76
KOG1645|consensus	463		97.76
KOG1493|consensus	84		97.75
KOG0825|consensus	1134		97.63
KOG4692|consensus	489		97.61
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.54
KOG1814|consensus	445		97.48
KOG0827|consensus	465		97.48
KOG2930|consensus	114		97.42
PF04641	260	Rtf2: Rtf2 RING-finger	97.41
KOG1941|consensus	518		97.39
KOG3800|consensus	300		97.38
KOG4739|consensus	233		97.33
KOG3970|consensus	299		97.28
KOG2817|consensus	394		97.24
KOG1001|consensus	674		97.24
KOG1571|consensus	355		97.21
KOG3002|consensus	299		97.05
KOG0826|consensus	357		96.98
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.91
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	96.88
KOG1940|consensus	276		96.71
KOG3161|consensus	861		96.68
KOG4362|consensus	684		96.65
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.59
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.55
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	96.4
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.07
KOG2114|consensus	933		95.9
PHA03096	284	p28-like protein; Provisional	95.74
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.63
KOG1952|consensus	950		95.54
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.3
KOG1812|consensus	384		95.3
KOG0298|consensus	1394		95.19
KOG1428|consensus	3738		95.08
KOG2932|consensus	389		94.97
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	94.65
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	94.56
COG5109	396	Uncharacterized conserved protein, contains RING Z	94.56
KOG3579|consensus	352		94.52
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	94.41
KOG1100|consensus	207		94.38
KOG3039|consensus	303		94.04
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.98
KOG1815|consensus	444		93.85
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.77
PHA02862	156	5L protein; Provisional	93.73
COG3813	84	Uncharacterized protein conserved in bacteria [Fun	93.51
KOG3268|consensus	234		92.96
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	92.65
KOG3899|consensus	381		92.38
KOG2034|consensus	911		91.69
KOG4185|consensus	296		91.66
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.62
COG0068	750	HypF Hydrogenase maturation factor [Posttranslatio	91.22
KOG4445|consensus	368		91.2
KOG3113|consensus	293		90.12
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	89.41
KOG1812|consensus	384		88.91
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	88.24
PF10497	105	zf-4CXXC_R1: Zinc-finger domain of monoamine-oxida	87.93
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	87.9
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	87.5
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	87.25
PLN02915	1044	cellulose synthase A [UDP-forming], catalytic subu	86.85
PF10235	90	Cript: Microtubule-associated protein CRIPT; Inter	86.77
PLN02189	1040	cellulose synthase	86.67
PLN02436	1094	cellulose synthase A	86.2
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	86.05
PF06844	68	DUF1244: Protein of unknown function (DUF1244); In	86.0
KOG0825|consensus	1134		84.51
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	84.2
KOG4718|consensus	235		84.1
KOG2169|consensus	636		83.64
cd00065	57	FYVE FYVE domain; Zinc-binding domain; targets pro	82.81
PF04216	290	FdhE: Protein involved in formate dehydrogenase fo	81.77
KOG0309|consensus	1081		81.36
PLN02638	1079	cellulose synthase A (UDP-forming), catalytic subu	81.33
KOG2462|consensus	279		80.9
smart00064	68	FYVE Protein present in Fab1, YOTB, Vac1, and EEA1	80.67
PLN02195	977	cellulose synthase A	80.26
PF02318	118	FYVE_2: FYVE-type zinc finger; InterPro: IPR003315	80.05

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

Probab=99.71  E-value=6.2e-18  Score=83.88  Aligned_cols=39  Identities=38%  Similarity=1.147  Sum_probs=31.0

Q ss_pred             cccccccccCceecCCCCcchHHhHHHHhhcCC---Cccccc
Q psy18179         19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSN---LSCPMC   57 (108)
Q Consensus        19 C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~---~~CP~C   57 (108)
                      ||||+++|.+|++|+|||+||..||.++++...   ..||.|
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            899999999999999999999999999998432   469987

>smart00504 Ubox Modified RING finger domain

Probab=99.63  E-value=2.6e-16  Score=84.54  Aligned_cols=62  Identities=18%  Similarity=0.284  Sum_probs=51.1

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHH
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK   85 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~   85 (108)
                      ++.||||.+.+.+|+.++|||+||+.||..|+... ..||.|+..+.       ..++..+..+++.++.
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~-~~cP~~~~~~~-------~~~l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSH-GTDPVTGQPLT-------HEDLIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHC-CCCCCCcCCCC-------hhhceeCHHHHHHHHh
Confidence            47899999999999999999999999999999874 57999999886       2345556666666653

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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.62  E-value=6.2e-16  Score=98.59  Aligned_cols=52  Identities=21%  Similarity=0.577  Sum_probs=44.5

Q ss_pred             CCCCccccccccccccCceecCCCCcchHHhHHHHhhc---------------CCCcccccccccch
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN---------------SNLSCPMCRKRLSI   63 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~---------------~~~~CP~Cr~~~~~   63 (108)
                      ...+++.|+||++.+.+|+.++|||.||+.||..|+..               +...||.||..+..
T Consensus        14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            34467999999999999999999999999999999752               23579999998864

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

Probab=99.59  E-value=1.6e-15  Score=83.84  Aligned_cols=69  Identities=23%  Similarity=0.435  Sum_probs=55.0

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK   89 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   89 (108)
                      .+.|.|||+.++|.+||.+++||+|++.+|..|+..++..||.++..+..       .++..|..|+..++.|...
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~-------~~l~pn~~Lk~~I~~~~~~   70 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE-------SDLIPNRALKSAIEEWCAE   70 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG-------GGSEE-HHHHHHHHHHHHH
T ss_pred             CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc-------ccceECHHHHHHHHHHHHH
Confidence            46899999999999999999999999999999999866789999998873       4577788899999887654

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 ....

>KOG0823|consensus

Probab=99.57  E-value=2.2e-15  Score=97.73  Aligned_cols=51  Identities=25%  Similarity=0.663  Sum_probs=45.0

Q ss_pred             CCCccccccccccccCceecCCCCcchHHhHHHHhhc--CCCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN--SNLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~   63 (108)
                      ....|.|.||++.-++||.+.|||.||+.||.+|+..  ....||+|+..+..
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            4668999999999999999999999999999999983  33568999988764

>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=99.56  E-value=2.5e-15  Score=73.50  Aligned_cols=38  Identities=37%  Similarity=1.065  Sum_probs=32.7

Q ss_pred             cccccccccCc-eecCCCCcchHHhHHHHhhcCCCccccc
Q psy18179         19 CLVCQGILIKP-IKLPCNHHVCLECLQRICDNSNLSCPMC   57 (108)
Q Consensus        19 C~IC~~~~~~p-~~l~CgH~fC~~Ci~~~~~~~~~~CP~C   57 (108)
                      |+||++.+.+| +.++|||+||..|+.+|+.. ...||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            89999999999 56799999999999999988 5689987

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.53  E-value=1.6e-14  Score=101.35  Aligned_cols=69  Identities=22%  Similarity=0.490  Sum_probs=54.4

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY   86 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~   86 (108)
                      .......+.|+||.+.|..|+.++|||+||..||..|+.... .||.|+..+..       ..+..|..|.++++.+
T Consensus        20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~-~CP~Cr~~~~~-------~~Lr~N~~L~~iVe~~   88 (397)
T TIGR00599        20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP-KCPLCRAEDQE-------SKLRSNWLVSEIVESF   88 (397)
T ss_pred             ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC-CCCCCCCcccc-------ccCccchHHHHHHHHH
Confidence            345667899999999999999999999999999999998653 69999998763       2344455555655544

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

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

Probab=99.48  E-value=2.9e-14  Score=70.36  Aligned_cols=39  Identities=33%  Similarity=1.069  Sum_probs=35.7

Q ss_pred             cccccccccCce-ecCCCCcchHHhHHHHhh-cCCCccccc
Q psy18179         19 CLVCQGILIKPI-KLPCNHHVCLECLQRICD-NSNLSCPMC   57 (108)
Q Consensus        19 C~IC~~~~~~p~-~l~CgH~fC~~Ci~~~~~-~~~~~CP~C   57 (108)
                      |+||++.+.+|+ .++|||+||..|+.+|+. .+...||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999999 789999999999999998 566789987

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 ....

>KOG0317|consensus

Probab=99.48  E-value=2.6e-14  Score=95.33  Aligned_cols=57  Identities=26%  Similarity=0.723  Sum_probs=48.9

Q ss_pred             cCCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          6 CNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         6 ~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      -++.....+....|.+|++...+|..+||||.||+.||..|..... .||.||..+..
T Consensus       229 s~~~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~~p  285 (293)
T KOG0317|consen  229 SNSLSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-ECPLCREKFQP  285 (293)
T ss_pred             ccCCccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-CCCcccccCCC
Confidence            3444556777899999999999999999999999999999998664 59999998874

>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=99.48  E-value=3.2e-14  Score=73.14  Aligned_cols=46  Identities=30%  Similarity=0.773  Sum_probs=39.8

Q ss_pred             ccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +..|.||++...+++.+||||. ||..|+.+|+... ..||.||+.+.
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~-~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRK-KKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTT-SBBTTTTBB-S
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccC-CCCCcCChhhc
Confidence            5689999999999999999999 9999999999844 57999999875

...

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

Probab=99.44  E-value=2.8e-14  Score=75.47  Aligned_cols=60  Identities=27%  Similarity=0.622  Sum_probs=32.7

Q ss_pred             CCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQI   83 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~   83 (108)
                      +..+.|++|.+++.+||.+ .|.|.||..||...+..   .||+|..+..       ..++.+|..|.+++
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw-------~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAW-------IQDIQINRQLDSMI   65 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S--------SS----HHHHHHH
T ss_pred             HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHH-------HHHHHhhhhhhccC
Confidence            3468899999999999986 89999999999876642   4999998876       45788888777654

>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=99.44  E-value=4.2e-14  Score=70.84  Aligned_cols=40  Identities=35%  Similarity=0.815  Sum_probs=33.9

Q ss_pred             cccccccccc---CceecCCCCcchHHhHHHHhhcCCCcccccc
Q psy18179         18 LCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSNLSCPMCR   58 (108)
Q Consensus        18 ~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr   58 (108)
                      .|+||++.+.   .++.++|||.||..||.+|+... .+||.||
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            5999999885   45667999999999999999875 4799997

...

>KOG0287|consensus

Probab=99.43  E-value=6.5e-14  Score=95.43  Aligned_cols=66  Identities=21%  Similarity=0.486  Sum_probs=52.2

Q ss_pred             CCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY   86 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~   86 (108)
                      ..+.+.|.||.++|..|+.+||+|+||..||..++.... .||.|+..+.-       ..++-+..+.++++.+
T Consensus        20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p-~CP~C~~~~~E-------s~Lr~n~il~Eiv~S~   85 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP-QCPTCCVTVTE-------SDLRNNRILDEIVKSL   85 (442)
T ss_pred             hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC-CCCceecccch-------hhhhhhhHHHHHHHHH
Confidence            346789999999999999999999999999999998664 59999998872       3344455555555443

>KOG0320|consensus

Probab=99.42  E-value=1.4e-13  Score=86.16  Aligned_cols=48  Identities=29%  Similarity=0.856  Sum_probs=41.4

Q ss_pred             CCccccccccccccC--ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIK--PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~--p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +..+.||||+..+.+  |+.+.|||.||..||...++.+. .||+|++.+.
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~-~CP~C~kkIt  178 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN-KCPTCRKKIT  178 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC-CCCCcccccc
Confidence            445899999998884  66789999999999999998765 5999999776

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

Probab=99.40  E-value=1.3e-13  Score=68.38  Aligned_cols=36  Identities=39%  Similarity=1.125  Sum_probs=22.9

Q ss_pred             cccccccccC----ceecCCCCcchHHhHHHHhhcC---CCccc
Q psy18179         19 CLVCQGILIK----PIKLPCNHHVCLECLQRICDNS---NLSCP   55 (108)
Q Consensus        19 C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~~~---~~~CP   55 (108)
                      ||||.+ +.+    |+.|+|||+||+.||.+++..+   .+.||
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 887    9999999999999999999843   46676

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.36  E-value=5.3e-13  Score=88.22  Aligned_cols=49  Identities=27%  Similarity=0.666  Sum_probs=40.3

Q ss_pred             CCccccccccccccCc--------eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKP--------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p--------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .++..|+||++.+.++        +.++|||.||..||.+|+... .+||+||..+..
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~-~tCPlCR~~~~~  228 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK-NTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC-CCCCCCCCEeeE
Confidence            4568999999987653        345899999999999999865 479999998763

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

Probab=99.36  E-value=6.2e-13  Score=66.22  Aligned_cols=43  Identities=28%  Similarity=0.821  Sum_probs=37.3

Q ss_pred             ccccccccccCceecC-CCCcchHHhHHHHhhcCCCcccccccc
Q psy18179         18 LCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKR   60 (108)
Q Consensus        18 ~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~   60 (108)
                      .|+||++.+.+++.++ |||.||..|+..|+..+...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            4999999998887775 999999999999998755679999875

>KOG0311|consensus

Probab=99.30  E-value=2.3e-13  Score=93.02  Aligned_cols=68  Identities=26%  Similarity=0.619  Sum_probs=54.9

Q ss_pred             CCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHH
Q psy18179         12 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWN   81 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~   81 (108)
                      ....++.|+||+++++...++ .|+|.||..||...++.++..||.||+.+.+  ...++.+..++..+..
T Consensus        39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S--krsLr~Dp~fdaLis~  107 (381)
T KOG0311|consen   39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS--KRSLRIDPNFDALISK  107 (381)
T ss_pred             HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc--cccCCCCccHHHHHHH
Confidence            345689999999999998888 5999999999999999888899999998876  4445555555544443

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.29  E-value=2.5e-12  Score=64.36  Aligned_cols=41  Identities=32%  Similarity=0.877  Sum_probs=34.2

Q ss_pred             ccccccccc---cCceecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179         18 LCLVCQGIL---IKPIKLPCNHHVCLECLQRICDNSNLSCPMCRK   59 (108)
Q Consensus        18 ~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~   59 (108)
                      .|+||.+.+   ..|..++|||+||..|+..+. .....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            489999998   256778999999999999988 34567999974

>smart00184 RING Ring finger

Probab=99.29  E-value=3.2e-12  Score=61.56  Aligned_cols=39  Identities=36%  Similarity=1.036  Sum_probs=34.8

Q ss_pred             cccccccccCceecCCCCcchHHhHHHHhhcCCCccccc
Q psy18179         19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMC   57 (108)
Q Consensus        19 C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~C   57 (108)
                      |+||++....++.++|||.||..|+..|+..+...||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999988999999999999999999998555679987

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)

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

Probab=99.25  E-value=3.5e-12  Score=85.62  Aligned_cols=48  Identities=25%  Similarity=0.711  Sum_probs=43.2

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ...+.|.||...+..|+.++|||+||..||.+.+....+ ||+||....
T Consensus        23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~-CP~Cr~~~~   70 (391)
T COG5432          23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF-CPVCREDPC   70 (391)
T ss_pred             hhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCC-CccccccHH
Confidence            346789999999999999999999999999999987765 999998765

>PHA02926 zinc finger-like protein; Provisional

Probab=99.24  E-value=5.5e-12  Score=81.81  Aligned_cols=51  Identities=24%  Similarity=0.640  Sum_probs=39.6

Q ss_pred             CCCccccccccccccC---------ceecCCCCcchHHhHHHHhhcC-----CCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIK---------PIKLPCNHHVCLECLQRICDNS-----NLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~---------p~~l~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~~   63 (108)
                      ...+..|+||++...+         ++..+|+|.||..||..|....     ...||.||..+..
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            3457899999997643         2344899999999999999742     2469999998763

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

Probab=99.21  E-value=8.9e-12  Score=82.46  Aligned_cols=50  Identities=28%  Similarity=0.614  Sum_probs=44.4

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHH-HhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQR-ICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~-~~~~~~~~CP~Cr~~~~~   63 (108)
                      +.++.|+||++....|..++|||.||..||.. |..+....||.||+....
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            56899999999999999999999999999999 777665559999998763

>KOG2177|consensus

Probab=99.20  E-value=9.6e-12  Score=83.94  Aligned_cols=48  Identities=35%  Similarity=0.943  Sum_probs=43.1

Q ss_pred             CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRK   59 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~   59 (108)
                      ....+++.|+||++.|..|+.++|||+||..|+..++. ....||.||.
T Consensus         8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             hhccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            45668999999999999998889999999999999988 5578999995

>KOG2660|consensus

Probab=99.17  E-value=1.2e-11  Score=84.11  Aligned_cols=76  Identities=21%  Similarity=0.448  Sum_probs=62.7

Q ss_pred             CCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHH
Q psy18179         12 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKE   90 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   90 (108)
                      -.....+|.+|..+|.++.++ .|-|+||++||.+.+... ..||.|...+..   .+...++..+..++.++.+++|.-
T Consensus        11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~-~~CP~C~i~ih~---t~pl~ni~~DrtlqdiVyKLVPgl   86 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES-KYCPTCDIVIHK---THPLLNIRSDRTLQDIVYKLVPGL   86 (331)
T ss_pred             hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh-ccCCccceeccC---ccccccCCcchHHHHHHHHHcchH
Confidence            345678999999999999987 699999999999999874 579999988763   333456778899999999998864


Q ss_pred             H
Q psy18179         91 V   91 (108)
Q Consensus        91 ~   91 (108)
                      .
T Consensus        87 ~   87 (331)
T KOG2660|consen   87 Q   87 (331)
T ss_pred             H
Confidence            4

>KOG2164|consensus

Probab=99.09  E-value=5.9e-11  Score=84.69  Aligned_cols=48  Identities=27%  Similarity=0.744  Sum_probs=42.7

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcC----CCcccccccccch
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS----NLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   63 (108)
                      +..||||++...-|+.+.|||.||..||..+|..+    ...||+|+..+..
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            88999999999999999999999999999988733    3679999998874

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

Probab=99.08  E-value=1.4e-10  Score=63.99  Aligned_cols=40  Identities=35%  Similarity=0.916  Sum_probs=31.8

Q ss_pred             ccccccccccC------------cee-cCCCCcchHHhHHHHhhcCCCcccccc
Q psy18179         18 LCLVCQGILIK------------PIK-LPCNHHVCLECLQRICDNSNLSCPMCR   58 (108)
Q Consensus        18 ~C~IC~~~~~~------------p~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr   58 (108)
                      .|+||++.|.+            ++. .+|||.|+..||.+|+..+. +||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence            49999999942            233 38999999999999998765 799997

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=99.04  E-value=3.5e-10  Score=77.08  Aligned_cols=48  Identities=25%  Similarity=0.583  Sum_probs=37.9

Q ss_pred             cccccccccc-ccCce---ec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         16 SVLCLVCQGI-LIKPI---KL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~-~~~p~---~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +..||+|... +.+|.   .+ +|||.||..|+...+..+...||.|+..+..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence            4579999984 44553   22 7999999999999887666789999988764

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).

>KOG4159|consensus

Probab=99.03  E-value=2.4e-10  Score=80.59  Aligned_cols=77  Identities=31%  Similarity=0.651  Sum_probs=57.6

Q ss_pred             CCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHHHH
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVD   92 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   92 (108)
                      ...+|.|.||...+.+|+++||||+||..||.+.+... ..||.||..+.....  ......+++.+..++.++++....
T Consensus        81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~-~~cp~Cr~~l~e~~~--~~~~~~~~r~~~~li~~F~~~~~~  157 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQE-TECPLCRDELVELPA--LEQALSLNRLLCKLITKFLEGSSS  157 (398)
T ss_pred             ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccC-CCCcccccccccchH--HHHHHHHHHHHHHHHHHhhhhhhc
Confidence            36789999999999999999999999999999988754 469999998873111  011122356666777777776554

>KOG4628|consensus

Probab=98.89  E-value=6.7e-10  Score=76.84  Aligned_cols=47  Identities=23%  Similarity=0.636  Sum_probs=39.9

Q ss_pred             cccccccccccCc---eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         17 VLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        17 ~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..|.||++.|..-   +.|||+|.|+..||..|+.+....||+|+..+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            5899999999843   4579999999999999999775569999987654

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

Probab=98.87  E-value=1.9e-09  Score=69.04  Aligned_cols=62  Identities=21%  Similarity=0.439  Sum_probs=49.2

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQ   84 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~   84 (108)
                      ...|.|.||...+..||.+.|||.||..|..+-.+.+ ..|-.|.+.+..        ...+...++.++.
T Consensus       194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg-~~C~~Cgk~t~G--------~f~V~~d~~kmL~  255 (259)
T COG5152         194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKG-DECGVCGKATYG--------RFWVVSDLQKMLN  255 (259)
T ss_pred             CCceeehhchhhccchhhhhcchhHHHHHHHHHhccC-Ccceecchhhcc--------ceeHHhhHHHHHh
Confidence            3468999999999999999999999999998877765 469999987763        3445555655554

>KOG0978|consensus

Probab=98.85  E-value=6.3e-10  Score=82.58  Aligned_cols=50  Identities=24%  Similarity=0.608  Sum_probs=44.9

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..-+.||+|..-+.+.+.+.|||.||..|+.+........||.|...|..
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            35689999999999999999999999999999998777789999999873

>KOG0824|consensus

Probab=98.79  E-value=2.3e-09  Score=72.39  Aligned_cols=50  Identities=26%  Similarity=0.634  Sum_probs=44.0

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .-.-.|+||+....-|+.++|+|.||.-||......+..+|++||.++..
T Consensus         5 ~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids   54 (324)
T KOG0824|consen    5 TKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS   54 (324)
T ss_pred             ccCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence            34557999999999999999999999999998777666779999999874

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

Probab=98.78  E-value=3.3e-09  Score=71.82  Aligned_cols=48  Identities=29%  Similarity=0.726  Sum_probs=40.4

Q ss_pred             CccccccccccccCc---eecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ....|.||++.|.+-   +.+||.|.|...|+.+|+..-...||+||..++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            357899999988743   457999999999999999855567999999886

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

Probab=98.76  E-value=7.8e-09  Score=58.00  Aligned_cols=47  Identities=26%  Similarity=0.656  Sum_probs=36.6

Q ss_pred             cccccccccccc------------Cceec-CCCCcchHHhHHHHhhc--CCCcccccccccc
Q psy18179         16 SVLCLVCQGILI------------KPIKL-PCNHHVCLECLQRICDN--SNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~------------~p~~l-~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~   62 (108)
                      +-.|+||...|.            -|+.+ .|+|.|...||.+|+..  +...||+||+...
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            456888877666            14444 79999999999999984  3467999999865

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

Probab=98.74  E-value=5.9e-09  Score=72.37  Aligned_cols=50  Identities=32%  Similarity=0.826  Sum_probs=41.8

Q ss_pred             CCCCccccccccccc-cC------------ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGIL-IK------------PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~-~~------------p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ...++-.|.||++.+ ..            |..+||||.+...|+..|...+. +||.||.++.
T Consensus       283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-TCPICr~p~i  345 (491)
T COG5243         283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPICRRPVI  345 (491)
T ss_pred             hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-CCCcccCccc
Confidence            366788999999874 33            47899999999999999998664 7999998854

>KOG2879|consensus

Probab=98.73  E-value=1e-08  Score=68.47  Aligned_cols=56  Identities=20%  Similarity=0.541  Sum_probs=47.2

Q ss_pred             CCCCCCCCCccccccccccccCceec-CCCCcchHHhHHHHhh-cCCCcccccccccc
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD-NSNLSCPMCRKRLS   62 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~   62 (108)
                      ....+...++.+|++|.+....|... +|||.||..|+.+... ..+++||.|+....
T Consensus       230 ~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  230 KFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34556677889999999999999987 6999999999998766 34588999998776

>KOG0802|consensus

Probab=98.72  E-value=4.5e-09  Score=77.29  Aligned_cols=47  Identities=34%  Similarity=0.804  Sum_probs=41.5

Q ss_pred             CCccccccccccccC-----ceecCCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179         14 PDSVLCLVCQGILIK-----PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRL   61 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~-----p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   61 (108)
                      ..+..|+||.+.+..     |..++|||.|+..|+..|++... +||.||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-tCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-TCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-cCCcchhhh
Confidence            347889999999998     78999999999999999999754 699999844

>KOG0297|consensus

Probab=98.68  E-value=1.9e-08  Score=71.40  Aligned_cols=59  Identities=29%  Similarity=0.718  Sum_probs=49.3

Q ss_pred             cccCCCCCCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          4 EDCNSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         4 ~~~~~~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+.+....+...++.|++|..++.+|+.. .|||.||..|+..|... ...||.|+..+..
T Consensus         9 ~~~~~~~~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~   68 (391)
T KOG0297|consen    9 FDLKHLGRPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ   68 (391)
T ss_pred             ccccccCCCCcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence            34445555677889999999999999995 99999999999999987 4579999887764

>KOG1813|consensus

Probab=98.67  E-value=1.3e-08  Score=68.59  Aligned_cols=62  Identities=18%  Similarity=0.511  Sum_probs=48.3

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQ   84 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~   84 (108)
                      .-.+.|-||.+.|.+||.+.|||+||..|..+-+..+. .|++|.+.+..        ...+...|...+.
T Consensus       239 ~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~-~c~vC~~~t~g--------~~~~akeL~~~L~  300 (313)
T KOG1813|consen  239 LLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE-KCYVCSQQTHG--------SFNVAKELLVSLK  300 (313)
T ss_pred             cCCccccccccccccchhhcCCceeehhhhccccccCC-cceeccccccc--------ccchHHHHHHHHH
Confidence            33567999999999999999999999999988777654 59999998764        3444455544443

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

Probab=98.63  E-value=6.8e-08  Score=65.58  Aligned_cols=45  Identities=36%  Similarity=0.887  Sum_probs=40.5

Q ss_pred             CccccccccccccCceecC-CCCcchHHhHHHHhhcCCCccccccc
Q psy18179         15 DSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRK   59 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~   59 (108)
                      -.|.|++|..++.+|+.++ |+|+||..||...+....+.||.|..
T Consensus       273 i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         273 ISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            3499999999999999995 89999999999988877789999976

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

Probab=98.58  E-value=4.2e-08  Score=51.49  Aligned_cols=44  Identities=23%  Similarity=0.431  Sum_probs=31.2

Q ss_pred             CCCccccccccccccCceec-CCCCcchHHhHHHHhh-cCCCcccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD-NSNLSCPM   56 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~-~~~~~CP~   56 (108)
                      ....+.|||.+..|.+||.- .|||+|.+..|..++. .+...||.
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            45578999999999999985 8999999999999994 44577997

>KOG4172|consensus

Probab=98.33  E-value=1.2e-07  Score=48.50  Aligned_cols=46  Identities=24%  Similarity=0.663  Sum_probs=40.0

Q ss_pred             cccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179         17 VLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      -.|.||++...+.|..-|||. .|..|-.+.++..+..||.||+++.
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            579999998888888899995 7999999888866678999999876

>KOG1785|consensus

Probab=98.25  E-value=4.1e-07  Score=64.00  Aligned_cols=46  Identities=30%  Similarity=0.691  Sum_probs=39.3

Q ss_pred             ccccccccccCceecCCCCcchHHhHHHHhhcC-CCcccccccccch
Q psy18179         18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNS-NLSCPMCRKRLSI   63 (108)
Q Consensus        18 ~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~   63 (108)
                      .|.||.+--++-..-||||..|..|+..|.... +.+||.||.++..
T Consensus       371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            488999987776667999999999999999744 6789999998875

>KOG0804|consensus

Probab=98.23  E-value=6.8e-07  Score=63.50  Aligned_cols=48  Identities=31%  Similarity=0.589  Sum_probs=39.4

Q ss_pred             CCCCccccccccccccCce----ecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ...+.-+||||++.+..-+    ++.|.|+|...|+..|+..   +||+||-...
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence            3556789999999998665    4589999999999999863   5999997554

>KOG4265|consensus

Probab=98.23  E-value=1.2e-06  Score=60.59  Aligned_cols=49  Identities=27%  Similarity=0.750  Sum_probs=41.2

Q ss_pred             CCccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +..-.|.||+...++-+.|||.|. .|..|.....-+.+ .||+||+.+..
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n-~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN-NCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc-CCCccccchHh
Confidence            446889999999999999999997 79999987664444 59999998874

>KOG1039|consensus

Probab=98.16  E-value=1.3e-06  Score=60.86  Aligned_cols=50  Identities=28%  Similarity=0.638  Sum_probs=39.8

Q ss_pred             CCCccccccccccccCce-----e---cCCCCcchHHhHHHHhh--cC----CCcccccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPI-----K---LPCNHHVCLECLQRICD--NS----NLSCPMCRKRLS   62 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~-----~---l~CgH~fC~~Ci~~~~~--~~----~~~CP~Cr~~~~   62 (108)
                      ...+..|.||++...+..     .   .+|.|.||..||..|-.  +.    ...||.||....
T Consensus       158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            356889999999887665     2   36999999999999984  21    367999998765

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

Probab=98.10  E-value=7.6e-07  Score=48.67  Aligned_cols=48  Identities=25%  Similarity=0.506  Sum_probs=23.8

Q ss_pred             cccccccccccc----Cceec----CCCCcchHHhHHHHhhc---C-------CCcccccccccch
Q psy18179         16 SVLCLVCQGILI----KPIKL----PCNHHVCLECLQRICDN---S-------NLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~----~p~~l----~CgH~fC~~Ci~~~~~~---~-------~~~CP~Cr~~~~~   63 (108)
                      +..|+||+..+.    .|...    .|++.|...||.+|+..   +       ...||.|+..+..
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            568999998754    24333    69999999999999872   1       1359999998873

>KOG4185|consensus

Probab=98.08  E-value=3.7e-06  Score=57.61  Aligned_cols=47  Identities=30%  Similarity=0.744  Sum_probs=40.0

Q ss_pred             cccccccccccc------CceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILI------KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~------~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .+.|-||.+.|.      .|..+.|||+||..|+...+......||.||..+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~   55 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTE   55 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCccc
Confidence            357999998877      47788999999999999988877778999999853

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

Probab=98.00  E-value=7.9e-06  Score=41.54  Aligned_cols=41  Identities=34%  Similarity=0.822  Sum_probs=31.6

Q ss_pred             ccccccc--cccCceecCCC-----CcchHHhHHHHhhcC-CCcccccc
Q psy18179         18 LCLVCQG--ILIKPIKLPCN-----HHVCLECLQRICDNS-NLSCPMCR   58 (108)
Q Consensus        18 ~C~IC~~--~~~~p~~l~Cg-----H~fC~~Ci~~~~~~~-~~~CP~Cr   58 (108)
                      .|.||++  .-.+|...||.     |.+...|+.+|+..+ ..+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889987  34467777885     789999999999744 45799984

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

>KOG4367|consensus

Probab=97.96  E-value=4e-06  Score=59.82  Aligned_cols=35  Identities=34%  Similarity=0.852  Sum_probs=32.0

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhh
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD   48 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~   48 (108)
                      ++++.|+||...|.+|+.|+|+|..|..|....+.
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence            67899999999999999999999999999876653

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

Probab=97.95  E-value=8.6e-06  Score=41.01  Aligned_cols=43  Identities=28%  Similarity=0.658  Sum_probs=21.9

Q ss_pred             cccccccccCc--eec--CCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179         19 CLVCQGILIKP--IKL--PCNHHVCLECLQRICDNSNLSCPMCRKRL   61 (108)
Q Consensus        19 C~IC~~~~~~p--~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   61 (108)
                      ||+|.+.+..-  ...  +||+.+|..|+.+.....+..||.||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            78888877421  223  68999999999999875556799999864

>KOG1002|consensus

Probab=97.94  E-value=3.6e-06  Score=61.25  Aligned_cols=52  Identities=31%  Similarity=0.705  Sum_probs=44.1

Q ss_pred             CCCCccccccccccccCceecCCCCcchHHhHHHHhh----cCCCcccccccccch
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD----NSNLSCPMCRKRLSI   63 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~~   63 (108)
                      ....+..|.+|.+.-.+++...|-|.||+.|+..+..    ..+.+||.|...++.
T Consensus       532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            3456789999999999999999999999999988765    345889999887764

>KOG1734|consensus

Probab=97.92  E-value=3.4e-06  Score=56.63  Aligned_cols=51  Identities=25%  Similarity=0.682  Sum_probs=40.3

Q ss_pred             CCCccccccccccccCce----------ecCCCCcchHHhHHHHhh-cCCCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIKPI----------KLPCNHHVCLECLQRICD-NSNLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~----------~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~   63 (108)
                      ..++-.|.||.+.+...+          .|.|+|.|...||..|-. ....+||-|++.+..
T Consensus       221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            345678999998776433          579999999999999976 334679999988765

>KOG0828|consensus

Probab=97.91  E-value=4.9e-06  Score=60.02  Aligned_cols=49  Identities=29%  Similarity=0.607  Sum_probs=38.4

Q ss_pred             CCccccccccccccC-----------------ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIK-----------------PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~-----------------p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .....|+||+....-                 =..+||.|.|...|+.+|...-+..||.||..++
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            345679999975541                 1234999999999999999966667999999876

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

Probab=97.86  E-value=1.5e-05  Score=44.00  Aligned_cols=30  Identities=30%  Similarity=0.649  Sum_probs=26.3

Q ss_pred             CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         33 PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      -|.|.|...||.+|+...+ .||++++....
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~-~CPld~q~w~~   82 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKG-VCPLDRQTWVL   82 (88)
T ss_pred             ecchHHHHHHHHHHHhhCC-CCCCCCceeEE
Confidence            5999999999999999765 59999998763

>KOG4275|consensus

Probab=97.81  E-value=2.6e-06  Score=57.71  Aligned_cols=42  Identities=31%  Similarity=0.804  Sum_probs=35.7

Q ss_pred             ccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ...|.||++...+-+.|+|||. -|..|-.+.     ..||+||+.+.
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcccc-----ccCchHHHHHH
Confidence            7789999999999999999994 688886553     25999999775

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

Probab=97.79  E-value=8e-06  Score=62.98  Aligned_cols=49  Identities=27%  Similarity=0.667  Sum_probs=38.1

Q ss_pred             CCcccccccccccc-----Cceec--CCCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179         14 PDSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNS-NLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~   62 (108)
                      ...-.|+||+.++.     -|-..  .|.|.|+..|+.+|++.+ +.+||.||..++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            34567999999877     23322  599999999999999943 467999998776

>KOG3039|consensus

Probab=97.76  E-value=1.6e-05  Score=52.79  Aligned_cols=50  Identities=24%  Similarity=0.432  Sum_probs=41.8

Q ss_pred             CCCccccccccccccCcee---c-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIKPIK---L-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~---l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ....+.||||...+.+.+.   | +|||.||..|.++.+.... .||+|..++..
T Consensus       218 ~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~pv~d~plkd  271 (303)
T KOG3039|consen  218 ASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDPVTDKPLKD  271 (303)
T ss_pred             hccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-cccCCCCcCcc
Confidence            3467899999999997543   3 8999999999999998775 59999988764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.76  E-value=1.1e-05  Score=41.57  Aligned_cols=46  Identities=26%  Similarity=0.618  Sum_probs=35.7

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..+..|-.|...-...+.++|||..|..|+..+--   ..||.|..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~   50 (55)
T PF14447_consen    5 QPEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERY---NGCPFCGTPFE   50 (55)
T ss_pred             ccceeEEEccccccccccccccceeeccccChhhc---cCCCCCCCccc
Confidence            34556777777777888999999999999865432   24999999876

>KOG1645|consensus

Probab=97.76  E-value=4.8e-05  Score=53.80  Aligned_cols=48  Identities=19%  Similarity=0.588  Sum_probs=38.4

Q ss_pred             CccccccccccccCce-----ecCCCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179         15 DSVLCLVCQGILIKPI-----KLPCNHHVCLECLQRICDNS-NLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~-----~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~   62 (108)
                      ...+||||++.+..|.     .+.|||.|-.+||++|+.+. ...||.|...-.
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat   56 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT   56 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence            4568999999988664     45899999999999999732 256999987654

>KOG1493|consensus

Probab=97.75  E-value=5.9e-06  Score=45.24  Aligned_cols=45  Identities=27%  Similarity=0.606  Sum_probs=34.5

Q ss_pred             cccccccccc------------Cceec-CCCCcchHHhHHHHhhc--CCCcccccccccc
Q psy18179         18 LCLVCQGILI------------KPIKL-PCNHHVCLECLQRICDN--SNLSCPMCRKRLS   62 (108)
Q Consensus        18 ~C~IC~~~~~------------~p~~l-~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~   62 (108)
                      .|.||.-.|.            -|..+ -|.|.|...||.+|+..  +...||+||+...
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            6777776665            24444 59999999999999983  2357999998765

>KOG0825|consensus

Probab=97.63  E-value=1.4e-05  Score=60.50  Aligned_cols=49  Identities=18%  Similarity=0.351  Sum_probs=39.7

Q ss_pred             CCccccccccccccCcee---cCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIK---LPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ...-.||+|+..+.+-..   .+|+|.||..||..|.+... +||+||..+..
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq-TCPiDR~EF~~  172 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ-TCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc-cCchhhhhhhe
Confidence            556789999988775443   37999999999999998654 69999998763

>KOG4692|consensus

Probab=97.61  E-value=4.9e-05  Score=53.07  Aligned_cols=51  Identities=24%  Similarity=0.619  Sum_probs=43.0

Q ss_pred             CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .+..++-.||||.--..+.+..||+|.-|+.||.+.+-+.. .|-.|+..+.
T Consensus       417 lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv~  467 (489)
T KOG4692|consen  417 LPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK-RCFFCKTTVI  467 (489)
T ss_pred             CCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCC-eeeEecceee
Confidence            34577888999999888999999999999999999887554 5999987665

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.54  E-value=0.0002  Score=49.81  Aligned_cols=51  Identities=25%  Similarity=0.596  Sum_probs=36.7

Q ss_pred             CCCCCccccccccccccCc--ee--cCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         11 TLTPDSVLCLVCQGILIKP--IK--LPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p--~~--l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +..+++. ||+|.+.+..-  -.  .+||-..|+.|+......-+..||.||....
T Consensus        10 sedeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175          10 SEDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             ccccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            3445555 99999977622  22  3789999999998766544457999998765

>KOG1814|consensus

Probab=97.48  E-value=0.0003  Score=49.92  Aligned_cols=47  Identities=28%  Similarity=0.523  Sum_probs=34.3

Q ss_pred             CCCccccccccccccC---ceecCCCCcchHHhHHHHhh---c----CCCccccccc
Q psy18179         13 TPDSVLCLVCQGILIK---PIKLPCNHHVCLECLQRICD---N----SNLSCPMCRK   59 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~---~----~~~~CP~Cr~   59 (108)
                      ....+.|.||++...-   =+.+||+|.||+.|+..++.   +    +...||.+.-
T Consensus       181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            3457889999987653   24569999999999998876   1    2256886543

>KOG0827|consensus

Probab=97.48  E-value=6.5e-05  Score=52.90  Aligned_cols=43  Identities=21%  Similarity=0.569  Sum_probs=32.0

Q ss_pred             cccccccccccCcee---c-CCCCcchHHhHHHHhhcCC--Cccccccc
Q psy18179         17 VLCLVCQGILIKPIK---L-PCNHHVCLECLQRICDNSN--LSCPMCRK   59 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~---l-~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~   59 (108)
                      ..|.||.+.+..-.-   + .|||+|...|+..|+....  ..||.|+-
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i   53 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI   53 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence            479999655443222   3 4999999999999998432  57999993

>KOG2930|consensus

Probab=97.42  E-value=9.1e-05  Score=42.92  Aligned_cols=29  Identities=31%  Similarity=0.693  Sum_probs=25.1

Q ss_pred             CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         33 PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .|.|.|...||.+|++... .||+|.+.-.
T Consensus        80 ~CNHaFH~hCisrWlktr~-vCPLdn~eW~  108 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRN-VCPLDNKEWV  108 (114)
T ss_pred             ecchHHHHHHHHHHHhhcC-cCCCcCccee
Confidence            6999999999999999776 4999987644

>PF04641 Rtf2: Rtf2 RING-finger

Probab=97.41  E-value=0.00062  Score=46.12  Aligned_cols=51  Identities=20%  Similarity=0.406  Sum_probs=39.7

Q ss_pred             CCCCCccccccccccccC---ceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         11 TLTPDSVLCLVCQGILIK---PIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~---p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ......+.|||....|..   -+.+ +|||.|+..+|...-  ....||.|..++..
T Consensus       108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTE  162 (260)
T ss_pred             ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCcccc
Confidence            345778999999998853   2334 999999999999873  23459999999874

>KOG1941|consensus

Probab=97.39  E-value=6.3e-05  Score=53.13  Aligned_cols=48  Identities=42%  Similarity=0.763  Sum_probs=37.6

Q ss_pred             Ccccccccccccc-Cce---ecCCCCcchHHhHHHHhhc-CCCcccccccccc
Q psy18179         15 DSVLCLVCQGILI-KPI---KLPCNHHVCLECLQRICDN-SNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~-~p~---~l~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~   62 (108)
                      -++.|..|.+.+- .|-   .+||.|.|..+|+.+++.+ +..+||.||+-.+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS  416 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS  416 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence            3678999998766 333   4699999999999999874 4578999995443

>KOG3800|consensus

Probab=97.38  E-value=0.00025  Score=48.18  Aligned_cols=45  Identities=31%  Similarity=0.730  Sum_probs=35.7

Q ss_pred             ccccccc-cccCcee-c---CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         18 LCLVCQG-ILIKPIK-L---PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        18 ~C~IC~~-~~~~p~~-l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .||+|.. .+.+|-. +   +|||..|.+|+.+.+..+...||.|...+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            4899975 3445532 2   899999999999999988888999987654

>KOG4739|consensus

Probab=97.33  E-value=6e-05  Score=49.92  Aligned_cols=44  Identities=34%  Similarity=0.773  Sum_probs=31.3

Q ss_pred             ccccccccccc-Cceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         17 VLCLVCQGILI-KPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        17 ~~C~IC~~~~~-~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +-|..|...-. +|..| .|+|.||..|......   ..||.|++.+..
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~---~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP---DVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCc---cccccccceeee
Confidence            45777776544 44444 8999999999865432   269999998764

>KOG3970|consensus

Probab=97.28  E-value=0.00054  Score=45.21  Aligned_cols=48  Identities=25%  Similarity=0.598  Sum_probs=38.4

Q ss_pred             cccccccccccc--CceecCCCCcchHHhHHHHhhc-------CCCcccccccccch
Q psy18179         16 SVLCLVCQGILI--KPIKLPCNHHVCLECLQRICDN-------SNLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~--~p~~l~CgH~fC~~Ci~~~~~~-------~~~~CP~Cr~~~~~   63 (108)
                      .-.|.+|...+.  +-+.|-|-|.|.+.|+..|..+       .+..||.|..++-.
T Consensus        50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            346889988877  4566799999999999999762       34679999988763

>KOG2817|consensus

Probab=97.24  E-value=0.00023  Score=50.23  Aligned_cols=48  Identities=25%  Similarity=0.580  Sum_probs=40.0

Q ss_pred             Ccccccccccccc---CceecCCCCcchHHhHHHHhhcCC--Ccccccccccc
Q psy18179         15 DSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~   62 (108)
                      .-|.|||=.+.-.   .|+.+.|||..++.-+.+..+.+.  +.||.|-....
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~  385 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL  385 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence            4689999776544   688999999999999999998776  88999977654

>KOG1001|consensus

Probab=97.24  E-value=0.00014  Score=55.08  Aligned_cols=46  Identities=33%  Similarity=0.773  Sum_probs=39.2

Q ss_pred             cccccccccccCceecCCCCcchHHhHHHHhhcCC-Ccccccccccch
Q psy18179         17 VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN-LSCPMCRKRLSI   63 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~   63 (108)
                      ..|.||.+ ...++.++|||.||..|+...+.... ..||.||..+..
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            79999999 78888999999999999999887433 459999987764

>KOG1571|consensus

Probab=97.21  E-value=0.00029  Score=49.19  Aligned_cols=45  Identities=31%  Similarity=0.775  Sum_probs=35.2

Q ss_pred             CccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ....|.||.+..++.+.+||||.-|  |..-...  ...||+||..+..
T Consensus       304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIRL  348 (355)
T ss_pred             CCCceEEecCCccceeeecCCcEEE--chHHHhh--CCCCchhHHHHHH
Confidence            3567999999999999999999877  6654433  3459999998763

>KOG3002|consensus

Probab=97.05  E-value=0.00098  Score=46.02  Aligned_cols=48  Identities=31%  Similarity=0.612  Sum_probs=38.7

Q ss_pred             CCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ....+.+.||||.+.+..|+.- +=||.-|..|-.+.    ...||.||.++.
T Consensus        43 ~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   43 LLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV----SNKCPTCRLPIG   91 (299)
T ss_pred             ccchhhccCchhhccCcccceecCCCcEehhhhhhhh----cccCCccccccc
Confidence            3466789999999999999754 67999999997532    246999999887

>KOG0826|consensus

Probab=96.98  E-value=0.00066  Score=46.98  Aligned_cols=50  Identities=28%  Similarity=0.471  Sum_probs=40.8

Q ss_pred             CCCCccccccccccccCceecCC-CCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPC-NHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ...+.-.||||...-.+|..+.- |-.||..|+..++.+. ..||+-..+..
T Consensus       296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~-~~CPVT~~p~~  346 (357)
T KOG0826|consen  296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNY-GHCPVTGYPAS  346 (357)
T ss_pred             CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhc-CCCCccCCcch
Confidence            45567889999999999998864 9999999999999855 46997655544

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

Probab=96.91  E-value=0.0011  Score=46.49  Aligned_cols=51  Identities=25%  Similarity=0.750  Sum_probs=39.9

Q ss_pred             CCCCccccccccccccCceecCCCCcchHHhHHHHhh-cCCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~   62 (108)
                      -.++...|.||.+-+.-...+||+|..|..|..+.-. -....||.||....
T Consensus        57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            4566789999999988888899999999999876533 12246999997643

>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=96.88  E-value=0.0015  Score=33.19  Aligned_cols=42  Identities=24%  Similarity=0.695  Sum_probs=22.3

Q ss_pred             cccccccccccCceec-CCCCcchHHhHHHHhh----cCCCccccccc
Q psy18179         17 VLCLVCQGILIKPIKL-PCNHHVCLECLQRICD----NSNLSCPMCRK   59 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~   59 (108)
                      +.|||....+..|+.- .|.|.-|.+ +..++.    .+...||.|.+
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~   49 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK   49 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred             eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence            6899999999999986 799987743 233333    44578999976

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.

>KOG1940|consensus

Probab=96.71  E-value=0.0018  Score=44.08  Aligned_cols=43  Identities=26%  Similarity=0.706  Sum_probs=36.1

Q ss_pred             cccccccccccc----CceecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179         16 SVLCLVCQGILI----KPIKLPCNHHVCLECLQRICDNSNLSCPMCRK   59 (108)
Q Consensus        16 ~~~C~IC~~~~~----~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~   59 (108)
                      +..||||.+.+.    .|..++|||.....|+......+ .+||.|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            445999998766    56677999999999999888777 89999988

>KOG3161|consensus

Probab=96.68  E-value=0.00094  Score=50.06  Aligned_cols=40  Identities=33%  Similarity=0.887  Sum_probs=32.4

Q ss_pred             CCCcccccccccccc----CceecCCCCcchHHhHHHHhhcCCCccc
Q psy18179         13 TPDSVLCLVCQGILI----KPIKLPCNHHVCLECLQRICDNSNLSCP   55 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~----~p~~l~CgH~fC~~Ci~~~~~~~~~~CP   55 (108)
                      ..+.+-|+||...|.    .|+.+-|||+.|+.|++.....   +||
T Consensus         8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp   51 (861)
T KOG3161|consen    8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCP   51 (861)
T ss_pred             hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCC
Confidence            345678999987776    7999999999999999877643   477

>KOG4362|consensus

Probab=96.65  E-value=0.00079  Score=50.76  Aligned_cols=50  Identities=20%  Similarity=0.586  Sum_probs=41.5

Q ss_pred             CCCccccccccccccCceecCCCCcchHHhHHHHhh--cCCCcccccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD--NSNLSCPMCRKRLS   62 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~~~~   62 (108)
                      ....+.|+||...+..|+.+.|.|.||..|+...+.  .+...||+|+..+.
T Consensus        18 ~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   18 MQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             HhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            345789999999999999999999999999988665  22457999997665

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

Probab=96.59  E-value=0.0024  Score=38.80  Aligned_cols=50  Identities=20%  Similarity=0.539  Sum_probs=41.9

Q ss_pred             CCccccccccccccCceec----CCCCcchHHhHHHHhhcC--CCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKL----PCNHHVCLECLQRICDNS--NLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l----~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~   63 (108)
                      ....+|.||.+.-.+...|    -||-..|..|-...|+..  ...||.|+..+.+
T Consensus        78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            3678999999999988887    399999999999988833  3679999998874

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

Probab=96.55  E-value=0.00087  Score=39.04  Aligned_cols=31  Identities=32%  Similarity=0.714  Sum_probs=25.2

Q ss_pred             CCccccccccccccCceec--CCCCcchHHhHH
Q psy18179         14 PDSVLCLVCQGILIKPIKL--PCNHHVCLECLQ   44 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l--~CgH~fC~~Ci~   44 (108)
                      .++-.|++|.+.+.+.+..  ||||.|+..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            4456799999988876543  999999999975

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 [].

>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=96.40  E-value=0.0012  Score=43.99  Aligned_cols=47  Identities=38%  Similarity=0.871  Sum_probs=35.9

Q ss_pred             Ccccccccccc-ccCce-e-c--C-CCCcchHHhHHHHhhcCCCccc--cccccc
Q psy18179         15 DSVLCLVCQGI-LIKPI-K-L--P-CNHHVCLECLQRICDNSNLSCP--MCRKRL   61 (108)
Q Consensus        15 ~~~~C~IC~~~-~~~p~-~-l--~-CgH~fC~~Ci~~~~~~~~~~CP--~Cr~~~   61 (108)
                      .+-.||||... +-+|- . +  | |-|..|.+|+.+.+..+...||  -|.+-+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL   63 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL   63 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence            35579999863 33553 2 2  5 9999999999999998888899  687644

>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=96.07  E-value=0.01  Score=29.20  Aligned_cols=39  Identities=23%  Similarity=0.709  Sum_probs=23.4

Q ss_pred             cccccccccCceecC---CCCcchHHhHHHHhhcCC-Cccccc
Q psy18179         19 CLVCQGILIKPIKLP---CNHHVCLECLQRICDNSN-LSCPMC   57 (108)
Q Consensus        19 C~IC~~~~~~p~~l~---CgH~fC~~Ci~~~~~~~~-~~CP~C   57 (108)
                      |.+|.++...-+.-+   |+-.+...|+..++.... ..||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            678888888776654   998999999999998544 359987

; PDB: 3NW0_A 2CT0_A.

>KOG2114|consensus

Probab=95.90  E-value=0.0044  Score=47.79  Aligned_cols=42  Identities=31%  Similarity=0.726  Sum_probs=34.9

Q ss_pred             cccccccccccCcee-cCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         17 VLCLVCQGILIKPIK-LPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..|..|...+.-|++ ..|||.|...|++    .+...||.|+....
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~  883 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLPELR  883 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence            589999999999876 4999999999998    23457999987543

>PHA03096 p28-like protein; Provisional

Probab=95.74  E-value=0.0066  Score=41.69  Aligned_cols=44  Identities=23%  Similarity=0.353  Sum_probs=30.0

Q ss_pred             ccccccccccc-Cce------ec-CCCCcchHHhHHHHhhcC--CCcccccccc
Q psy18179         17 VLCLVCQGILI-KPI------KL-PCNHHVCLECLQRICDNS--NLSCPMCRKR   60 (108)
Q Consensus        17 ~~C~IC~~~~~-~p~------~l-~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~   60 (108)
                      -.|.||++... .+.      .| .|.|.||..|+..|....  ...||.|+..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence            56999998544 322      23 699999999999997632  2345555543

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.63  E-value=0.023  Score=35.71  Aligned_cols=51  Identities=27%  Similarity=0.527  Sum_probs=36.2

Q ss_pred             CCCCccccccccccccCceecCCC--C---cchHHhHHHHhhcC-CCcccccccccch
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPCN--H---HVCLECLQRICDNS-NLSCPMCRKRLSI   63 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~Cg--H---~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~   63 (108)
                      ....+-.|-||.+.-. +..-||.  .   ....+|+.+|+..+ ...|+.|+.++..
T Consensus         4 ~s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          4 VSLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             cCCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3455678999998754 3334554  3   33899999999843 4689999987754

>KOG1952|consensus

Probab=95.54  E-value=0.0077  Score=46.55  Aligned_cols=49  Identities=22%  Similarity=0.661  Sum_probs=38.0

Q ss_pred             CCCCcccccccccccc--Ccee--cCCCCcchHHhHHHHhhc------CCCcccccccc
Q psy18179         12 LTPDSVLCLVCQGILI--KPIK--LPCNHHVCLECLQRICDN------SNLSCPMCRKR   60 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~--~p~~--l~CgH~fC~~Ci~~~~~~------~~~~CP~Cr~~   60 (108)
                      +..+.+.|.||.+.+.  .|+-  ..|-|.|...||.+|..+      ....||.|...
T Consensus       187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            3456789999999877  3442  269999999999999873      34779999843

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

Probab=95.30  E-value=0.0084  Score=29.97  Aligned_cols=32  Identities=38%  Similarity=0.917  Sum_probs=21.9

Q ss_pred             eecCCC-CcchHHhHHHHhhcCCCcccccccccc
Q psy18179         30 IKLPCN-HHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        30 ~~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      -.+.|. |..|..|+...+..+. .||.|..+++
T Consensus        14 ~Li~C~dHYLCl~CLt~ml~~s~-~C~iC~~~LP   46 (50)
T PF03854_consen   14 GLIKCSDHYLCLNCLTLMLSRSD-RCPICGKPLP   46 (50)
T ss_dssp             SEEE-SS-EEEHHHHHHT-SSSS-EETTTTEE--
T ss_pred             CeeeecchhHHHHHHHHHhcccc-CCCcccCcCc
Confidence            345675 8899999999887665 5999999886

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.

>KOG1812|consensus

Probab=95.30  E-value=0.028  Score=40.30  Aligned_cols=48  Identities=25%  Similarity=0.621  Sum_probs=32.6

Q ss_pred             CccccccccccccCc-e---ecCCCCcchHHhHHHHhh-----cCCCcccc--cccccc
Q psy18179         15 DSVLCLVCQGILIKP-I---KLPCNHHVCLECLQRICD-----NSNLSCPM--CRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p-~---~l~CgH~fC~~Ci~~~~~-----~~~~~CP~--Cr~~~~   62 (108)
                      ...+|.||......+ .   ...|+|.||..|+.+.+.     .....||.  |...++
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~  203 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLT  203 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCC
Confidence            467899999433322 2   347999999999998876     23356774  544444

>KOG0298|consensus

Probab=95.19  E-value=0.0058  Score=49.06  Aligned_cols=46  Identities=26%  Similarity=0.586  Sum_probs=38.1

Q ss_pred             CccccccccccccC-ceecCCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179         15 DSVLCLVCQGILIK-PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRL   61 (108)
Q Consensus        15 ~~~~C~IC~~~~~~-p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   61 (108)
                      +.+.|+||.+++.+ -....|||.+|..|+..|+.... .||.|....
T Consensus      1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s-~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS-RCPICKSIK 1198 (1394)
T ss_pred             cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc-cCcchhhhh
Confidence            45689999999994 44568999999999999999775 499998543

>KOG1428|consensus

Probab=95.08  E-value=0.055  Score=44.93  Aligned_cols=51  Identities=29%  Similarity=0.789  Sum_probs=37.2

Q ss_pred             CCCCcccccccccc-cc--CceecCCCCcchHHhHHHHhhc---------CCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGI-LI--KPIKLPCNHHVCLECLQRICDN---------SNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~-~~--~p~~l~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~   62 (108)
                      ....+-.|-||+.. +.  ..+.|.|+|.|...|..+.+..         +-..||.|..++.
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            44556679999853 33  4467899999999998776552         1257999998876

>KOG2932|consensus

Probab=94.97  E-value=0.011  Score=40.95  Aligned_cols=29  Identities=41%  Similarity=1.069  Sum_probs=22.1

Q ss_pred             ecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         31 KLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        31 ~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .++|.|.||..|...-   ....||.|...+.
T Consensus       106 mIPCkHvFCl~CAr~~---~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen  106 MIPCKHVFCLECARSD---SDKICPLCDDRVQ  134 (389)
T ss_pred             ccccchhhhhhhhhcC---ccccCcCcccHHH
Confidence            5699999999997542   2346999987664

>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length

Probab=94.65  E-value=0.0026  Score=34.54  Aligned_cols=41  Identities=27%  Similarity=0.495  Sum_probs=23.1

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ++.||.|...+..- .   ||.+|..|-..+....  .||.|..++.
T Consensus         1 e~~CP~C~~~L~~~-~---~~~~C~~C~~~~~~~a--~CPdC~~~Le   41 (70)
T PF07191_consen    1 ENTCPKCQQELEWQ-G---GHYHCEACQKDYKKEA--FCPDCGQPLE   41 (70)
T ss_dssp             --B-SSS-SBEEEE-T---TEEEETTT--EEEEEE--E-TTT-SB-E
T ss_pred             CCcCCCCCCccEEe-C---CEEECccccccceecc--cCCCcccHHH
Confidence            46899999876532 1   8888999987665433  5999998775

Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.

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

Probab=94.56  E-value=0.027  Score=28.21  Aligned_cols=39  Identities=31%  Similarity=0.698  Sum_probs=23.4

Q ss_pred             cccccccccC--ceecCCCC-----cchHHhHHHHhh-cCCCccccc
Q psy18179         19 CLVCQGILIK--PIKLPCNH-----HVCLECLQRICD-NSNLSCPMC   57 (108)
Q Consensus        19 C~IC~~~~~~--p~~l~CgH-----~fC~~Ci~~~~~-~~~~~CP~C   57 (108)
                      |-||++.-.+  |...||+-     .....|+.+|+. ++...|+.|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            5688776442  45667642     457899999998 344668876

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

Probab=94.56  E-value=0.027  Score=39.15  Aligned_cols=49  Identities=24%  Similarity=0.566  Sum_probs=37.5

Q ss_pred             CCcccccccccccc---CceecCCCCcchHHhHHHHhhcCC--Ccccccccccc
Q psy18179         14 PDSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~   62 (108)
                      -..|+||+=.+.-.   .|+.+.|||..-+.-+....+.+.  +.||.|-....
T Consensus       334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~  387 (396)
T COG5109         334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSK  387 (396)
T ss_pred             cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchh
Confidence            35689998776544   688999999999998888776553  78999965443

>KOG3579|consensus

Probab=94.52  E-value=0.024  Score=38.84  Aligned_cols=36  Identities=19%  Similarity=0.575  Sum_probs=30.6

Q ss_pred             CCccccccccccccCceecCC----CCcchHHhHHHHhhc
Q psy18179         14 PDSVLCLVCQGILIKPIKLPC----NHHVCLECLQRICDN   49 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~C----gH~fC~~Ci~~~~~~   49 (108)
                      ..-|.|-+|.+.+.+-..+.|    .|.||..|-...++.
T Consensus       266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence            345899999999999887766    699999999988873

>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A

Probab=94.41  E-value=0.062  Score=29.71  Aligned_cols=48  Identities=23%  Similarity=0.604  Sum_probs=22.1

Q ss_pred             Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..-.|.||.+..-     ++...  .|+--.|+.|.+=-.+.+...||.|+..+.
T Consensus         8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk   62 (80)
T PF14569_consen    8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK   62 (80)
T ss_dssp             SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred             CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence            4457999998654     44443  688889999998766667778999997765

>KOG1100|consensus

Probab=94.38  E-value=0.022  Score=37.49  Aligned_cols=39  Identities=31%  Similarity=0.709  Sum_probs=30.6

Q ss_pred             cccccccccCceecCCCC-cchHHhHHHHhhcCCCcccccccccc
Q psy18179         19 CLVCQGILIKPIKLPCNH-HVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        19 C~IC~~~~~~p~~l~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      |-.|.+.-...+.+||.| .+|..|-..     -..||.|+....
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            889998877766779999 589999543     245999988765

>KOG3039|consensus

Probab=94.04  E-value=0.038  Score=37.20  Aligned_cols=31  Identities=13%  Similarity=0.037  Sum_probs=28.3

Q ss_pred             ccccccccccCceecCCCCcchHHhHHHHhh
Q psy18179         18 LCLVCQGILIKPIKLPCNHHVCLECLQRICD   48 (108)
Q Consensus        18 ~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~   48 (108)
                      -|.+|++-+.+||..+=||.||+.||..++-
T Consensus        45 cCsLtLqPc~dPvit~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   45 CCSLTLQPCRDPVITPDGYLFDREAILEYIL   75 (303)
T ss_pred             eeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence            4689999999999999999999999988765

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

Probab=93.98  E-value=0.041  Score=39.02  Aligned_cols=27  Identities=30%  Similarity=0.830  Sum_probs=21.2

Q ss_pred             CcchHHhHHHHhhc------------CCCcccccccccc
Q psy18179         36 HHVCLECLQRICDN------------SNLSCPMCRKRLS   62 (108)
Q Consensus        36 H~fC~~Ci~~~~~~------------~~~~CP~Cr~~~~   62 (108)
                      ...|..|+.+|+..            +...||+||+.+.
T Consensus       313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            34589999999862            3467999999886

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

>KOG1815|consensus

Probab=93.85  E-value=0.046  Score=39.83  Aligned_cols=36  Identities=25%  Similarity=0.469  Sum_probs=30.4

Q ss_pred             CCCccccccccccccC-ceecCCCCcchHHhHHHHhh
Q psy18179         13 TPDSVLCLVCQGILIK-PIKLPCNHHVCLECLQRICD   48 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~-p~~l~CgH~fC~~Ci~~~~~   48 (108)
                      ......|.||.+.+.. .+.+.|||.||..|+..++.
T Consensus        67 ~~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~  103 (444)
T KOG1815|consen   67 KKGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLG  103 (444)
T ss_pred             CCccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhh
Confidence            3556899999998885 55679999999999999876

>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=93.77  E-value=0.026  Score=34.51  Aligned_cols=33  Identities=18%  Similarity=0.423  Sum_probs=25.7

Q ss_pred             ccccccccccccC--ce-ecCCC------CcchHHhHHHHhh
Q psy18179         16 SVLCLVCQGILIK--PI-KLPCN------HHVCLECLQRICD   48 (108)
Q Consensus        16 ~~~C~IC~~~~~~--p~-~l~Cg------H~fC~~Ci~~~~~   48 (108)
                      ...|.||++.+.+  -| .++||      |.||..|+.+|.+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence            6789999998886  33 34565      6799999999943

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

>PHA02862 5L protein; Provisional

Probab=93.73  E-value=0.074  Score=32.95  Aligned_cols=45  Identities=20%  Similarity=0.614  Sum_probs=32.8

Q ss_pred             ccccccccccCceecCCCC-----cchHHhHHHHhhc-CCCcccccccccch
Q psy18179         18 LCLVCQGILIKPIKLPCNH-----HVCLECLQRICDN-SNLSCPMCRKRLSI   63 (108)
Q Consensus        18 ~C~IC~~~~~~p~~l~CgH-----~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~   63 (108)
                      .|-||.+.-.+. .-||.-     -.+..|+.+|+.. +...|+.|+.++..
T Consensus         4 iCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          4 ICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             EEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            588999875544 345542     3589999999983 34689999988764

>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.51  E-value=0.087  Score=28.73  Aligned_cols=26  Identities=23%  Similarity=0.560  Sum_probs=21.1

Q ss_pred             CCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         34 CNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        34 CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      =.|+||..|.+..+.   ..||.|+..+.
T Consensus        27 fEcTFCadCae~~l~---g~CPnCGGelv   52 (84)
T COG3813          27 FECTFCADCAENRLH---GLCPNCGGELV   52 (84)
T ss_pred             EeeehhHhHHHHhhc---CcCCCCCchhh
Confidence            357899999997764   25999999887

>KOG3268|consensus

Probab=92.96  E-value=0.11  Score=33.36  Aligned_cols=48  Identities=19%  Similarity=0.497  Sum_probs=32.4

Q ss_pred             cccccccccccc---Ccee----cCCCCcchHHhHHHHhhc-----CC-----Ccccccccccch
Q psy18179         16 SVLCLVCQGILI---KPIK----LPCNHHVCLECLQRICDN-----SN-----LSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~---~p~~----l~CgH~fC~~Ci~~~~~~-----~~-----~~CP~Cr~~~~~   63 (108)
                      ...|.||+.+--   .|-.    ..||..|..-|+..|++.     ++     ..||.|..++..
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            345667765322   2222    379999999999999972     11     359999888763

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=92.65  E-value=0.064  Score=23.43  Aligned_cols=21  Identities=24%  Similarity=0.592  Sum_probs=10.2

Q ss_pred             ccccccccccCceec-C-CCCcc
Q psy18179         18 LCLVCQGILIKPIKL-P-CNHHV   38 (108)
Q Consensus        18 ~C~IC~~~~~~p~~l-~-CgH~f   38 (108)
                      .||-|.......... | |||.|
T Consensus         2 ~CP~C~~~V~~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPESAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchhhcCcCCCCCCCC
Confidence            366666655432222 3 66654

Several members are annotated as putative helicases.

>KOG3899|consensus

Probab=92.38  E-value=0.086  Score=36.39  Aligned_cols=30  Identities=37%  Similarity=0.853  Sum_probs=23.3

Q ss_pred             CCCcchHHhHHHHhh------------cCCCcccccccccch
Q psy18179         34 CNHHVCLECLQRICD------------NSNLSCPMCRKRLSI   63 (108)
Q Consensus        34 CgH~fC~~Ci~~~~~------------~~~~~CP~Cr~~~~~   63 (108)
                      |....|.+|+.+|+.            .++.+||+||+.+..
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            455678999999985            245789999998874

>KOG2034|consensus

Probab=91.69  E-value=0.092  Score=41.05  Aligned_cols=35  Identities=34%  Similarity=0.586  Sum_probs=27.2

Q ss_pred             CCcccccccccc-ccCceec-CCCCcchHHhHHHHhh
Q psy18179         14 PDSVLCLVCQGI-LIKPIKL-PCNHHVCLECLQRICD   48 (108)
Q Consensus        14 ~~~~~C~IC~~~-~~~p~~l-~CgH~fC~~Ci~~~~~   48 (108)
                      +..-.|.+|... +..|..+ ||||.|.+.||.+...
T Consensus       815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            344579999875 4477765 9999999999987654

>KOG4185|consensus

Probab=91.66  E-value=0.024  Score=38.95  Aligned_cols=44  Identities=32%  Similarity=0.803  Sum_probs=35.3

Q ss_pred             ccccccccccc------CceecC--------CCCcchHHhHHHHhhcCCCcccccccc
Q psy18179         17 VLCLVCQGILI------KPIKLP--------CNHHVCLECLQRICDNSNLSCPMCRKR   60 (108)
Q Consensus        17 ~~C~IC~~~~~------~p~~l~--------CgH~fC~~Ci~~~~~~~~~~CP~Cr~~   60 (108)
                      ..|.||...+.      .|..+.        |||+.|..|+...+.+.+..||.|+..
T Consensus       208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~  265 (296)
T KOG4185|consen  208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS  265 (296)
T ss_pred             HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence            55888877666      355566        999999999999988666889999874

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

Probab=91.62  E-value=0.084  Score=33.17  Aligned_cols=20  Identities=25%  Similarity=0.599  Sum_probs=17.2

Q ss_pred             CccccccccccccCceecCC
Q psy18179         15 DSVLCLVCQGILIKPIKLPC   34 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~C   34 (108)
                      ++.+||||++...+.|.|-|
T Consensus         1 ed~~CpICme~PHNAVLLlC   20 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLC   20 (162)
T ss_pred             CCccCceeccCCCceEEEEe
Confidence            46789999999999998854

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.

>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]

Probab=91.22  E-value=0.19  Score=38.66  Aligned_cols=58  Identities=26%  Similarity=0.576  Sum_probs=44.0

Q ss_pred             cCCCCCCCCCccccccccccccCce----------ecCCCCcc--------------------hHHhHHHHhh-------
Q psy18179          6 CNSNNTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICD-------   48 (108)
Q Consensus         6 ~~~~~~~~~~~~~C~IC~~~~~~p~----------~l~CgH~f--------------------C~~Ci~~~~~-------   48 (108)
                      -+.++.+..|-.+|+-|++.+.+|.          .+.||..|                    |..|...+-+       
T Consensus        91 ~~~~~~I~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfH  170 (750)
T COG0068          91 GNKNTQIPPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFH  170 (750)
T ss_pred             CCcccccCCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccc
Confidence            4455677889999999999888763          24789888                    9999887654       


Q ss_pred             cCCCcccccccccch
Q psy18179         49 NSNLSCPMCRKRLSI   63 (108)
Q Consensus        49 ~~~~~CP~Cr~~~~~   63 (108)
                      .+...||.|+-.+..
T Consensus       171 AQp~aCp~CGP~~~l  185 (750)
T COG0068         171 AQPIACPKCGPHLFL  185 (750)
T ss_pred             cccccCcccCCCeEE
Confidence            234679999876654

>KOG4445|consensus

Probab=91.20  E-value=0.11  Score=36.07  Aligned_cols=50  Identities=28%  Similarity=0.701  Sum_probs=36.3

Q ss_pred             CCcccccccccccc-Cc-e-ecCCCCcchHHhHHHHhhc----------------------CCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILI-KP-I-KLPCNHHVCLECLQRICDN----------------------SNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~-~p-~-~l~CgH~fC~~Ci~~~~~~----------------------~~~~CP~Cr~~~~~   63 (108)
                      .....|.||+.=|. .| . .++|.|.|...|+.+++..                      ....||+||..+..
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            34567999987666 34 2 4599999999999887740                      12459999987754

>KOG3113|consensus

Probab=90.12  E-value=1.8  Score=29.45  Aligned_cols=49  Identities=14%  Similarity=0.175  Sum_probs=35.7

Q ss_pred             CCCCccccccccccccCce----ecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .....|+|||=.-.|..-.    ..+|||.|-.+-+.+.-  . -.|++|.+.+..
T Consensus       107 ~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--a-s~C~~C~a~y~~  159 (293)
T KOG3113|consen  107 TQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--A-SVCHVCGAAYQE  159 (293)
T ss_pred             cccceeecccccceecceEEEEEEeccceeccHHHHHHhh--h-ccccccCCcccc
Confidence            3456799999877766433    23899999988877653  2 359999998764

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=89.41  E-value=0.3  Score=25.29  Aligned_cols=42  Identities=24%  Similarity=0.563  Sum_probs=28.3

Q ss_pred             ccccccccccCc--eecCCC--CcchHHhHHHHhhcCCCcccccccccc
Q psy18179         18 LCLVCQGILIKP--IKLPCN--HHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        18 ~C~IC~~~~~~p--~~l~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .|-.|...+...  -..-|.  .+||..|....+.   ..||.|+..+.
T Consensus         7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~---~~CPNCgGelv   52 (57)
T PF06906_consen    7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN---GVCPNCGGELV   52 (57)
T ss_pred             CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc---CcCcCCCCccc
Confidence            366666655522  223344  4799999998874   25999998876

This family contains a number of conserved cysteine residues and its function is unknown.

>KOG1812|consensus

Probab=88.91  E-value=0.2  Score=35.97  Aligned_cols=36  Identities=17%  Similarity=0.402  Sum_probs=26.9

Q ss_pred             cccccccccccc-----CceecCCCCcchHHhHHHHhhcCC
Q psy18179         16 SVLCLVCQGILI-----KPIKLPCNHHVCLECLQRICDNSN   51 (108)
Q Consensus        16 ~~~C~IC~~~~~-----~p~~l~CgH~fC~~Ci~~~~~~~~   51 (108)
                      -..||+|.-.+.     +.++-.|||-||+.|...|...+.
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~  346 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNG  346 (384)
T ss_pred             cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCc
Confidence            457999987655     344557999999999988876543

>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins

Probab=88.24  E-value=0.29  Score=24.96  Aligned_cols=40  Identities=25%  Similarity=0.591  Sum_probs=22.9

Q ss_pred             CccccccccccccCceecCCCCcchHHhHHHHhh-cCCCccccccccc
Q psy18179         15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRL   61 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~   61 (108)
                      +.|.||.|.+.+...       .+..-+...-.. .....||+|...+
T Consensus         1 ~~f~CP~C~~~~~~~-------~L~~H~~~~H~~~~~~v~CPiC~~~~   41 (54)
T PF05605_consen    1 DSFTCPYCGKGFSES-------SLVEHCEDEHRSESKNVVCPICSSRV   41 (54)
T ss_pred             CCcCCCCCCCccCHH-------HHHHHHHhHCcCCCCCccCCCchhhh
Confidence            468899999854432       123334333322 2346799997643

Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.

>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression

Probab=87.93  E-value=0.86  Score=26.77  Aligned_cols=47  Identities=23%  Similarity=0.559  Sum_probs=30.0

Q ss_pred             CccccccccccccCcee--------cCC---CCcchHHhHHHHhh--------cCCCccccccccc
Q psy18179         15 DSVLCLVCQGILIKPIK--------LPC---NHHVCLECLQRICD--------NSNLSCPMCRKRL   61 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~--------l~C---gH~fC~~Ci~~~~~--------~~~~~CP~Cr~~~   61 (108)
                      ...+|..|...-.+..+        ..|   .-.||..||..+..        .....||.||..-
T Consensus         6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC   71 (105)
T PF10497_consen    6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC   71 (105)
T ss_pred             CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence            34567777764333221        235   66799999987764        2346799998743

This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].

>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=87.90  E-value=0.73  Score=23.48  Aligned_cols=25  Identities=28%  Similarity=0.902  Sum_probs=13.2

Q ss_pred             CCCCcchHHhHHHHhhcCCCcccccc
Q psy18179         33 PCNHHVCLECLQRICDNSNLSCPMCR   58 (108)
Q Consensus        33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr   58 (108)
                      .|++.||..|= -++...-..||-|.
T Consensus        26 ~C~~~FC~dCD-~fiHE~LH~CPGC~   50 (51)
T PF07975_consen   26 KCKNHFCIDCD-VFIHETLHNCPGCE   50 (51)
T ss_dssp             TTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred             CCCCccccCcC-hhhhccccCCcCCC
Confidence            59999999993 23333334699874

It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=87.50  E-value=0.08  Score=22.39  Aligned_cols=6  Identities=50%  Similarity=1.525  Sum_probs=3.2

Q ss_pred             cccccc
Q psy18179         54 CPMCRK   59 (108)
Q Consensus        54 CP~Cr~   59 (108)
                      ||.|+.
T Consensus        16 C~~CG~   21 (23)
T PF13240_consen   16 CPNCGT   21 (23)
T ss_pred             hhhhCC
Confidence            555544

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=87.25  E-value=0.66  Score=23.91  Aligned_cols=31  Identities=19%  Similarity=0.486  Sum_probs=24.1

Q ss_pred             Cccccccccccc--cCceec--CCCCcchHHhHHH
Q psy18179         15 DSVLCLVCQGIL--IKPIKL--PCNHHVCLECLQR   45 (108)
Q Consensus        15 ~~~~C~IC~~~~--~~p~~l--~CgH~fC~~Ci~~   45 (108)
                      ....|++|.+.|  .+.++.  .||-.+.+.|..+
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            345799999999  455554  5999999999764

>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit

Probab=86.85  E-value=0.93  Score=36.53  Aligned_cols=48  Identities=29%  Similarity=0.656  Sum_probs=36.6

Q ss_pred             Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +.-.|.||.+..-     +|...  .|+--.|+.|.+--.+.++..||.|+....
T Consensus        14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~   68 (1044)
T PLN02915         14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK   68 (1044)
T ss_pred             CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence            4567999998755     34433  688889999996555566778999998876

>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production

Probab=86.77  E-value=0.39  Score=27.43  Aligned_cols=37  Identities=27%  Similarity=0.740  Sum_probs=27.5

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .-.|-||...+..+     ||.||..|...    .+ .|.+|++.+.
T Consensus        44 ~~~C~~CK~~v~q~-----g~~YCq~CAYk----kG-iCamCGKki~   80 (90)
T PF10235_consen   44 SSKCKICKTKVHQP-----GAKYCQTCAYK----KG-ICAMCGKKIL   80 (90)
T ss_pred             CccccccccccccC-----CCccChhhhcc----cC-cccccCCeec
Confidence            45788888766654     88999999643    23 5999999874

This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].

>PLN02189 cellulose synthase

Probab=86.67  E-value=0.53  Score=37.80  Aligned_cols=47  Identities=21%  Similarity=0.581  Sum_probs=35.9

Q ss_pred             cccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .-.|.||.+.+.     +|...  .|+--.|+.|.+--.+.++..||.|+....
T Consensus        34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~   87 (1040)
T PLN02189         34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK   87 (1040)
T ss_pred             CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            348999998755     33332  588889999997666667778999998876

>PLN02436 cellulose synthase A

Probab=86.20  E-value=0.58  Score=37.75  Aligned_cols=47  Identities=26%  Similarity=0.675  Sum_probs=36.0

Q ss_pred             cccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .-.|.||.+..-     +|.+.  .|+--.|+.|.+--.+.++..||.|+....
T Consensus        36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~   89 (1094)
T PLN02436         36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK   89 (1094)
T ss_pred             CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            348999998764     34333  588889999997666666778999998776

>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=86.05  E-value=0.2  Score=26.74  Aligned_cols=34  Identities=18%  Similarity=0.467  Sum_probs=17.1

Q ss_pred             CCccccccccccccCcee----cCCCCcchHHhHHHHh
Q psy18179         14 PDSVLCLVCQGILIKPIK----LPCNHHVCLECLQRIC   47 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~----l~CgH~fC~~Ci~~~~   47 (108)
                      .+.-.|.+|...|.--..    -.||+.||..|.....
T Consensus         7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~   44 (69)
T PF01363_consen    7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI   44 (69)
T ss_dssp             GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred             CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence            345679999998853211    2799999999986543

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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....

>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length

Probab=86.00  E-value=0.48  Score=25.38  Aligned_cols=12  Identities=25%  Similarity=0.686  Sum_probs=9.0

Q ss_pred             cchHHhHHHHhh
Q psy18179         37 HVCLECLQRICD   48 (108)
Q Consensus        37 ~fC~~Ci~~~~~   48 (108)
                      .||+.|+.+|..
T Consensus        11 gFCRNCLskWy~   22 (68)
T PF06844_consen   11 GFCRNCLSKWYR   22 (68)
T ss_dssp             S--HHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999987

The function of this family is unknown.; PDB: 2O35_A 3FYB_B.

>KOG0825|consensus

Probab=84.51  E-value=1  Score=35.41  Aligned_cols=50  Identities=20%  Similarity=0.422  Sum_probs=35.7

Q ss_pred             CccccccccccccCce----ecC---CCCcchHHhHHHHhhc-----CCCcccccccccchh
Q psy18179         15 DSVLCLVCQGILIKPI----KLP---CNHHVCLECLQRICDN-----SNLSCPMCRKRLSIW   64 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~----~l~---CgH~fC~~Ci~~~~~~-----~~~~CP~Cr~~~~~~   64 (108)
                      +.-+|.+|...+.+|+    .++   |+|.||..||..|..+     ..-.|++|..-+..+
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW  156 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW  156 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence            3456788877777654    234   9999999999999872     234578887766654

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=84.20  E-value=0.79  Score=20.94  Aligned_cols=10  Identities=30%  Similarity=0.909  Sum_probs=7.1

Q ss_pred             CCcccccccc
Q psy18179         51 NLSCPMCRKR   60 (108)
Q Consensus        51 ~~~CP~Cr~~   60 (108)
                      ...||.|+..
T Consensus        17 ~~~CP~Cg~~   26 (33)
T cd00350          17 PWVCPVCGAP   26 (33)
T ss_pred             CCcCcCCCCc
Confidence            4569999764

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>KOG4718|consensus

Probab=84.10  E-value=0.62  Score=30.78  Aligned_cols=46  Identities=24%  Similarity=0.585  Sum_probs=36.0

Q ss_pred             ccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .-.|.+|..+...-+.. .||-.+...|+.+.+.... .||.|+.-.+
T Consensus       181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~-~cphc~d~w~  227 (235)
T KOG4718|consen  181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRD-ICPHCGDLWT  227 (235)
T ss_pred             HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccC-cCCchhcccC
Confidence            34799999987766655 6888889999999998754 5999976544

>KOG2169|consensus

Probab=83.64  E-value=2  Score=33.02  Aligned_cols=68  Identities=24%  Similarity=0.434  Sum_probs=45.1

Q ss_pred             CCCCccccccccccccCcee-cCCCCcchHHhHHHHhh---cCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179         12 LTPDSVLCLVCQGILIKPIK-LPCNHHVCLECLQRICD---NSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY   86 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~   86 (108)
                      ...--|.|+|....+.-|.. ..|.|.-|.+=..-...   .....||+|.+...       ...+.++..+..++...
T Consensus       302 ~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~-------~e~l~iD~~~~~iL~~~  373 (636)
T KOG2169|consen  302 SLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP-------FEGLIIDGYFLNILQSC  373 (636)
T ss_pred             cceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc-------ccchhhhHHHHHHHhhc
Confidence            34446889999888887665 47888766543321111   23477999988776       45677777777777644

>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;

Probab=82.81  E-value=0.8  Score=23.31  Aligned_cols=31  Identities=16%  Similarity=0.351  Sum_probs=21.4

Q ss_pred             ccccccccccC----ceecCCCCcchHHhHHHHhh
Q psy18179         18 LCLVCQGILIK----PIKLPCNHHVCLECLQRICD   48 (108)
Q Consensus        18 ~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~   48 (108)
                      .|.+|...|.-    ..-..||+.||..|......
T Consensus         4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~   38 (57)
T cd00065           4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP   38 (57)
T ss_pred             cCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence            57888775552    22237999999999875543

>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []

Probab=81.77  E-value=0.3  Score=33.61  Aligned_cols=47  Identities=17%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             CCCccccccccccccCceecCC-----CCcchHHhHHHHhhcCCCcccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPC-----NHHVCLECLQRICDNSNLSCPMCRKR   60 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~C-----gH~fC~~Ci~~~~~~~~~~CP~Cr~~   60 (108)
                      .+..-.||||.....-.+...=     .+.+|..|-..|-... ..||.|...
T Consensus       169 ~w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-~~Cp~Cg~~  220 (290)
T PF04216_consen  169 GWQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-IKCPYCGNT  220 (290)
T ss_dssp             -TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-TS-TTT---
T ss_pred             CccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-CCCcCCCCC
Confidence            4456799999987654443322     3567999999987654 458888754

The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.

>KOG0309|consensus

Probab=81.36  E-value=1.1  Score=35.07  Aligned_cols=40  Identities=18%  Similarity=0.453  Sum_probs=29.3

Q ss_pred             ccccccccccccCc--eecCCCCcchHHhHHHHhhcCCCcccc
Q psy18179         16 SVLCLVCQGILIKP--IKLPCNHHVCLECLQRICDNSNLSCPM   56 (108)
Q Consensus        16 ~~~C~IC~~~~~~p--~~l~CgH~fC~~Ci~~~~~~~~~~CP~   56 (108)
                      .+.|.||.-...--  +...|||....+|...|+..+. .||.
T Consensus      1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd-~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGD-VCPS 1069 (1081)
T ss_pred             eeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCC-cCCC
Confidence            45677776554432  2347999999999999999765 5885

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

Probab=81.33  E-value=2.4  Score=34.48  Aligned_cols=48  Identities=25%  Similarity=0.663  Sum_probs=36.1

Q ss_pred             Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..-.|.||.+..-     +|.+.  .|+--.|+.|.+==.+.++..||.|+....
T Consensus        16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk   70 (1079)
T PLN02638         16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK   70 (1079)
T ss_pred             CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence            3458999998755     34433  688889999996555566778999998776

>KOG2462|consensus

Probab=80.90  E-value=0.92  Score=31.11  Aligned_cols=50  Identities=24%  Similarity=0.602  Sum_probs=33.1

Q ss_pred             CCccccccccccccC-c--------eecCCCCcchHHhHH-HHhhcC---------CCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIK-P--------IKLPCNHHVCLECLQ-RICDNS---------NLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~-p--------~~l~CgH~fC~~Ci~-~~~~~~---------~~~CP~Cr~~~~~   63 (108)
                      ..-+.|++|...+.. |        -+|+|.-.+|..=+. .|+-++         .+.||.|++.+..
T Consensus       159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD  227 (279)
T KOG2462|consen  159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD  227 (279)
T ss_pred             cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence            456789999887762 1        235666666655554 365432         4789999998874

>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1

Probab=80.67  E-value=1.7  Score=22.94  Aligned_cols=33  Identities=15%  Similarity=0.333  Sum_probs=23.6

Q ss_pred             ccccccccccccCc----eecCCCCcchHHhHHHHhh
Q psy18179         16 SVLCLVCQGILIKP----IKLPCNHHVCLECLQRICD   48 (108)
Q Consensus        16 ~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~~~   48 (108)
                      .-.|..|...|.--    .-..||..||..|......
T Consensus        10 ~~~C~~C~~~F~~~~rk~hCr~CG~i~C~~C~~~~~~   46 (68)
T smart00064       10 VSNCMGCGKEFNLTKRRHHCRNCGRIFCSKCSSKKAP   46 (68)
T ss_pred             CCcCcccCccccCcccccccccCCCCcChHHcCCeee
Confidence            35799998766622    1237999999999876543

The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the

>PLN02195 cellulose synthase A

Probab=80.26  E-value=1.6  Score=35.06  Aligned_cols=46  Identities=17%  Similarity=0.451  Sum_probs=34.8

Q ss_pred             ccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         17 VLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        17 ~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      -.|.||.+..-     +|...  .|+--.|+.|.+==.+.++..||.|+....
T Consensus         7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk   59 (977)
T PLN02195          7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD   59 (977)
T ss_pred             ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence            36999998554     44443  699999999996545566778999998776

>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A

Probab=80.05  E-value=0.17  Score=30.26  Aligned_cols=46  Identities=22%  Similarity=0.460  Sum_probs=28.9

Q ss_pred             Ccccccccccccc---Cc-e-ecCCCCcchHHhHHHHhhcCCCcccccccc
Q psy18179         15 DSVLCLVCQGILI---KP-I-KLPCNHHVCLECLQRICDNSNLSCPMCRKR   60 (108)
Q Consensus        15 ~~~~C~IC~~~~~---~p-~-~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~   60 (108)
                      ++-.|.+|...|.   ++ . -..|+|.+|..|-..........|.+|.+.
T Consensus        53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~  103 (118)
T PF02318_consen   53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQ  103 (118)
T ss_dssp             CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHHH
T ss_pred             CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHHH
Confidence            5668999987543   22 2 237999999999655222334568888664

The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	108
3l11_A	115	Crystal Structure Of The Ring Domain Of Rnf168 Leng		2e-14
1z6u_A	150	Np95-Like Ring Finger Protein Isoform B [homo Sapie		3e-05
3fl2_A	124	Crystal Structure Of The Ring Domain Of The E3 Ubiq		2e-04

>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168 Length = 115

Iteration: 1
 Score = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 49/82 (59%)
Query: 19  CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
           C +C  IL++P+ LPCNH +C  C Q   + ++L CP CR+R+S W R +   + L++  
Sbjct: 18  CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVE 77
Query: 79  LWNQIQKYYKKEVDQKLFDQDD 100
           LW  IQK+Y +E   +   Q+ 
Sbjct: 78  LWTIIQKHYPRECKLRASGQES 99

>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens] Length = 150

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 16  SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
           S +C+ CQ ++ +P+   C H+VC +CLQR       SCP CR  L 
Sbjct: 78  SFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLG 124

>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin- Protein Ligase Uhrf1 Length = 124

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 26/48 (54%)
Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
          ++  C+ CQ ++ +PI   C H+VC +CL R       SCP CR  L 
Sbjct: 51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	108
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	9e-20
1z6u_A	150	NP95-like ring finger protein isoform B; structura	5e-12
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-11
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	4e-09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-08
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	4e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-08
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	1e-07
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	1e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-07
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	2e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-07
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	5e-07
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	3e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	4e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	4e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	8e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	9e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	9e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-05
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-04
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-04
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	6e-04

>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 = 76.5 bits (188), Expect = 9e-20
 Identities = 30/77 (38%), Positives = 47/77 (61%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
          C +C  IL++P+ LPCNH +C  C Q   + ++L CP CR+R+S W R +   + L++  
Sbjct: 18 CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVE 77

Query: 79 LWNQIQKYYKKEVDQKL 95
          LW  IQK+Y +E   + 
Sbjct: 78 LWTIIQKHYPRECKLRA 94

>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 = 57.3 bits (138), Expect = 5e-12
 Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 6/80 (7%)

Query: 15  DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLL 74
            S +C+ CQ ++ +P+   C H+VC +CLQR       SCP CR  L       +++ ++
Sbjct: 77  QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLG------QNYIMI 130

Query: 75  IDENLWNQIQKYYKKEVDQK 94
            +E L   +  ++      +
Sbjct: 131 PNEILQTLLDLFFPGYSKGR 150

>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 = 55.0 bits (132), Expect = 3e-11
 Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 6/80 (7%)

Query: 15  DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLL 74
           ++  C+ CQ ++ +PI   C H+VC +CL R       SCP CR  L       + +++ 
Sbjct: 51  ETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG------RSYAMQ 104

Query: 75  IDENLWNQIQKYYKKEVDQK 94
           +++ L   + + +    + +
Sbjct: 105 VNQPLQTVLNQLFPGYGNGR 124

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

 Score = 48.2 bits (115), Expect = 4e-09
 Identities = 12/49 (24%), Positives = 21/49 (42%)

Query: 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
           D   C  C  +L  P +  C H  C  C+  +  +S+  C  C++ + 
Sbjct: 13 EDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIV 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 = 50.1 bits (119), Expect = 1e-08
 Identities = 14/62 (22%), Positives = 21/62 (33%)

Query: 1   MDNEDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKR 60
           +  E       +     LC +C          PC H +C  CL    ++    CP CR  
Sbjct: 317 VTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 376

Query: 61  LS 62
           + 
Sbjct: 377 IK 378

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

 Score = 46.7 bits (111), Expect = 2e-08
 Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
          C +C    + P+ LPC H  C  C++         C +CR+ + 
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGK-RCALCRQEIP 60

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

 Score = 46.7 bits (111), Expect = 4e-08
 Identities = 11/49 (22%), Positives = 21/49 (42%)

Query: 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
               C +C   L + ++ PC H  C  C+ +   ++   CP+  + L 
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

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

 Score = 47.0 bits (111), Expect = 4e-08
 Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 7/76 (9%)

Query: 19  CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
           C++C    I+ + L C H  C  C+          CP+CRK +     ++K +SL++D N
Sbjct: 67  CIICSEYFIEAVTLNCAHSFCSYCINEWMKRKI-ECPICRKDI-----KSKTYSLVLD-N 119

Query: 79  LWNQIQKYYKKEVDQK 94
             N++      EV ++
Sbjct: 120 CINKMVNNLSSEVKER 135

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

 Score = 44.7 bits (106), Expect = 1e-07
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 6/60 (10%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN-----LSCPMCRKRLSIW-LRRN 68
          + V C +C  +L +P+   CNH  C  C+    +++       +CP+CR       L+ N
Sbjct: 18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPN 77

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

 Score = 44.6 bits (106), Expect = 1e-07
 Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 6/58 (10%)

Query: 17 VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS-----NLSCPMCRKRLSIW-LRRN 68
          V C +C  +L +P+ L C H  C  CL      S       SCP+CR       +R N
Sbjct: 20 VTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPN 77

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

 Score = 44.3 bits (105), Expect = 1e-07
 Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 2/48 (4%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKR 60
          + V+C +C  IL KP+ + C H+ CL+C+ +I + S     CP+C+  
Sbjct: 19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTS 66

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

 Score = 43.5 bits (103), Expect = 2e-07
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63
          C  CQ     P  LPC H +C  CL+     S + CP+C+    +
Sbjct: 9  CQQCQAEAKCPKLLPCLHTLCSGCLEA----SGMQCPICQAPWPL 49

>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 = 44.7 bits (106), Expect = 2e-07
 Identities = 11/57 (19%), Positives = 28/57 (49%), Gaps = 3/57 (5%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLSIW-LRRN 68
            + C +C  ++ +P+   C+H  C  C+ ++ +       CP+C+  ++   L+ +
Sbjct: 20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQES 76

>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 = 44.7 bits (105), Expect = 3e-07
 Identities = 13/49 (26%), Positives = 19/49 (38%)

Query: 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
              LC  C+ +L +P +  C H  C  CL  I  +   +C  C     
Sbjct: 29 EAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI 77

>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 = 45.0 bits (106), Expect = 4e-07
 Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 15  DSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSIW--LRRNKDF 71
             ++C +C  +L   +    C H  C +C+     + N  CP CRK+L     LR + +F
Sbjct: 53  SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNF 112

Query: 72  SLLID 76
             LI 
Sbjct: 113 DALIS 117

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

 Score = 42.6 bits (101), Expect = 5e-07
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 7/61 (11%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN------LSCPMCRKRLSIW-LRR 67
          + V C +C  +L +P+ L C H +C  C+      +        SCP+C    S   L+ 
Sbjct: 11 EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQA 70

Query: 68 N 68
          N
Sbjct: 71 N 71

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

 Score = 40.4 bits (95), Expect = 3e-06
 Identities = 17/45 (37%), Positives = 28/45 (62%), Gaps = 2/45 (4%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN--LSCPMC 57
          + V+C +C  IL KP+ + C H+ CL+C+ +I + S     CP+C
Sbjct: 19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

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

 Score = 40.0 bits (94), Expect = 4e-06
 Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 2/45 (4%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN--LSCPMC 57
              C VC   L +P+ + C H+ C  C+ R  ++      CP+C
Sbjct: 14 VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

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

 Score = 40.5 bits (95), Expect = 4e-06
 Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 13 TPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQR-ICDNSNLSCPMCRKRLS 62
           PD +LCL+C+ I+   + +P C +  C EC++  + ++   +CP C +   
Sbjct: 12 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV 63

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

 Score = 40.7 bits (95), Expect = 8e-06
 Identities = 15/48 (31%), Positives = 21/48 (43%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
           S+ C +C+ IL  P++  C H  C  C+ R        CP CR    
Sbjct: 22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

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

 Score = 40.1 bits (94), Expect = 8e-06
 Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 13 TPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQR-ICDNSNLSCPMCRKRLSIW--LRRN 68
           PD +LCL+C+ I+   + +P C +  C EC++  + ++   +CP C +       L  N
Sbjct: 10 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIAN 69

Query: 69 KDFSLLIDE 77
          K     ++ 
Sbjct: 70 KFLRQAVNN 78

>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 = 41.2 bits (96), Expect = 9e-06
 Identities = 11/49 (22%), Positives = 21/49 (42%)

Query: 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
               C +C   L + ++ PC H  C  C+ +   ++   CP+  + L 
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL 64

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

 Score = 39.4 bits (92), Expect = 9e-06
 Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 15 DSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
            +LC +C+G LI    +  C H  C  C+ R    SN  CP C   + 
Sbjct: 14 PYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSN-RCPKCNIVVH 61

>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 = 40.2 bits (94), Expect = 1e-05
 Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 5/74 (6%)

Query: 15 DSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSL 73
            ++C++C G  I    +  C H  C  C+ R  + S   CP+C  ++    +     ++
Sbjct: 14 PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSK-YCPICDVQVH---KTRPLLNI 69

Query: 74 LIDENLWNQIQKYY 87
            D+ L + + K  
Sbjct: 70 RSDKTLQDIVYKLV 83

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

 Score = 39.1 bits (91), Expect = 1e-05
 Identities = 10/60 (16%), Positives = 21/60 (35%), Gaps = 1/60 (1%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDEN 78
          C +C+     P+   C H+ C  C       +   C +C +         K+    + ++
Sbjct: 18 CFICRQAFQNPVVTKCRHYFCESCALEHFRATP-RCYICDQPTGGIFNPAKELMAKLQKS 76

>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 = 39.5 bits (92), Expect = 1e-05
 Identities = 14/66 (21%), Positives = 23/66 (34%), Gaps = 2/66 (3%)

Query: 14 PDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSI-WLRRNKDF 71
           +   C +C   L      P C+   C  C++R        CP CR  L +  L   +  
Sbjct: 20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWA 79

Query: 72 SLLIDE 77
            +  +
Sbjct: 80 EEVTQQ 85

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

 Score = 38.9 bits (91), Expect = 2e-05
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 6/47 (12%)

Query: 19 CLVC----QGILIKPIKLPCNHHVCLECLQRICDNS--NLSCPMCRK 59
          C +C        ++P  L C H +C +CL+++  +S   + CP C K
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64

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

 Score = 37.0 bits (85), Expect = 1e-04
 Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 4/57 (7%)

Query: 7  NSNNTLTPDSVLCLVCQGIL----IKPIKLPCNHHVCLECLQRICDNSNLSCPMCRK 59
          + +     D V C +C   L    I      C + +C  C  RI  + N  CP CRK
Sbjct: 2  SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

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

 Score = 36.4 bits (84), Expect = 1e-04
 Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 8/63 (12%)

Query: 7  NSNNTLTPDSVLCLVCQGILIKPIK-------LPCNHHVCLECLQRICDNSNLSCPMCRK 59
          +        +V C +C     + ++         C H  C +CL+    N+N +CP CRK
Sbjct: 6  SGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRK 64

Query: 60 RLS 62
          +++
Sbjct: 65 KIN 67

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

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 3/58 (5%)

Query: 14 PDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSIW-LRRNK 69
           D + C +C       + +P C+H+ C  C+++   +    CP C   ++   L+ N+
Sbjct: 20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRK-FLSYKTQCPTCCVTVTEPDLKNNR 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 = 35.6 bits (82), Expect = 2e-04
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 8/55 (14%)

Query: 15 DSVLCLVCQGILIKPIK-------LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
           +V C +C     + ++         C H  C +CL+    N+N +CP CRK+++
Sbjct: 9  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKIN 62

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

 Score = 35.5 bits (82), Expect = 3e-04
 Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 2/53 (3%)

Query: 19 CLVCQGILI-KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKD 70
          C +C        + LPC H  C  C+ R    +  +CP+C+  +   +   + 
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-TCPLCKVPVESVVHTIES 59

>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 = 35.7 bits (82), Expect = 6e-04
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 5/64 (7%)

Query: 15 DSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSIW-LRRNKDFS 72
            + C  C  IL +P+ L  C H  C  C+          CP+C     I  L+ N+   
Sbjct: 21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT---GCPVCYTPAWIQDLKINRQLD 77

Query: 73 LLID 76
           +I 
Sbjct: 78 SMIQ 81

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	108
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.88
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.83
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.83
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.83
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.82
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.79
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.79
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.79
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.76
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.76
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.76
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.75
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.75
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.74
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.74
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.74
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.73
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.73
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.73
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.72
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.72
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.72
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.72
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.71
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.71
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.71
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.7
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.7
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.7
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.7
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.69
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.68
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.67
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.67
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.67
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.66
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.64
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.63
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.63
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.62
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.61
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.6
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.6
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.6
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.6
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.58
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.58
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.58
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.58
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.55
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.53
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.51
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.49
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.43
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.42
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.42
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.41
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.37
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.36
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.34
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.32
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.32
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.31
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.23
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.22
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	99.2
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.92
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.75
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.67
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.56
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	98.19
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.92
3nw0_A	238	Non-structural maintenance of chromosomes element	97.73
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	96.43
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	95.87
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	95.56
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	95.55
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.11
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	94.24
3mjh_B	34	Early endosome antigen 1; protein-zinc finger comp	93.31
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	91.77
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	91.72
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	90.35
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	90.13
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	90.07
1z60_A	59	TFIIH basal transcription factor complex P44 subun	89.74
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	89.64
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	88.77
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	88.7
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	88.54
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	88.22
3ttc_A	657	HYPF, transcriptional regulatory protein; Zn finge	87.02
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	86.66
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	86.25
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	86.15
1dvp_A	220	HRS, hepatocyte growth factor-regulated tyrosine k	86.04
3vth_A	761	Hydrogenase maturation factor; carbamoyltransfer,	85.74
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	85.66
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	85.62
4g9i_A	772	Hydrogenase maturation protein HYPF; zinc finger,	85.33
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	85.25
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	85.15
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	84.61
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	84.43
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	83.4
1wem_A	76	Death associated transcription factor 1; structura	83.35
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	83.28
2d8v_A	67	Zinc finger FYVE domain-containing protein 19; zfy	83.2
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	82.64
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	82.43
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	81.54
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	80.78
2o35_A	105	Hypothetical protein DUF1244; helix bundle, struct	80.6
3fyb_A	104	Protein of unknown function (DUF1244); hydrocar de	80.42

>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=99.88  E-value=6.2e-24  Score=126.11  Aligned_cols=96  Identities=32%  Similarity=0.737  Sum_probs=74.7

Q ss_pred             CCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHh
Q psy18179          8 SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYY   87 (108)
Q Consensus         8 ~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   87 (108)
                      .......+++.|+||++.+.+|++++|||+||..||.+|+..+...||.||..+..........+..+|..+.+++++++
T Consensus         7 ~~~~~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~   86 (115)
T 3l11_A            7 KDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHY   86 (115)
T ss_dssp             TTCCCCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHS
T ss_pred             ccccCCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHC
Confidence            34566778999999999999999999999999999999998766789999999874322223345667888999999999


Q ss_pred             hHHHHhhhhccchhhh
Q psy18179         88 KKEVDQKLFDQDDGVW  103 (108)
Q Consensus        88 ~~~~~~~~~~~~~~~~  103 (108)
                      +.+.+.+..+.+.+++
T Consensus        87 p~~~~~r~~~~e~e~~  102 (115)
T 3l11_A           87 PRECKLRASGQESEEV  102 (115)
T ss_dssp             HHHHHHHHHC------
T ss_pred             CHHHHHHHhhhhHHHH
Confidence            9998888777665543

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

Probab=99.83  E-value=4.2e-21  Score=109.67  Aligned_cols=78  Identities=24%  Similarity=0.625  Sum_probs=62.7

Q ss_pred             cCCCCCCCCCccccccccccccCceecC-CCCcchHHhHHHHhhcC-CCcccccccccchhhhcCCCCChHHHHHHHHHH
Q psy18179          6 CNSNNTLTPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNS-NLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQI   83 (108)
Q Consensus         6 ~~~~~~~~~~~~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~   83 (108)
                      .+++.....+++.|+||+++|.+|++++ |||+||..||..|+... ...||.||..+..      ...+..|..+.+++
T Consensus         3 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~------~~~~~~n~~l~~~i   76 (92)
T 3ztg_A            3 LGSEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS------PDALIANKFLRQAV   76 (92)
T ss_dssp             SSSSCCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCC------TTSCEECHHHHHHH
T ss_pred             CCcccccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCC------ccccCcCHHHHHHH
Confidence            3455566788999999999999999999 99999999999999743 3679999998742      23566677888888


Q ss_pred             HHHhhH
Q psy18179         84 QKYYKK   89 (108)
Q Consensus        84 ~~~~~~   89 (108)
                      +.+...
T Consensus        77 ~~~~~~   82 (92)
T 3ztg_A           77 NNFKNE   82 (92)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877554

>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=99.83  E-value=1.6e-21  Score=117.05  Aligned_cols=73  Identities=26%  Similarity=0.707  Sum_probs=62.8

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVD   92 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   92 (108)
                      .+++.|+||++.+.+|++++|||+||..||..|+..+...||.||..+..      ...+..|..+.+++++++|+..+
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~------~~~~~~n~~l~~~i~~~~p~~~~  122 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR------SYAMQVNQPLQTVLNQLFPGYGN  122 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT------TCCCCCCHHHHHHHHHHSTTTTT
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC------CCCCCCCHHHHHHHHHHcccccc
Confidence            45789999999999999999999999999999998666689999999873      24566788899999999987543

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

Probab=99.83  E-value=3.3e-21  Score=107.03  Aligned_cols=70  Identities=16%  Similarity=0.254  Sum_probs=57.4

Q ss_pred             CCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      ...+++.|+||++.|.+|++++|||+||+.||.+|+..+...||.||..+..       .++..|..+.++++.+..
T Consensus         4 ~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~-------~~l~~n~~l~~~i~~~~~   73 (78)
T 1t1h_A            4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH-------AGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS-------CCCEECTTTHHHHHHHHH
T ss_pred             CCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh-------hhCccCHHHHHHHHHHHH
Confidence            4567899999999999999999999999999999998756789999998873       344555666677766643

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

Probab=99.82  E-value=1.6e-20  Score=106.00  Aligned_cols=76  Identities=21%  Similarity=0.238  Sum_probs=63.3

Q ss_pred             CCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY   86 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~   86 (108)
                      +.......++|.||||+++|.+||+++|||+||+.||.+|+... .+||.|+..+..       .++..|..+.++++.+
T Consensus         5 e~~~~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~-~~cP~~~~~l~~-------~~l~pn~~L~~~i~~~   76 (85)
T 2kr4_A            5 EIDYSDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNS-PTDPFNRQMLTE-------SMLEPVPELKEQIQAW   76 (85)
T ss_dssp             CCCCTTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHC-SBCTTTCCBCCG-------GGCEECHHHHHHHHHH
T ss_pred             hhhhhcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcC-CCCCCCcCCCCh-------HhcchHHHHHHHHHHH
Confidence            34445667899999999999999999999999999999999854 579999998873       3566778888888888


Q ss_pred             hhHH
Q psy18179         87 YKKE   90 (108)
Q Consensus        87 ~~~~   90 (108)
                      ....
T Consensus        77 ~~~~   80 (85)
T 2kr4_A           77 MREK   80 (85)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            6543

>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=99.79  E-value=1.2e-19  Score=104.90  Aligned_cols=72  Identities=18%  Similarity=0.210  Sum_probs=61.3

Q ss_pred             CCCCCCccccccccccccCceecCCC-CcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCN-HHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      .....++|.||||+++|.+||+++|| |+||+.||.+|+... .+||.|+..+.       ...+..|..|.++++.+..
T Consensus        16 ~~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~-~~cP~~~~~l~-------~~~L~pn~~Lk~~I~~~~~   87 (98)
T 1wgm_A           16 YADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD-QTDPFNRSPLT-------MDQIRPNTELKEKIQRWLA   87 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS-CBCTTTCSBCC-------TTTSEECHHHHHHHHHHHH
T ss_pred             hhcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhC-CCCCCCCCCCC-------hhhceEcHHHHHHHHHHHH
Confidence            34456799999999999999999999 999999999999864 57999999887       3456778888898888765


Q ss_pred             H
Q psy18179         89 K   89 (108)
Q Consensus        89 ~   89 (108)
                      .
T Consensus        88 ~   88 (98)
T 1wgm_A           88 E   88 (98)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=99.79  E-value=2.9e-20  Score=114.91  Aligned_cols=73  Identities=29%  Similarity=0.714  Sum_probs=61.8

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVD   92 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   92 (108)
                      .+.+.|+||++.+.+|++++|||+||..||..|+..+...||.||..+..      ...+..|..+.++++.+++...+
T Consensus        76 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~------~~~l~~n~~l~~lv~~~~p~~~~  148 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ------NYIMIPNEILQTLLDLFFPGYSK  148 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT------TCCCCBCHHHHHHHHHHSTTTTT
T ss_pred             ccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCC------CCCCCCCHHHHHHHHHHhhHhhc
Confidence            35789999999999999999999999999999999766689999999884      22456778888999988876443

>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=99.79  E-value=9.1e-20  Score=105.70  Aligned_cols=71  Identities=21%  Similarity=0.262  Sum_probs=60.9

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      .....+++.||||+++|.+||+++|||+||+.||..|+.. ..+||.|+..+.       ..++..|..+.++++.+..
T Consensus        23 ~~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~-------~~~L~pn~~Lk~~I~~~~~   93 (100)
T 2kre_A           23 YSDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLT-------ESMLEPVPELKEQIQAWMR   93 (100)
T ss_dssp             CSSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCC-------TTSSEECHHHHHHHHHHHH
T ss_pred             hccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHc-CCCCCCCCCCCC-------hhhceECHHHHHHHHHHHH
Confidence            3455779999999999999999999999999999999985 468999999987       3466778888888887764

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

Probab=99.76  E-value=6.9e-19  Score=94.73  Aligned_cols=57  Identities=21%  Similarity=0.550  Sum_probs=49.4

Q ss_pred             cCCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179          6 CNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus         6 ~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .........+++.|+||++.+.+|+.++|||+||..||.+|+......||.||..+.
T Consensus         5 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (66)
T 2ecy_A            5 SSGFVKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIV   61 (66)
T ss_dssp             CSCSCCSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCC
T ss_pred             hhhhhhcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCC
Confidence            344455667889999999999999999999999999999999655567999999887

>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=99.76  E-value=2.5e-19  Score=112.20  Aligned_cols=72  Identities=29%  Similarity=0.591  Sum_probs=58.0

Q ss_pred             CCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179         12 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK   89 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   89 (108)
                      ...+++.|+||++.+.+|+.+ +|||+||..||..|+..+...||.||..+..      ...+..|..+.+++..+++.
T Consensus        50 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~------~~~l~~~~~l~~~i~~~~~~  122 (165)
T 2ckl_B           50 SLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS------KRSLRPDPNFDALISKIYPS  122 (165)
T ss_dssp             CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS------GGGEEECHHHHHHHHHHC--
T ss_pred             hCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC------cccCCcCHHHHHHHHHHHcc
Confidence            345678999999999999998 9999999999999999756789999998863      23455677778888777664

>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=99.76  E-value=1.5e-19  Score=104.78  Aligned_cols=50  Identities=24%  Similarity=0.671  Sum_probs=45.4

Q ss_pred             CCccccccccccccCcee-cCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIK-LPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+++.|+||++.+.+|+. ++|||+||..||.+|+......||.||..+..
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            467899999999999999 89999999999999999765679999999873

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

Probab=99.75  E-value=4e-19  Score=108.37  Aligned_cols=66  Identities=24%  Similarity=0.735  Sum_probs=52.4

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK   85 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~   85 (108)
                      .+++.|+||++.+.+|++++|||+||..||..|+... ..||.||..+...     ..+..++..+..++..
T Consensus        51 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~~-----~~~~~~~~~i~~~~~~  116 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK-IECPICRKDIKSK-----TYSLVLDNCINKMVNN  116 (138)
T ss_dssp             HHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTC-SBCTTTCCBCCCE-----EECHHHHHHHHHHHTT
T ss_pred             cccCCCcccCcccCCceECCCCCCccHHHHHHHHHcC-CcCCCCCCcCCCC-----CCccchhHHHHHHHHH
Confidence            3567899999999999999999999999999999865 5799999988631     2345566666655543

>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=99.75  E-value=6e-19  Score=103.46  Aligned_cols=73  Identities=22%  Similarity=0.539  Sum_probs=58.6

Q ss_pred             CCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179         13 TPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK   89 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   89 (108)
                      ..+++.|+||++.+.+|+++ +|||+||..||..|+..+ ..||.||..+...   .....+..|..+.++++++++.
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~---~~~~~l~~n~~l~~~i~~~~~~   85 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS-KYCPICDVQVHKT---RPLLNIRSDKTLQDIVYKLVPG   85 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSC-SBCTTTCCBSCSS---CGGGGEEECHHHHHHHHHHSTT
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhC-CcCcCCCcccccc---CcccccCcCHHHHHHHHHHhhh
Confidence            45789999999999999998 999999999999999865 5799999988731   0011345677788888887764

>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=99.74  E-value=5e-19  Score=101.55  Aligned_cols=69  Identities=23%  Similarity=0.472  Sum_probs=57.1

Q ss_pred             CCCccccccccccccCceecC-CCCcchHHhHHHHhhcC-----CCcccc--cccc-cchhhhcCCCCChHHHHHHHHHH
Q psy18179         13 TPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNS-----NLSCPM--CRKR-LSIWLRRNKDFSLLIDENLWNQI   83 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~-----~~~CP~--Cr~~-~~~~~~~~~~~~~~~~~~l~~~~   83 (108)
                      ..++|.||||+++|.+||+++ |||+||+.||..|+..+     ...||.  |+.. +.       ..++..|..|.+++
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~-------~~~L~pn~~L~~~I   76 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR-------KSDLIQDEALRRAI   76 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC-------GGGEEECHHHHHHH
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC-------HhhCcCCHHHHHHH
Confidence            467899999999999999996 99999999999999843     467999  8866 55       24567788888888


Q ss_pred             HHHhh
Q psy18179         84 QKYYK   88 (108)
Q Consensus        84 ~~~~~   88 (108)
                      +.+..
T Consensus        77 ~~~~~   81 (94)
T 2yu4_A           77 ENHNK   81 (94)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            87754

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

Probab=99.74  E-value=1.8e-18  Score=95.07  Aligned_cols=57  Identities=28%  Similarity=0.781  Sum_probs=48.7

Q ss_pred             cCCCCCCCCCccccccccccccCceecC-CCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179          6 CNSNNTLTPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNS-NLSCPMCRKRLS   62 (108)
Q Consensus         6 ~~~~~~~~~~~~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~   62 (108)
                      .+.......+++.|+||++.+.+|+.++ |||+||..||.+|+... ...||.||..+.
T Consensus         5 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A            5 SSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             CCSCCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             cccccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            3444566778999999999999999999 99999999999999854 357999999765

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

Probab=99.74  E-value=5e-20  Score=102.34  Aligned_cols=55  Identities=27%  Similarity=0.716  Sum_probs=47.8

Q ss_pred             CCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcC------CCcccccccccch
Q psy18179          9 NNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS------NLSCPMCRKRLSI   63 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~------~~~CP~Cr~~~~~   63 (108)
                      ......+++.|+||++.+.+|+.++|||+||..||.+|+...      ...||.||..+..
T Consensus         5 ~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            5 SSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             SSCCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             hHhhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            344567789999999999999999999999999999999852      5679999999873

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

Probab=99.73  E-value=4.1e-18  Score=95.11  Aligned_cols=55  Identities=16%  Similarity=0.487  Sum_probs=47.5

Q ss_pred             CCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +.......+.+.|+||++.+.+|+.++|||+||..||.+|+... ..||+||..+.
T Consensus         6 ~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~   60 (81)
T 2csy_A            6 SGGSEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRAT-PRCYICDQPTG   60 (81)
T ss_dssp             CCCSSCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHC-SBCSSSCCBCC
T ss_pred             CCCcccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCC-CcCCCcCcccc
Confidence            33445566789999999999999999999999999999999864 57999999886

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

Probab=99.73  E-value=2e-18  Score=99.76  Aligned_cols=68  Identities=18%  Similarity=0.396  Sum_probs=55.0

Q ss_pred             CCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179         14 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK   89 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   89 (108)
                      .+++.|+||++.+.+|+.+ +|||+||..||..|+..+ ..||.||..+..       .++..|..+.++++.+...
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~-------~~l~~n~~l~~~i~~~~~~   88 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK-TQCPTCCVTVTE-------PDLKNNRILDELVKSLNFA   88 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC-CBCTTTCCBCCG-------GGCEECHHHHHHHHHHHHH
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCC-CCCCCCCCcCCh-------hhCCcCHHHHHHHHHHHHH
Confidence            3568999999999999998 899999999999999865 579999998873       2345566677777766443

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

Probab=99.73  E-value=5.8e-18  Score=92.54  Aligned_cols=59  Identities=27%  Similarity=0.593  Sum_probs=50.4

Q ss_pred             cccCCCCCCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          4 EDCNSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         4 ~~~~~~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+.........+++.|+||++.+.+|+.+ +|||+||..||.+|+... ..||.||..+..
T Consensus         3 ~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~   62 (72)
T 2djb_A            3 SGSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS-NRCPKCNIVVHQ   62 (72)
T ss_dssp             CCCCCCCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHC-SSCTTTCCCCCS
T ss_pred             CcchhhHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcC-CcCCCcCcccCc
Confidence            34455666677899999999999999997 999999999999999864 579999998873

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

Probab=99.72  E-value=7.4e-18  Score=92.18  Aligned_cols=53  Identities=30%  Similarity=0.894  Sum_probs=46.5

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhc--CCCcccccccccc
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN--SNLSCPMCRKRLS   62 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~   62 (108)
                      .....+++.|+||++.+.+|+.++|||+||..||..|+..  ....||.||..+.
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCC
Confidence            3456678999999999999999999999999999999973  4467999999886

>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=99.72  E-value=3.3e-18  Score=114.24  Aligned_cols=71  Identities=13%  Similarity=0.120  Sum_probs=60.6

Q ss_pred             CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      ....+.+.||||+++|.+||+++|||+||+.||.+|+..++.+||.|+.++..       .++..|..+.++++.+..
T Consensus       203 ~~~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~-------~~l~~n~~l~~~i~~~~~  273 (281)
T 2c2l_A          203 RDIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ-------EQLIPNLAMKEVIDAFIS  273 (281)
T ss_dssp             CCCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG-------GGCEECHHHHHHHHHHHT
T ss_pred             CCCCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch-------hcCcccHHHHHHHHHHHH
Confidence            45567899999999999999999999999999999998665569999999873       356677888888887764

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

Probab=99.72  E-value=6.1e-18  Score=92.23  Aligned_cols=57  Identities=23%  Similarity=0.616  Sum_probs=49.4

Q ss_pred             cCCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          6 CNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         6 ~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .........+++.|+||++.+.+|+.++|||.||..||.+|+... ..||+||..+..
T Consensus         5 ~s~~~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~   61 (71)
T 2d8t_A            5 SSGNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG-KRCALCRQEIPE   61 (71)
T ss_dssp             CCCCCCSSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCS-SBCSSSCCBCCH
T ss_pred             CCCCcccCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCC-CcCcCcCchhCH
Confidence            344556677889999999999999999999999999999999865 579999998874

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

Probab=99.72  E-value=1.2e-17  Score=89.01  Aligned_cols=48  Identities=33%  Similarity=0.958  Sum_probs=42.2

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhc--CCCccccc
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN--SNLSCPMC   57 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~--~~~~CP~C   57 (108)
                      .....+++.|+||++.+.+|+.++|||+||..||.+|+..  ....||.|
T Consensus        14 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456778999999999999999999999999999999984  44679987

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

Probab=99.71  E-value=6.4e-19  Score=98.86  Aligned_cols=54  Identities=26%  Similarity=0.719  Sum_probs=47.2

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcC-----CCcccccccccch
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS-----NLSCPMCRKRLSI   63 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~~   63 (108)
                      .....+++.|+||++.+.+|+.++|||+||..||..|+...     ...||.||..+..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            34456789999999999999999999999999999999862     5689999998873

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

Probab=99.71  E-value=1.1e-17  Score=94.50  Aligned_cols=57  Identities=28%  Similarity=0.711  Sum_probs=49.1

Q ss_pred             CCCCCCCCCccccccccccccC----ceecCCCCcchHHhHHHHhhcC--CCcccccccccch
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIK----PIKLPCNHHVCLECLQRICDNS--NLSCPMCRKRLSI   63 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~   63 (108)
                      ........+.+.|+||++.+.+    |+.++|||+||..||.+|+...  ...||.||..+..
T Consensus         6 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            6 SGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCSCCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             ccChhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            4445667788999999999998    9999999999999999999854  4679999998864

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

Probab=99.71  E-value=9.5e-18  Score=105.95  Aligned_cols=71  Identities=13%  Similarity=0.122  Sum_probs=60.1

Q ss_pred             CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      ....+.|.||||+++|.+||+++|||+||+.||..|+..++.+||.|+..+..       .++.+|..|.++++.+..
T Consensus       101 ~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~-------~~L~pN~~Lk~~Ie~~~~  171 (179)
T 2f42_A          101 REIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ-------DQLIPNLAMKEVIDAFIQ  171 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG-------GGCEECHHHHHHHHHHHH
T ss_pred             cCCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh-------hhCcchHHHHHHHHHHHH
Confidence            34568999999999999999999999999999999998654479999998873       356677888888887753

>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=99.70  E-value=3.9e-18  Score=101.46  Aligned_cols=54  Identities=20%  Similarity=0.522  Sum_probs=48.3

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +....+++.|+||++.+.+|+.++|||+||..||..|+..+...||.||..+..
T Consensus        12 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           12 DPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             SSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             ccCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            456677899999999999999999999999999999998665579999998873

>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=99.70  E-value=6.1e-18  Score=100.48  Aligned_cols=64  Identities=28%  Similarity=0.522  Sum_probs=52.1

Q ss_pred             CCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHh
Q psy18179         14 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYY   87 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   87 (108)
                      .+++.|+||++.+.+|+++ +|||+||..||..|+.   ..||.||..+.       ..++..|..+.+++..+.
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~-------~~~~~~n~~l~~l~~~~~   84 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW-------IQDLKINRQLDSMIQLCS   84 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS-------CSSCCCCHHHHHHHHHHH
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCc-------cccccccHHHHHHHHHHH
Confidence            4689999999999999999 9999999999999987   56999999886       234455566666666543

>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=99.70  E-value=1.5e-17  Score=97.86  Aligned_cols=50  Identities=20%  Similarity=0.742  Sum_probs=44.1

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcC--CCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS--NLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~   63 (108)
                      .+.+.|+||++.+.+|+.++|||+||..||..|+...  ...||.||..+..
T Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            3468999999999999999999999999999999853  2579999998874

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

Probab=99.70  E-value=2.9e-17  Score=86.00  Aligned_cols=51  Identities=25%  Similarity=0.720  Sum_probs=43.4

Q ss_pred             CCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhc--CCCccccc
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN--SNLSCPMC   57 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~--~~~~CP~C   57 (108)
                      ........+++.|+||++.+.+|+.++|||+||..||.+|+..  ....||+|
T Consensus         6 ~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            6 SGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhHhhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3445566778999999999999999999999999999999764  45679987

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

Probab=99.69  E-value=1.1e-18  Score=97.88  Aligned_cols=54  Identities=30%  Similarity=0.708  Sum_probs=46.9

Q ss_pred             CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhc-----CCCcccccccccch
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN-----SNLSCPMCRKRLSI   63 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~-----~~~~CP~Cr~~~~~   63 (108)
                      .....+.+.|+||++.+.+|+.++|||+||..|+..|+..     +...||.||..+..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            3455678999999999999999999999999999999875     24679999998873

>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=99.68  E-value=8.3e-18  Score=102.91  Aligned_cols=52  Identities=27%  Similarity=0.618  Sum_probs=46.7

Q ss_pred             CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ....+++.|+||++++.+|++++|||+||..||.+|+..+...||.||..+.
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             ccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            4567889999999999999999999999999999999877668999999764

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

Probab=99.67  E-value=3.1e-17  Score=87.94  Aligned_cols=49  Identities=24%  Similarity=0.566  Sum_probs=42.7

Q ss_pred             Cccccccccc-cccCc----eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         15 DSVLCLVCQG-ILIKP----IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~-~~~~p----~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +++.|+||++ .+.+|    +.++|||+||..||.+|+..+...||.||..+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            4678999999 89998    4679999999999999987666789999998873

>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=99.67  E-value=3.3e-17  Score=97.10  Aligned_cols=50  Identities=30%  Similarity=0.671  Sum_probs=45.4

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+++.|+||++.+.+|+.++|||+||..||.+|+...+..||.||..+..
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            45789999999999999999999999999999998755679999999874

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

Probab=99.67  E-value=5.2e-17  Score=87.73  Aligned_cols=54  Identities=26%  Similarity=0.658  Sum_probs=46.4

Q ss_pred             CCCCCCCCccccccccccccCc-------eecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179          8 SNNTLTPDSVLCLVCQGILIKP-------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus         8 ~~~~~~~~~~~C~IC~~~~~~p-------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .......+.+.|+||++.+.+|       +.++|||.||..||.+|+... ..||+||..+.
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~   67 (69)
T 2ea6_A            7 GTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKIN   67 (69)
T ss_dssp             CCCCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC-SSCTTTCCCCC
T ss_pred             ccccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC-CCCCCCCCccC
Confidence            3445567789999999999987       788999999999999999864 47999999875

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

Probab=99.66  E-value=3.5e-17  Score=88.99  Aligned_cols=53  Identities=26%  Similarity=0.651  Sum_probs=45.3

Q ss_pred             CCCCCCccccccccccccCc-------eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         10 NTLTPDSVLCLVCQGILIKP-------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p-------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .....+++.|+||++.+.+|       +.++|||+||..||.+|+... ..||.||..+..
T Consensus         4 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   63 (71)
T 3ng2_A            4 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINH   63 (71)
T ss_dssp             --CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC-SBCTTTCCBCCC
T ss_pred             CCCCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC-CCCCCCCCccCh
Confidence            34556789999999999988       788999999999999999866 479999998873

>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=99.64  E-value=2.2e-16  Score=104.40  Aligned_cols=76  Identities=14%  Similarity=0.151  Sum_probs=60.6

Q ss_pred             ccCCCCCCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcC-CCcccc--cccccchhhhcCCCCChHHHHHHH
Q psy18179          5 DCNSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNS-NLSCPM--CRKRLSIWLRRNKDFSLLIDENLW   80 (108)
Q Consensus         5 ~~~~~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~-~~~CP~--Cr~~~~~~~~~~~~~~~~~~~~l~   80 (108)
                      |-+..+.....++.||||+++|.+||+. .|||+||+.||..|+..+ ...||.  |+..+.       ..++.+|..|.
T Consensus       170 DDDI~v~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~-------~~dL~pN~~L~  242 (267)
T 3htk_C          170 EDDLQIEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS-------MRDFVRDPIME  242 (267)
T ss_dssp             SSCCCCCSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEEC-------GGGEEECHHHH
T ss_pred             CccceecCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCc-------hhhCCcCHHHH
Confidence            3344445567899999999999999985 999999999999999853 468999  999876       34566778787


Q ss_pred             HHHHHHh
Q psy18179         81 NQIQKYY   87 (108)
Q Consensus        81 ~~~~~~~   87 (108)
                      ++++.+.
T Consensus       243 ~lve~~k  249 (267)
T 3htk_C          243 LRCKIAK  249 (267)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777653

>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=99.63  E-value=1.2e-16  Score=100.38  Aligned_cols=55  Identities=20%  Similarity=0.494  Sum_probs=48.7

Q ss_pred             CCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          9 NNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+....+++.|+||++++.+|+.++|||+||..||.+|+..+...||.||..+..
T Consensus        11 ~~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           11 FDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             ESSCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hccCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            3456778899999999999999999999999999999998655579999998874

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

Probab=99.63  E-value=3.2e-16  Score=86.85  Aligned_cols=53  Identities=32%  Similarity=0.611  Sum_probs=43.7

Q ss_pred             CCCCCcccccccccccc--CceecC--CCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         11 TLTPDSVLCLVCQGILI--KPIKLP--CNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~--~p~~l~--CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ....+++.||||++.+.  +++.++  |||+||..|+.+++......||.||+.+..
T Consensus         6 ~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~   62 (78)
T 1e4u_A            6 DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   62 (78)
T ss_dssp             CCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSS
T ss_pred             cccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCC
Confidence            34578899999999885  455555  999999999999987666789999998874

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

Probab=99.62  E-value=1.9e-16  Score=85.95  Aligned_cols=58  Identities=24%  Similarity=0.647  Sum_probs=48.7

Q ss_pred             cccCCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          4 EDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         4 ~~~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +.....+....+.+.|+||++.+.+ +.++|||.||..||.+|+.. ...||.||..+..
T Consensus         3 ~~~~~~~~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   60 (70)
T 2ecn_A            3 SGSSGRVKQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTG   60 (70)
T ss_dssp             CCSSCCCCCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCC-CSSCHHHHHCTTC
T ss_pred             chhhhhhhcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHC-cCcCCCcCCcccC
Confidence            3444555667788999999999999 88999999999999999985 4579999998873

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

Probab=99.61  E-value=6.8e-16  Score=85.36  Aligned_cols=56  Identities=29%  Similarity=0.545  Sum_probs=45.9

Q ss_pred             CCCCCCCCCccccccccccccCc---eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +.......+++.|+||++.|..+   +.++|||.||..||.+|+... ..||+||..+..
T Consensus         6 s~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   64 (78)
T 2ect_A            6 SGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH-DSCPVCRKSLTG   64 (78)
T ss_dssp             CCCCTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT-CSCTTTCCCCCC
T ss_pred             CCCcccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC-CcCcCcCCccCC
Confidence            33445567789999999999866   446999999999999999865 579999999874

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

Probab=99.60  E-value=1.5e-16  Score=82.93  Aligned_cols=47  Identities=30%  Similarity=0.721  Sum_probs=41.2

Q ss_pred             CCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..+++.|+||++.+.+|+.++|||+||..|+..|    ...||.||+.+..
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHccC----CCCCCcCCcEeec
Confidence            3567899999999999999999999999999773    4579999998874

>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=99.60  E-value=4.9e-16  Score=80.45  Aligned_cols=48  Identities=25%  Similarity=0.593  Sum_probs=41.5

Q ss_pred             CCccccccccccccC----ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIK----PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .++..|+||++.+.+    ++.++|||.||..||.+|+... ..||+||..+.
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            356789999999865    6778999999999999999876 57999998764

>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=99.60  E-value=1.3e-15  Score=82.43  Aligned_cols=54  Identities=26%  Similarity=0.578  Sum_probs=44.4

Q ss_pred             CCCCCCCcccccccccccc---CceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          9 NNTLTPDSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +.....++..|+||++.+.   .++.++|||.||..||..|+.... .||+||..+..
T Consensus         7 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-~CP~Cr~~~~~   63 (69)
T 2kiz_A            7 EGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK-KCPICRVDIEA   63 (69)
T ss_dssp             TCCSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCS-BCTTTCSBSCS
T ss_pred             CcCcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCC-CCcCcCccccC
Confidence            3345566789999999885   456789999999999999998764 69999998873

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

Probab=99.60  E-value=3.3e-16  Score=83.38  Aligned_cols=48  Identities=29%  Similarity=0.713  Sum_probs=42.5

Q ss_pred             CccccccccccccCc-------eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         15 DSVLCLVCQGILIKP-------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p-------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +++.|+||++.+.+|       +.++|||.||..|+.+|+... ..||.||..+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC-SBCTTTCCBCTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC-CCCCCCCccCCc
Confidence            568899999999987       778999999999999999874 579999998873

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

Probab=99.58  E-value=1.6e-15  Score=83.03  Aligned_cols=55  Identities=24%  Similarity=0.462  Sum_probs=45.6

Q ss_pred             CCCCCCCCccccccccccccCceec---CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179          8 SNNTLTPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus         8 ~~~~~~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..+....++..|+||++.+..+..+   +|||.||..||.+|+.... .||+||..+..
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~-~CP~Cr~~~~~   64 (74)
T 2ep4_A            7 GKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRK-VCPLCNMPVLQ   64 (74)
T ss_dssp             SCCCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCS-BCTTTCCBCSS
T ss_pred             cccccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCC-cCCCcCccccc
Confidence            3445566788999999999876554   9999999999999998664 79999998864

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

Probab=99.58  E-value=1.2e-15  Score=78.99  Aligned_cols=48  Identities=33%  Similarity=0.681  Sum_probs=41.4

Q ss_pred             CCccccccccccccC---ceecC-CCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIK---PIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +++..|+||++.+.+   ++.++ |||.||..||.+|+... ..||.||..+.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC-CSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcC-CcCcCCCCEeE
Confidence            467789999999987   77787 99999999999999865 57999998764

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

Probab=99.58  E-value=1.4e-15  Score=86.54  Aligned_cols=50  Identities=26%  Similarity=0.618  Sum_probs=43.5

Q ss_pred             CCCCccccccccccccC---ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGILIK---PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ...++..|+||++.+..   ++.++|||.||..||..|+... ..||+||..+.
T Consensus        36 ~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~   88 (91)
T 2l0b_A           36 AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS-GTCPVCRCMFP   88 (91)
T ss_dssp             SSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTT-CBCTTTCCBSS
T ss_pred             ccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcC-CcCcCcCccCC
Confidence            45677899999999886   7778999999999999999865 47999999876

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

Probab=99.58  E-value=1.1e-15  Score=82.39  Aligned_cols=49  Identities=24%  Similarity=0.632  Sum_probs=42.4

Q ss_pred             CCccccccccccccCc-eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKP-IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p-~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..+..|+||++.+.+| +.++|||.||..|+.+|+..+ ..||.||..+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN-PTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS-CSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCc-CcCcCCChhhHh
Confidence            4567899999999997 677999999999999999865 479999998763

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

Probab=99.55  E-value=2.3e-15  Score=82.65  Aligned_cols=49  Identities=29%  Similarity=0.712  Sum_probs=42.7

Q ss_pred             CCCccccccccccccCc---eecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         13 TPDSVLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..++..|+||++.+..+   +.++|||.||..||.+|+... ..||+||..+.
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~-~~CP~Cr~~~~   71 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN-RTCPICRADSG   71 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC-SSCTTTCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC-CcCcCcCCcCC
Confidence            44678999999999877   667999999999999999865 46999999876

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

Probab=99.53  E-value=2.6e-15  Score=90.26  Aligned_cols=50  Identities=28%  Similarity=0.702  Sum_probs=44.1

Q ss_pred             CCCccccccccccccCc-------eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIKP-------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p-------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..+++.|+||++.+.+|       +.++|||+||..||.+|+... ..||.||+.+..
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~   60 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINH   60 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC-SBCTTTCCBCTT
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhC-CCCCCCCCcCcc
Confidence            35678999999999998       889999999999999999865 479999998874

>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=99.51  E-value=9e-15  Score=86.19  Aligned_cols=49  Identities=24%  Similarity=0.540  Sum_probs=40.6

Q ss_pred             CccccccccccccCce------------------ecCCCCcchHHhHHHHhh----cCCCcccccccccch
Q psy18179         15 DSVLCLVCQGILIKPI------------------KLPCNHHVCLECLQRICD----NSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~------------------~l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~~   63 (108)
                      .+..|+||++.|..|.                  .++|||.||..||..|+.    .....||+||..+..
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            3468999999997764                  579999999999999995    234689999998764

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

Probab=99.49  E-value=4.8e-15  Score=81.34  Aligned_cols=45  Identities=29%  Similarity=0.793  Sum_probs=40.3

Q ss_pred             CCccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+++.|+||++.+.+|+.++|||. ||..|+..|     ..||.||..+..
T Consensus        22 ~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             ccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            346889999999999999999999 999999987     469999998863

>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=99.43  E-value=5.3e-14  Score=75.08  Aligned_cols=50  Identities=22%  Similarity=0.596  Sum_probs=43.3

Q ss_pred             CCCCccccccccccccCceec--CCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179         12 LTPDSVLCLVCQGILIKPIKL--PCNHH-VCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l--~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +..++..|+||++...+++.+  ||||. ||..|+.+|+..+ ..||+||+.+.
T Consensus         4 ~~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   56 (64)
T 2vje_A            4 PLNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRN-KPCPVCRQPIQ   56 (64)
T ss_dssp             -CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTT-CCCTTTCCCCC
T ss_pred             CCCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcC-CcCCCcCcchh
Confidence            456778999999999999987  99999 8999999998755 46999999876

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

Probab=99.42  E-value=1.3e-13  Score=76.79  Aligned_cols=50  Identities=20%  Similarity=0.592  Sum_probs=41.1

Q ss_pred             CCCccccccccccccC--------------ceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIK--------------PIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~--------------p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ..++..|+||++.|.+              ++.+ +|||.|+..||.+|+.... +||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~~~~   76 (81)
T 2ecl_A           12 DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNN-RCPLCQQDWVV   76 (81)
T ss_dssp             SCCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCC-BCTTTCCBCCE
T ss_pred             cCCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCC-CCCCcCCCcch
Confidence            3457789999999976              4455 5999999999999998764 79999998763

>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=99.42  E-value=9.3e-14  Score=96.59  Aligned_cols=48  Identities=27%  Similarity=0.612  Sum_probs=43.2

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ...|+||++.+.+|+.++|||.||..|+..|+......||.||..+..
T Consensus       332 ~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            379999999999999999999999999999998445679999998874

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

Probab=99.41  E-value=5.4e-14  Score=77.25  Aligned_cols=44  Identities=30%  Similarity=0.813  Sum_probs=38.6

Q ss_pred             CccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179         15 DSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +++.|+||++.+.+|+.++|||. ||..|+.+.     ..||.||..+..
T Consensus        24 ~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC-----SBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC-----CCCccCCceecC
Confidence            46789999999999999999999 999999642     469999998863

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

Probab=99.37  E-value=2.1e-13  Score=81.85  Aligned_cols=51  Identities=27%  Similarity=0.707  Sum_probs=44.8

Q ss_pred             CCCCccccccccccccCc-------eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         12 LTPDSVLCLVCQGILIKP-------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p-------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ...+.+.|+||++.+.+|       +.++|||.||..||.+|+... .+||.||..+..
T Consensus        68 i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~~  125 (133)
T 4ap4_A           68 IGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-NTCPTCRKKINH  125 (133)
T ss_dssp             CSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC-SBCTTTCCBCCG
T ss_pred             cCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC-CCCCCCCCcCCh
Confidence            456789999999999887       788999999999999999865 479999998873

>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=99.36  E-value=2.8e-13  Score=72.07  Aligned_cols=48  Identities=23%  Similarity=0.553  Sum_probs=41.9

Q ss_pred             CCccccccccccccCceec--CCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKL--PCNHH-VCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l--~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .....|+||++...+++.+  ||||. ||..|+.+++..+ ..||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG-ASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTT-CBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhC-CcCCCcCchhh
Confidence            4466899999999999887  99998 9999999998765 57999999886

>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=99.34  E-value=7.6e-13  Score=75.52  Aligned_cols=49  Identities=29%  Similarity=0.600  Sum_probs=40.5

Q ss_pred             CCccccccccccccCceec---CCCCcchHHhHHHHhhc-------CCCcccc--cccc--cc
Q psy18179         14 PDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICDN-------SNLSCPM--CRKR--LS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~~-------~~~~CP~--Cr~~--~~   62 (108)
                      .+.+.|+||++.+..|+.+   +|||.||..||..++..       ....||.  |+..  +.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~   65 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQ   65 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEEC
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccC
Confidence            3578999999999988764   79999999999998862       2358999  9988  55

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

Probab=99.32  E-value=1.4e-12  Score=70.34  Aligned_cols=48  Identities=33%  Similarity=0.728  Sum_probs=41.0

Q ss_pred             CCCCCccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ....+...|+||++...+++.+||||. ||..|+..     ...||+||..+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           10 PSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CSCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCC
T ss_pred             ccCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc-----CCCCCCCCcchhc
Confidence            345568899999999999999999999 99999984     2469999998863

>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=99.32  E-value=3.1e-13  Score=74.97  Aligned_cols=45  Identities=36%  Similarity=0.880  Sum_probs=39.7

Q ss_pred             CCccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .++..|+||++.+.+++.+||||. ||..|+..+.     .||.||..+..
T Consensus        16 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~-----~CP~Cr~~i~~   61 (79)
T 2yho_A           16 KEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQ-----SCPVCRSRVEH   61 (79)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCS-----BCTTTCCBCCE
T ss_pred             CCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhcC-----cCCCCCchhhC
Confidence            356789999999999999999999 9999998762     69999998874

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

Probab=99.31  E-value=1.9e-12  Score=75.49  Aligned_cols=47  Identities=19%  Similarity=0.463  Sum_probs=39.5

Q ss_pred             CccccccccccccCc------------------eecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILIKP------------------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p------------------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ++-.|+||++.|..+                  +.++|||.|+..||..|+... .+||+||+.+.
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            456799999998865                  336999999999999999865 57999999865

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

Probab=99.23  E-value=1.2e-11  Score=68.70  Aligned_cols=56  Identities=23%  Similarity=0.575  Sum_probs=44.8

Q ss_pred             CCCCCCCCcccccccccccc--CceecCCC-----CcchHHhHHHHhhcCC-Ccccccccccch
Q psy18179          8 SNNTLTPDSVLCLVCQGILI--KPIKLPCN-----HHVCLECLQRICDNSN-LSCPMCRKRLSI   63 (108)
Q Consensus         8 ~~~~~~~~~~~C~IC~~~~~--~p~~l~Cg-----H~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~   63 (108)
                      .......++..|.||++.+.  +++.+||.     |.|+..||.+|+.... .+||+||..+..
T Consensus         7 ~~s~~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A            7 GTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             CCCCCCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            33445566788999998774  67778996     9999999999998543 689999998864

>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=99.22  E-value=3.8e-12  Score=67.17  Aligned_cols=47  Identities=17%  Similarity=0.318  Sum_probs=41.9

Q ss_pred             ccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         16 SVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+.|||+++.+.+||.+ ++||+|++.||.+|+...+ +||..+..+..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~-~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG-NDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS-BCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCC-CCcCCcCCCCh
Confidence            47899999999999999 8999999999999998654 59999998863

>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=99.20  E-value=2.8e-12  Score=88.32  Aligned_cols=45  Identities=31%  Similarity=0.783  Sum_probs=40.3

Q ss_pred             CCccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+++.|+||++.+.+|+.+||||. ||..|+..|     ..||.||..+..
T Consensus       293 ~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC-----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC-----CcCCCCCCCccC
Confidence            356899999999999999999999 999999877     469999998863

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

Probab=99.08  E-value=1.4e-11  Score=72.89  Aligned_cols=46  Identities=20%  Similarity=0.545  Sum_probs=0.4

Q ss_pred             ccccccccccccCc-----------------ee-cCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKP-----------------IK-LPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p-----------------~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +-.|+||++.|.++                 +. ++|+|.|+..||.+|+... .+||+||..+.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~-~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREWE  111 (117)
T ss_dssp             C----------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC-CcCCCCCCeee
Confidence            45799999998763                 22 4899999999999999875 47999999865

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

Probab=98.92  E-value=3.3e-09  Score=57.79  Aligned_cols=53  Identities=21%  Similarity=0.562  Sum_probs=42.3

Q ss_pred             CCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcC-CCcccccccccch
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNS-NLSCPMCRKRLSI   63 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~   63 (108)
                      ...+..-.|.||.+++..-... .|+|.|...||.+|++.. ..+||.|+.....
T Consensus        10 ~y~~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           10 TYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             CCSSSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             hccCCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            3455667899999998854444 799999999999999854 2579999988763

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

Probab=98.75  E-value=6.5e-09  Score=59.12  Aligned_cols=46  Identities=22%  Similarity=0.532  Sum_probs=36.9

Q ss_pred             ccccccccccC-ceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         18 LCLVCQGILIK-PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        18 ~C~IC~~~~~~-p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .|++|.--+.. ...+||.|.||..|+..|.+++...||.|+..+..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            47778766553 34569999999999999987766789999988764

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

Probab=98.67  E-value=2.6e-08  Score=52.11  Aligned_cols=49  Identities=22%  Similarity=0.437  Sum_probs=39.4

Q ss_pred             CCccccccccccccCceecCCC--C---cchHHhHHHHhhc-CCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCN--H---HVCLECLQRICDN-SNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~Cg--H---~fC~~Ci~~~~~~-~~~~CP~Cr~~~~   62 (108)
                      .+.-.|.||++...++..+||.  +   .|...||.+|+.. ++.+||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            3456799999887777777854  4   8999999999984 4578999998875

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

Probab=98.56  E-value=2.3e-08  Score=68.60  Aligned_cols=51  Identities=22%  Similarity=0.542  Sum_probs=40.1

Q ss_pred             CCCccccccccccccC----cee----cCCCCcchHHhHHHHhhcC----------CCcccccccccch
Q psy18179         13 TPDSVLCLVCQGILIK----PIK----LPCNHHVCLECLQRICDNS----------NLSCPMCRKRLSI   63 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~----p~~----l~CgH~fC~~Ci~~~~~~~----------~~~CP~Cr~~~~~   63 (108)
                      .+....|+||+..+.+    |..    ..|||.|+..||.+|++..          ...||.||.+++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            3567789999998775    322    3699999999999999732          1469999999874

>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=98.19  E-value=1.6e-06  Score=66.25  Aligned_cols=73  Identities=19%  Similarity=0.235  Sum_probs=61.5

Q ss_pred             CCCCCccccccccccccCceecCCC-CcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCN-HHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK   89 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   89 (108)
                      ....++|.|||-.+++.+||+++-| ++|=+..|.+|+..+ .+||.-|.++..       ..+.+|..++..|+.|...
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~-~tdP~Tr~~L~~-------~~liPN~~Lk~~I~~w~~~  957 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSD-STDPFNRMPLKL-------EDVTPNEELRQKILCFKKQ  957 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC-CBCTTTCCBCCG-------GGCEECHHHHHHHHHHHHH
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcC-CCCCCCCCCCCc-------ccccccHHHHHHHHHHHHH
Confidence            3456899999999999999999998 699999999999874 579999998873       3566788999999998765


Q ss_pred             HH
Q psy18179         90 EV   91 (108)
Q Consensus        90 ~~   91 (108)
                      ..
T Consensus       958 ~~  959 (968)
T 3m62_A          958 KK  959 (968)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

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

Probab=97.92  E-value=4.7e-06  Score=47.54  Aligned_cols=33  Identities=30%  Similarity=0.691  Sum_probs=28.1

Q ss_pred             Ccccccccccc-ccCcee--cCCCCcchHHhHHHHh
Q psy18179         15 DSVLCLVCQGI-LIKPIK--LPCNHHVCLECLQRIC   47 (108)
Q Consensus        15 ~~~~C~IC~~~-~~~p~~--l~CgH~fC~~Ci~~~~   47 (108)
                      +++.|+||.+. +.+|+.  +.|+|+||..|+..+.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHh
Confidence            46889999975 678888  8999999999999843

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

Probab=97.73  E-value=3.2e-05  Score=50.78  Aligned_cols=48  Identities=21%  Similarity=0.622  Sum_probs=39.4

Q ss_pred             CccccccccccccCceec-CCCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179         15 DSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNS-NLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~   62 (108)
                      ....|.||.++...-+.- .|+|.|...|+..|++.. ...||.|+...+
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            366799999998866655 499999999999999753 357999998765

>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=96.43  E-value=0.0056  Score=33.31  Aligned_cols=39  Identities=18%  Similarity=0.520  Sum_probs=31.9

Q ss_pred             CCCCCCccccccccccccCceecCC----CCcchHHhHHHHhh
Q psy18179         10 NTLTPDSVLCLVCQGILIKPIKLPC----NHHVCLECLQRICD   48 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~~p~~l~C----gH~fC~~Ci~~~~~   48 (108)
                      .......+.|.+|.+.+.+-..+.|    +|.||..|-...++
T Consensus         9 ~~~~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk   51 (93)
T 2cs3_A            9 PMANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIK   51 (93)
T ss_dssp             SSCSCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHH
T ss_pred             CCCCCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHH
Confidence            3446678999999999998766644    79999999988877

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

Probab=95.87  E-value=0.0075  Score=41.86  Aligned_cols=65  Identities=22%  Similarity=0.384  Sum_probs=46.3

Q ss_pred             CCccccccccccccCceec-CCCCcchHHh--HHHHh-hcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKL-PCNHHVCLEC--LQRIC-DNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK   85 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~C--i~~~~-~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~   85 (108)
                      .-.+.|||-...+..|+.- .|.|.-|.+-  +.... ......||+|.+.+.       ..++.++..+.+++..
T Consensus       247 ~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~-------~~dL~ID~~~~~IL~~  315 (371)
T 3i2d_A          247 IMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIA-------LENLAISEFVDDILQN  315 (371)
T ss_dssp             EEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCC-------GGGEEEBHHHHHHHTT
T ss_pred             EEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccC-------HHHeeEcHHHHHHHHh
Confidence            3468999999999999975 7999966432  22221 245678999999887       3467777777776653

>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=95.56  E-value=0.014  Score=40.46  Aligned_cols=64  Identities=22%  Similarity=0.488  Sum_probs=45.9

Q ss_pred             CCccccccccccccCceec-CCCCcchHHhHHHHhh----cCCCcccccccccchhhhcCCCCChHHHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD----NSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK   85 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~   85 (108)
                      .-.+.|||-...+..|+.- .|.|.-|.+- ..|+.    .....||.|.+.+..       .++.++..+.+++..
T Consensus       213 ~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl-~sfL~~~~~~~~W~CPiC~k~~~~-------~dL~ID~~~~~IL~~  281 (360)
T 4fo9_A          213 RVSLMCPLGKMRLTIPCRAVTCTHLQCFDA-ALYLQMNEKKPTWICPVCDKKAAY-------ESLILDGLFMEILND  281 (360)
T ss_dssp             EEESBCTTTCSBCSSEEEETTCCCCCCEEH-HHHHHHHHHSCCCBCTTTCSBCCG-------GGEEEBHHHHHHHTT
T ss_pred             EEeeeCCCccceeccCCcCCCCCCCccCCH-HHHHHHHhhCCCeECCCCCcccCH-------HHeEEcHHHHHHHHh
Confidence            3468899999999999975 7999966432 22322    456789999998873       456777777776653

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=95.55  E-value=0.021  Score=31.61  Aligned_cols=48  Identities=21%  Similarity=0.586  Sum_probs=37.6

Q ss_pred             Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..-.|.||.+..-     ++...  .|+-..|+.|++--.+.++..||.|+..+.
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            4568999998744     33333  688889999998777777788999998886

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=94.24  E-value=0.051  Score=29.72  Aligned_cols=36  Identities=17%  Similarity=0.404  Sum_probs=25.8

Q ss_pred             CCCCCccccccccccccCce----ecCCCCcchHHhHHHH
Q psy18179         11 TLTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRI   46 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~   46 (108)
                      .+..+...|.+|...|.--.    --.||+.||..|....
T Consensus        16 ~pd~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           16 QEDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             CCTTTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             ccCCCCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            34455678999999876322    2379999999997543

>3mjh_B Early endosome antigen 1; protein-zinc finger complex, beta BETA alpha fold, beta HAIR RAB5A GTPase, EEA1, protein transport; HET: GTP; 2.03A {Homo sapiens}

Probab=93.31  E-value=0.0097  Score=27.11  Aligned_cols=16  Identities=19%  Similarity=0.364  Sum_probs=11.3

Q ss_pred             CccccccccccccCce
Q psy18179         15 DSVLCLVCQGILIKPI   30 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~   30 (108)
                      +.|.||||+..+..+.
T Consensus         4 EGFiCP~C~~~l~s~~   19 (34)
T 3mjh_B            4 EGFICPQCMKSLGSAD   19 (34)
T ss_dssp             EEEECTTTCCEESSHH
T ss_pred             cccCCcHHHHHcCCHH
Confidence            4578888887777653

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=91.77  E-value=0.17  Score=27.96  Aligned_cols=31  Identities=23%  Similarity=0.405  Sum_probs=22.7

Q ss_pred             ccccccccccccCc----eecCCCCcchHHhHHHH
Q psy18179         16 SVLCLVCQGILIKP----IKLPCNHHVCLECLQRI   46 (108)
Q Consensus        16 ~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~   46 (108)
                      ...|.+|...|.--    .-..||+.||..|....
T Consensus        20 ~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~   54 (90)
T 3t7l_A           20 APNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRK   54 (90)
T ss_dssp             CCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             CCcCcCCCCcccchhhCccccCCCCEECCcccCCe
Confidence            45799999877622    12379999999997654

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=91.72  E-value=0.072  Score=31.22  Aligned_cols=54  Identities=19%  Similarity=0.438  Sum_probs=29.4

Q ss_pred             CCCCCCCCCccccccccccccCce----ecCCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179          7 NSNNTLTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRL   61 (108)
Q Consensus         7 ~~~~~~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   61 (108)
                      .+.-+|..+...|..|...|.--.    --.||..||..|....... ...|-.|-..+
T Consensus        10 ~~~~~Pd~~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~-vRVC~~C~~~~   67 (120)
T 1y02_A           10 SSFPSPTGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNG-PRLCLLCQRFR   67 (120)
T ss_dssp             ----------CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-----CCEEHHHHHHH
T ss_pred             ccCCcCccccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCC-ceECHHHHHHH
Confidence            333456666778999999876322    2379999999997655432 34588775543

>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1

Probab=90.35  E-value=0.21  Score=26.47  Aligned_cols=31  Identities=23%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CccccccccccccCce----ecCCCCcchHHhHHH
Q psy18179         15 DSVLCLVCQGILIKPI----KLPCNHHVCLECLQR   45 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~   45 (108)
                      ++-.|.+|...|.--.    --.||..||..|...
T Consensus        10 ~~~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           10 DSDACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             CCSBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             cCCcccCCCCccCCccccccCCCCCEEEcccccCC
Confidence            3458999998876322    237999999999753

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

Probab=90.13  E-value=0.36  Score=25.10  Aligned_cols=47  Identities=17%  Similarity=0.365  Sum_probs=32.6

Q ss_pred             CCccccccccccccCceec--CCCCcchHHhHHHHhh---cCCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKL--PCNHHVCLECLQRICD---NSNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l--~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~~~   62 (108)
                      .....|.||.+-- + +.+  .|...|+..|+...+.   .+...||.|.....
T Consensus        10 ~~~~~C~vC~~~~-~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~   61 (66)
T 2lri_C           10 APGARCGVCGDGT-D-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVT   61 (66)
T ss_dssp             CTTCCCTTTSCCT-T-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCC
T ss_pred             CCCCCcCCCCCCC-e-EEECCCCCCceecccCCCccCcCCCCCEECccccCCCc
Confidence            3456799998642 2 233  6999999999976554   34567999976543

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=90.07  E-value=0.18  Score=27.31  Aligned_cols=34  Identities=18%  Similarity=0.393  Sum_probs=24.2

Q ss_pred             CCCccccccccccccCce----ecCCCCcchHHhHHHH
Q psy18179         13 TPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRI   46 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~   46 (108)
                      ..+...|.+|...|.--.    --.||..||..|....
T Consensus        16 d~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   53 (82)
T 2yw8_A           16 DDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNE   53 (82)
T ss_dssp             CCCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEE
T ss_pred             CccCCcccCcCCcccCccccccCCCCCCEEChHHhCCe
Confidence            334457999999877322    2379999999997643

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=89.74  E-value=0.34  Score=24.73  Aligned_cols=39  Identities=33%  Similarity=0.742  Sum_probs=26.8

Q ss_pred             ccccccccccCcee---cCCCCcchHHhHHHHhhcCCCccccc
Q psy18179         18 LCLVCQGILIKPIK---LPCNHHVCLECLQRICDNSNLSCPMC   57 (108)
Q Consensus        18 ~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~~~~~~~~CP~C   57 (108)
                      .|--|+..+.+...   -.|++.||..|= .++...-..||-|
T Consensus        17 ~C~~C~~~~~~~~~y~C~~C~~~FC~dCD-~fiHe~Lh~CPgC   58 (59)
T 1z60_A           17 FCYGCQGELKDQHVYVCAVCQNVFCVDCD-VFVHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEECTTSEEECCTTTTCCBCHHHH-HTTTTTSCSSSTT
T ss_pred             cccccCcccCCCccEECCccCcCcccchh-HHHHhhccCCcCC
Confidence            48889888865442   269999999993 2333333469987

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=89.64  E-value=0.15  Score=29.93  Aligned_cols=32  Identities=19%  Similarity=0.490  Sum_probs=23.1

Q ss_pred             CccccccccccccCce----ecCCCCcchHHhHHHH
Q psy18179         15 DSVLCLVCQGILIKPI----KLPCNHHVCLECLQRI   46 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~   46 (108)
                      +-..|.+|...|.--.    --.||+.||..|....
T Consensus        68 ~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~~  103 (125)
T 1joc_A           68 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN  103 (125)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             CCCCCcCcCCccccccccccCCCCCeEEChHHhCCc
Confidence            3457999999877322    2379999999997543

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

Probab=88.77  E-value=0.45  Score=24.22  Aligned_cols=47  Identities=32%  Similarity=0.576  Sum_probs=32.4

Q ss_pred             CCCCccccccccccccCceec--CCCCcchHHhHHHHhh---cCCCcccccccc
Q psy18179         12 LTPDSVLCLVCQGILIKPIKL--PCNHHVCLECLQRICD---NSNLSCPMCRKR   60 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l--~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~   60 (108)
                      ....+..|.||.+.  ..+.+  .|...|...|+..-+.   .+...||.|...
T Consensus         7 ~~~~~~~C~vC~~~--g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG--GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SSCCCSSCTTTSCC--SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             cCCCCCCCccCCCC--CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            34556789999873  22333  6888999999986433   345679999653

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=88.70  E-value=0.12  Score=28.27  Aligned_cols=29  Identities=24%  Similarity=0.654  Sum_probs=21.0

Q ss_pred             cccccccccc-----CceecC-CCCcchHHhHHHH
Q psy18179         18 LCLVCQGILI-----KPIKLP-CNHHVCLECLQRI   46 (108)
Q Consensus        18 ~C~IC~~~~~-----~p~~l~-CgH~fC~~Ci~~~   46 (108)
                      -||-|...+.     .++.-+ |++.||..|-..|
T Consensus        27 wCP~C~~~~~~~~~~~~v~C~~C~~~FC~~C~~~w   61 (86)
T 2ct7_A           27 WCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQW   61 (86)
T ss_dssp             CCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBC
T ss_pred             ECcCCCchheecCCCCceEeCCCCCccccccCCch
Confidence            4988877543     234445 9999999998777

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=88.54  E-value=0.38  Score=26.09  Aligned_cols=34  Identities=18%  Similarity=0.286  Sum_probs=24.0

Q ss_pred             CCCCccccccccccccCce----ecCCCCcchHHhHHH
Q psy18179         12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQR   45 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~   45 (108)
                      +..+-..|.+|...|.--.    --.||..||..|...
T Consensus        10 pd~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A           10 PTNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             SCCCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             cCCCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            3444567999999876322    237999999999654

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=88.22  E-value=2.8  Score=25.13  Aligned_cols=47  Identities=19%  Similarity=0.314  Sum_probs=31.0

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhh----------cCCCcccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD----------NSNLSCPMCRKR   60 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~----------~~~~~CP~Cr~~   60 (108)
                      ..+..|.+|.+--.--.--.|-.+||..||..-+.          .+...||.|+..
T Consensus        61 g~~d~C~vC~~GG~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           61 GMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             SCBCSCSSSCCCSSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCeecccCCCCcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            34567888876332101117999999999996542          345789999753

>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide binding, hydrogenase maturation factor transferase; HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A* 3ttf_A* 3ttd_A 3tsq_A

Probab=87.02  E-value=0.4  Score=35.82  Aligned_cols=54  Identities=26%  Similarity=0.592  Sum_probs=40.7

Q ss_pred             CCCCCCCCccccccccccccCce----------ecCCCCcc--------------------hHHhHHHHhh-------cC
Q psy18179          8 SNNTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICD-------NS   50 (108)
Q Consensus         8 ~~~~~~~~~~~C~IC~~~~~~p~----------~l~CgH~f--------------------C~~Ci~~~~~-------~~   50 (108)
                      ..+.+..|-..|+-|+..+.+|.          .+.||..|                    |..|..++-.       .+
T Consensus         9 ~~~~i~pD~a~C~~Cl~e~~dp~~Rry~YpF~nCt~CGPR~tii~~lPYDR~~TsM~~F~mC~~C~~EY~dp~dRRfHAq   88 (657)
T 3ttc_A            9 MNTQIVPDAATCPACLAEMNTPGERRYRYPFINCTHCGPRFTIIRAMPYDRPFTVMAAFPLCPACDKEYRDPLDRRFHAQ   88 (657)
T ss_dssp             ---CCCCCBCCCHHHHHHHTSTTSTTTTCTTCCBTTBBCSGGGBSSSSCSGGGBGGGGSCCCHHHHHHHHCTTSTTTTCT
T ss_pred             CCcccCCchhhhHHHHHHhcCCCCcccCCccccCcCCCchHHhcccCCCCCCCCcccCCCCChHHHHHhCCCCCCcCcCC
Confidence            34567889999999999888763          24788887                    9999988765       23


Q ss_pred             CCccccccccc
Q psy18179         51 NLSCPMCRKRL   61 (108)
Q Consensus        51 ~~~CP~Cr~~~   61 (108)
                      ...||.|+-.+
T Consensus        89 p~aCp~CGP~l   99 (657)
T 3ttc_A           89 PVACPECGPYL   99 (657)
T ss_dssp             TCCCTTTSCCE
T ss_pred             CCcCcccCccc
Confidence            46799998776

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

Probab=86.66  E-value=0.36  Score=23.46  Aligned_cols=42  Identities=29%  Similarity=0.605  Sum_probs=27.2

Q ss_pred             ccccccccccC-ceec--CCCCcchHHhHHHHhh---cCCCccccccc
Q psy18179         18 LCLVCQGILIK-PIKL--PCNHHVCLECLQRICD---NSNLSCPMCRK   59 (108)
Q Consensus        18 ~C~IC~~~~~~-p~~l--~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~   59 (108)
                      .|.||...-.. .+.+  .|...|...|+..-+.   .+...||.|..
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            47888764322 2222  6888999999965433   34567999965

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=86.25  E-value=0.48  Score=27.36  Aligned_cols=47  Identities=19%  Similarity=0.130  Sum_probs=35.2

Q ss_pred             ccccccccccccC---ceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         16 SVLCLVCQGILIK---PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      -|.|..|...|.+   .....=|..||..|..+.+.... .|..|...+..
T Consensus        32 CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~-~C~~C~~~I~~   81 (122)
T 1m3v_A           32 CLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSG-AGGSGGHMGSG   81 (122)
T ss_dssp             HHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCC-SSSCSSCCSCC
T ss_pred             CCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCC-ccccCCCCcCc
Confidence            3788999988863   33446788899999988775422 59999988873

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=86.15  E-value=0.054  Score=27.78  Aligned_cols=33  Identities=21%  Similarity=0.435  Sum_probs=23.1

Q ss_pred             cccccccccccCc-----eecC---CCCcchHHhHHHHhhc
Q psy18179         17 VLCLVCQGILIKP-----IKLP---CNHHVCLECLQRICDN   49 (108)
Q Consensus        17 ~~C~IC~~~~~~p-----~~l~---CgH~fC~~Ci~~~~~~   49 (108)
                      -.||-|...+...     ++-.   |++.||..|...|...
T Consensus         7 k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~   47 (60)
T 1wd2_A            7 KECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPH   47 (60)
T ss_dssp             CCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGG
T ss_pred             eECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccC
Confidence            3688888776632     2333   8999999998877653

>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1

Probab=86.04  E-value=0.5  Score=30.22  Aligned_cols=34  Identities=18%  Similarity=0.349  Sum_probs=24.5

Q ss_pred             CCCCccccccccccccCce----ecCCCCcchHHhHHH
Q psy18179         12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQR   45 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~   45 (108)
                      ...+.-.|.+|...|.--.    .-.||+.||..|...
T Consensus       157 ~W~~~~~C~~C~~~F~~~~rrhhCr~CG~v~C~~Cs~~  194 (220)
T 1dvp_A          157 NWADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK  194 (220)
T ss_dssp             CCCCCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             cCCCCCccCCCCCccCCcccccccCCcCCEEChHHhCC
Confidence            3445679999998876221    237999999999654

>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A

Probab=85.74  E-value=0.76  Score=34.91  Aligned_cols=55  Identities=25%  Similarity=0.490  Sum_probs=41.8

Q ss_pred             CCCCCCCCccccccccccccCce----------ecCCCCcc--------------------hHHhHHHHhh-------cC
Q psy18179          8 SNNTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICD-------NS   50 (108)
Q Consensus         8 ~~~~~~~~~~~C~IC~~~~~~p~----------~l~CgH~f--------------------C~~Ci~~~~~-------~~   50 (108)
                      ..+.+..|-..|+-|+..+.+|.          .+.||..|                    |..|..++-.       .+
T Consensus       103 ~~~~i~pD~a~C~~Cl~e~~dp~~Rry~ypF~nCt~CGPR~tii~~lPYDR~~TsM~~F~mC~~C~~EY~dp~~RRfhAq  182 (761)
T 3vth_A          103 GFVPVSPDMGVCEDCLRELKDPKDRRYRYPFINCTNCGPRFSIIEDIPYDRAKTSMKVFPMCEKCSREYHDPHDRRFHAQ  182 (761)
T ss_dssp             CCCCCCCCBCCCHHHHHHHTCTTSTTTTCTTCCBTTBBCSGGGBCSSSCCGGGBGGGGSCCCHHHHHHHTCTTSTTTTCT
T ss_pred             cccccCCCccccHHHHHHhcCCCccccCCCcccCCCCCcchhhhccCCCCCCCCccccCCCCHHHHHHhcCcccccccCC
Confidence            34567788899999999888763          24788666                    9999988765       23


Q ss_pred             CCcccccccccc
Q psy18179         51 NLSCPMCRKRLS   62 (108)
Q Consensus        51 ~~~CP~Cr~~~~   62 (108)
                      ...||.|+-.+.
T Consensus       183 p~aC~~CGP~l~  194 (761)
T 3vth_A          183 PVACFDCGPSLS  194 (761)
T ss_dssp             TCCCTTTSCCEE
T ss_pred             CCcCCccCCeeE
Confidence            467999987765

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=85.66  E-value=0.5  Score=25.98  Aligned_cols=32  Identities=19%  Similarity=0.273  Sum_probs=23.2

Q ss_pred             CCccccccccccccCce----ecCCCCcchHHhHHH
Q psy18179         14 PDSVLCLVCQGILIKPI----KLPCNHHVCLECLQR   45 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~   45 (108)
                      .+...|.+|...|.--.    --.||..||..|...
T Consensus         7 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   42 (88)
T 1wfk_A            7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSF   42 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCE
T ss_pred             CcCCCCcCcCCcccCccccccCCCCCCEEChhHcCC
Confidence            34457999998776322    237999999999754

>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82

Probab=85.62  E-value=0.22  Score=28.42  Aligned_cols=30  Identities=13%  Similarity=0.212  Sum_probs=18.8

Q ss_pred             cCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         27 IKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        27 ~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ..+....||+.|.     .-+.. ...||.|+..-.
T Consensus        66 ~p~~C~~CG~~F~-----~~~~k-PsrCP~CkSe~I   95 (105)
T 2gmg_A           66 KPAQCRKCGFVFK-----AEINI-PSRCPKCKSEWI   95 (105)
T ss_dssp             CCCBBTTTCCBCC-----CCSSC-CSSCSSSCCCCB
T ss_pred             ECcChhhCcCeec-----ccCCC-CCCCcCCCCCcc
Confidence            3555668999992     12222 246999987643

>4g9i_A Hydrogenase maturation protein HYPF; zinc finger, ATP binding, carbamoyla transferase; 4.50A {Thermococcus kodakarensis}

Probab=85.33  E-value=0.67  Score=35.25  Aligned_cols=55  Identities=24%  Similarity=0.576  Sum_probs=42.4

Q ss_pred             CCCCCCCccccccccccccCce----------ecCCCCcc--------------------hHHhHHHHhh-------cCC
Q psy18179          9 NNTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICD-------NSN   51 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~~p~----------~l~CgH~f--------------------C~~Ci~~~~~-------~~~   51 (108)
                      .+.+..|-..|+-|+..+.+|.          .+.||..|                    |..|-.++-.       .+.
T Consensus        99 ~~~i~pD~a~C~~Cl~e~~dp~~rry~ypF~nCt~CGPR~tii~~lPYDR~~TsM~~F~mC~~C~~EY~dp~dRRfhAqp  178 (772)
T 4g9i_A           99 DSIIPPDIAICDDCLRELFDPTNKRYMYPFIVCTNCGPRFTIIEDLPYDRENTTMKEFPMCDFCRSEYEDPLNRRYHAEP  178 (772)
T ss_dssp             CCCCCCCCCCCHHHHHHHSSTTSTTTTCTTCCCTTSSCCGGGCCSSSCCGGGSGGGGSCCCHHHHHHHHCSSSTTTTCTT
T ss_pred             ccccCCchhhhHHHHHHhcCCCCCccCCccccCCCCCchhhhhhcCCCCCCCCcCCCCCCChhHHHHhCCCCCCCCcCCC
Confidence            3457888999999999888763          24788887                    9999988765       234


Q ss_pred             Ccccccccccch
Q psy18179         52 LSCPMCRKRLSI   63 (108)
Q Consensus        52 ~~CP~Cr~~~~~   63 (108)
                      ..||.|+-.+..
T Consensus       179 ~aC~~CGP~l~l  190 (772)
T 4g9i_A          179 TACPVCGPSYRL  190 (772)
T ss_dssp             CCCTTTSCCEEE
T ss_pred             CCCccCCceEEE
Confidence            679999987654

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=85.25  E-value=0.24  Score=26.74  Aligned_cols=33  Identities=27%  Similarity=0.664  Sum_probs=23.1

Q ss_pred             cccccc--cccccc-----Cceec------CCCCcchHHhHHHHhh
Q psy18179         16 SVLCLV--CQGILI-----KPIKL------PCNHHVCLECLQRICD   48 (108)
Q Consensus        16 ~~~C~I--C~~~~~-----~p~~l------~CgH~fC~~Ci~~~~~   48 (108)
                      ..-||-  |...+.     ..+.-      .||+.||..|...|-.
T Consensus        25 ~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~   70 (80)
T 2jmo_A           25 GVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE   70 (80)
T ss_dssp             SCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS
T ss_pred             cEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC
Confidence            666876  776553     22343      5999999999988754

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

Probab=85.15  E-value=0.29  Score=25.89  Aligned_cols=49  Identities=14%  Similarity=0.373  Sum_probs=33.2

Q ss_pred             CCccccccccccccCceec---CCCCcchHHhHHHHhhc---CCCcccccccccc
Q psy18179         14 PDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICDN---SNLSCPMCRKRLS   62 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~~---~~~~CP~Cr~~~~   62 (108)
                      .+...|+||......-..+   .|..-|...|+.-....   +...||.|...+.
T Consensus        16 ~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            4456799998765432233   68888999998654432   3577999977654

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=84.61  E-value=0.68  Score=29.84  Aligned_cols=35  Identities=17%  Similarity=0.251  Sum_probs=25.0

Q ss_pred             CCCCccccccccccccCce----ecCCCCcchHHhHHHH
Q psy18179         12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRI   46 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~   46 (108)
                      ...+.-.|.+|...|.--.    .-.||+.||..|....
T Consensus       160 ~W~~~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~~  198 (226)
T 3zyq_A          160 DWVDAEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKY  198 (226)
T ss_dssp             CCCCCSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCEE
T ss_pred             ccccCCCCcCcCCCCCccccccccCCCcCEeChhhcCCc
Confidence            3445678999998776221    2379999999997643

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=84.43  E-value=3.3  Score=22.63  Aligned_cols=46  Identities=22%  Similarity=0.484  Sum_probs=31.4

Q ss_pred             CCCccccccccccccCceec---CCCCcchHHhHHHHhh---------------cCCCccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICD---------------NSNLSCPMCRK   59 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~---------------~~~~~CP~Cr~   59 (108)
                      ...+-.|.||...-.. ..+   -|+-.|...|+.+.-.               ..+.+||.|..
T Consensus        12 ~~~D~~C~VC~~~t~~-~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~Cen   75 (89)
T 1wil_A           12 VVNDEMCDVCEVWTAE-SLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDN   75 (89)
T ss_dssp             CCCSCCCTTTCCCCSS-CCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCC
T ss_pred             CCCCcccCcccccccc-ceeccccccccccHhhcccccccccHHHHHHHHccCCCCCccccccch
Confidence            3467789999864433 333   4899999999998611               22467999944

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=83.40  E-value=0.56  Score=26.27  Aligned_cols=46  Identities=15%  Similarity=0.370  Sum_probs=29.8

Q ss_pred             CCCccccccccccccCceec---CCCCcchHHhHHHHhh--cCCCccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICD--NSNLSCPMCRK   59 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~   59 (108)
                      ..+.+.| ||......-..+   .|..-|...|+..-..  .....||.|+.
T Consensus        25 ~~d~vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           25 GTDVTRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCCBCCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCCCEEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            3455778 898765544344   5888888888854332  12478999964

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

Probab=83.35  E-value=0.83  Score=24.15  Aligned_cols=50  Identities=16%  Similarity=0.485  Sum_probs=32.2

Q ss_pred             CCCCCccccccccccccCceec---CCCCcchHHhHHHHh--------hcCCCccccccccc
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRIC--------DNSNLSCPMCRKRL   61 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~--------~~~~~~CP~Cr~~~   61 (108)
                      ....+.+.| ||......-..+   .|..=|+..|+.-..        ....+.||.|+...
T Consensus        11 ~~d~~~~~C-~C~~~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           11 VYDPNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             SCCTTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             ccCCCCCEE-ECCCccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            344556888 899876543333   577788888984321        12457899997644

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=83.28  E-value=0.89  Score=24.95  Aligned_cols=54  Identities=20%  Similarity=0.401  Sum_probs=35.8

Q ss_pred             CCCCCCCcccccccccccc---Cceec--CCCCcchHHhHHHHh-hcCCCcccccccccc
Q psy18179          9 NNTLTPDSVLCLVCQGILI---KPIKL--PCNHHVCLECLQRIC-DNSNLSCPMCRKRLS   62 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~---~p~~l--~CgH~fC~~Ci~~~~-~~~~~~CP~Cr~~~~   62 (108)
                      ......++..|.||...-.   +.+.+  .|.-.|...|+..-. ..+...||.|.....
T Consensus        18 ~~~~~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~   77 (88)
T 2l43_A           18 SQSLIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRA   77 (88)
T ss_dssp             TTCCCCCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTT
T ss_pred             CCCcCCCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccc
Confidence            3444567789999997541   22222  688899999987432 244577999976544

>2d8v_A Zinc finger FYVE domain-containing protein 19; zfyve19, ZF- B_BOX, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.43.1.1

Probab=83.20  E-value=0.92  Score=23.60  Aligned_cols=35  Identities=17%  Similarity=0.392  Sum_probs=25.3

Q ss_pred             CCCccccccccccccCceecCC-CCcchHHhHHHHhh
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPC-NHHVCLECLQRICD   48 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~C-gH~fC~~Ci~~~~~   48 (108)
                      .++..-|.||.+.- .-.-+.| |-.||..|+...-.
T Consensus         5 ~ee~pWC~ICneDA-tlrC~gCdgDLYC~rC~rE~H~   40 (67)
T 2d8v_A            5 SSGLPWCCICNEDA-TLRCAGCDGDLYCARCFREGHD   40 (67)
T ss_dssp             CCCCSSCTTTCSCC-CEEETTTTSEEECSSHHHHHTT
T ss_pred             CcCCCeeEEeCCCC-eEEecCCCCceehHHHHHHHcc
Confidence            44556699999872 2234578 88999999988653

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=82.64  E-value=0.82  Score=26.30  Aligned_cols=45  Identities=20%  Similarity=0.513  Sum_probs=34.3

Q ss_pred             CccccccccccccC-ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILIK-PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~~-p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +-|.|..|...|.. +....=|..||..|..+.+.   ..|..|...+.
T Consensus        29 ~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~---~~C~~C~~~I~   74 (126)
T 2xqn_T           29 KHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHA---VVCQGCHNAID   74 (126)
T ss_dssp             GGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSC---CBCTTTCSBCC
T ss_pred             CCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcC---ccCcccCCcCC
Confidence            45889999988875 34456788999999877543   45999999887

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1

Probab=82.43  E-value=0.076  Score=29.88  Aligned_cols=41  Identities=29%  Similarity=0.570  Sum_probs=27.2

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +..||+|...+..-    =++.+|..|-..+...  ..||.|.+++.
T Consensus        32 ~~~CP~Cq~eL~~~----g~~~hC~~C~~~f~~~--a~CPdC~q~Le   72 (101)
T 2jne_A           32 ELHCPQCQHVLDQD----NGHARCRSCGEFIEMK--ALCPDCHQPLQ   72 (101)
T ss_dssp             CCBCSSSCSBEEEE----TTEEEETTTCCEEEEE--EECTTTCSBCE
T ss_pred             cccCccCCCcceec----CCEEECccccchhhcc--ccCcchhhHHH
Confidence            48999999877631    1344488886544333  35999998875

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.54  E-value=0.27  Score=27.31  Aligned_cols=52  Identities=21%  Similarity=0.383  Sum_probs=32.9

Q ss_pred             CCCCCCCccccccccccccC-ceec--CCCCcchHHhHHHHhh---cCCCcccccccc
Q psy18179          9 NNTLTPDSVLCLVCQGILIK-PIKL--PCNHHVCLECLQRICD---NSNLSCPMCRKR   60 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~~-p~~l--~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~   60 (108)
                      +.....+...|.||...-.. .+.+  .|...|+..|+..-+.   .+...||.|...
T Consensus         9 s~~~~~~~~~C~vC~~~~~~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~~   66 (92)
T 2e6r_A            9 SSAQFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILA   66 (92)
T ss_dssp             CCCCCCCCCCCSSSCCSGGGGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHHH
T ss_pred             chhhccCCCCCccCCCcCCCCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcCc
Confidence            33445566789999875432 2232  6888888888864332   345669998653

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=80.78  E-value=0.062  Score=29.29  Aligned_cols=11  Identities=36%  Similarity=0.794  Sum_probs=6.6

Q ss_pred             ccccccccccc
Q psy18179         17 VLCLVCQGILI   27 (108)
Q Consensus        17 ~~C~IC~~~~~   27 (108)
                      ..||.|...+.
T Consensus         3 ~~CP~C~~~l~   13 (81)
T 2jrp_A            3 ITCPVCHHALE   13 (81)
T ss_dssp             CCCSSSCSCCE
T ss_pred             CCCCCCCCccc
Confidence            45777766544

>2o35_A Hypothetical protein DUF1244; helix bundle, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.12A {Sinorhizobium meliloti} SCOP: a.293.1.1

Probab=80.60  E-value=0.64  Score=26.20  Aligned_cols=12  Identities=25%  Similarity=0.620  Sum_probs=11.0

Q ss_pred             cchHHhHHHHhh
Q psy18179         37 HVCLECLQRICD   48 (108)
Q Consensus        37 ~fC~~Ci~~~~~   48 (108)
                      .||+.|+.+|..
T Consensus        42 GFCRNCLskWy~   53 (105)
T 2o35_A           42 GFCRNCLSNWYR   53 (105)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999987

>3fyb_A Protein of unknown function (DUF1244); hydrocar degrading, structural genomics, PSI-2; HET: PEG; 1.80A {Alcanivorax borkumensis SK2}

Probab=80.42  E-value=0.66  Score=26.11  Aligned_cols=12  Identities=25%  Similarity=0.623  Sum_probs=11.0

Q ss_pred             cchHHhHHHHhh
Q psy18179         37 HVCLECLQRICD   48 (108)
Q Consensus        37 ~fC~~Ci~~~~~   48 (108)
                      .||+.|+.+|..
T Consensus        41 GFCRNCLskWy~   52 (104)
T 3fyb_A           41 DFCRNCLAKWLM   52 (104)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999987

---

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	108
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-07
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	8e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-05
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-04
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	3e-04

>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 = 43.4 bits (102), Expect = 1e-07
 Identities = 13/45 (28%), Positives = 18/45 (40%)

Query: 18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
          LC +C          PC H +C  CL    ++    CP CR  + 
Sbjct: 25 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 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 = 40.2 bits (94), Expect = 1e-06
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63
          C  CQ     P  LPC H +C  CL+     S + CP+C+    +
Sbjct: 9  CQQCQAEAKCPKLLPCLHTLCSGCLEA----SGMQCPICQAPWPL 49

>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 = 38.7 bits (90), Expect = 8e-06
 Identities = 15/48 (31%), Positives = 21/48 (43%)

Query: 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
           S+ C +C+ IL  P++  C H  C  C+ R        CP CR    
Sbjct: 22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCF 69

>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 = 37.7 bits (87), Expect = 3e-05
 Identities = 15/62 (24%), Positives = 33/62 (53%), Gaps = 3/62 (4%)

Query: 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLSIW-LRRNKDFSLLI 75
          C +C  ++ +P+   C+H  C  C+ ++ +       CP+C+  ++   L+ +  FS L+
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLV 83

Query: 76 DE 77
          +E
Sbjct: 84 EE 85

>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 = 34.9 bits (80), Expect = 2e-04
 Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 19 CLVCQGILIKP-IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62
          C +C        + LPC H  C  C+ R    +  +CP+C+  + 
Sbjct: 8  CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-TCPLCKVPVE 51

>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 = 34.3 bits (78), Expect = 3e-04
 Identities = 11/73 (15%), Positives = 26/73 (35%), Gaps = 7/73 (9%)

Query: 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSL 73
          P+   C +   ++  P+ +          +Q+  D  + +CP  ++ L           L
Sbjct: 6  PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL-------HAGL 58

Query: 74 LIDENLWNQIQKY 86
            +  L + I  +
Sbjct: 59 TPNYVLKSLIALW 71

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	108
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.84
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.83
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.79
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.77
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.73
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.73
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.65
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.65
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.65
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.64
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.6
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.55
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.37
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.31
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.3
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.96
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	96.09
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	95.57
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	92.28
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	92.22
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	91.95
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	91.3
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	90.3
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	89.63
d2epqa1	32	PATZ1 {Human (Homo sapiens) [TaxId: 9606]}	89.16
d1wfha_	64	Zinc finger A20 and AN1 domains containing protein	88.74
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	88.14
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	87.95
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	87.14
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	86.13
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	85.28
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	84.73
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	84.49
d2o35a1	79	Hypothetical protein SMc04008 {Rhizobium meliloti	83.65
d2dlqa3	30	GLI-Krueppel family member HKR3 {Mouse (Mus muscul	83.21
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	82.3
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	81.86

>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=99.84  E-value=9.2e-22  Score=108.12  Aligned_cols=70  Identities=16%  Similarity=0.254  Sum_probs=59.0

Q ss_pred             CCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      ...++|.|+||+++|.+||+++|||+||+.||.+|+..+...||.|+..+..       ..+..|..|+++++.|..
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~-------~~l~pN~~L~~~I~~~~~   73 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH-------AGLTPNYVLKSLIALWCE   73 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS-------CCCEECTTTHHHHHHHHH
T ss_pred             CCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc-------ccccchHHHHHHHHHHHH
Confidence            3568999999999999999999999999999999998766679999998873       345566778888877653

>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=99.83  E-value=9.5e-22  Score=108.54  Aligned_cols=68  Identities=13%  Similarity=0.148  Sum_probs=58.2

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK   88 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   88 (108)
                      .++|.||||+++|.+||+++|||+||+.||.+|+..++..||.|+..+..       ..+..|..|+++++.+..
T Consensus         5 P~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~-------~~l~pN~~L~~~I~~~l~   72 (80)
T d2c2la2           5 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ-------EQLIPNLAMKEVIDAFIS   72 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG-------GGCEECHHHHHHHHHHHT
T ss_pred             CccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc-------cccccHHHHHHHHHHHHH
Confidence            58899999999999999999999999999999998766679999998873       345567788888887653

>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=99.79  E-value=2.4e-20  Score=103.77  Aligned_cols=49  Identities=31%  Similarity=0.697  Sum_probs=44.7

Q ss_pred             CccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +.+.|+||++.+.+|++++|||+||+.||.+|++.++..||.||.++..
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            5689999999999999999999999999999998666689999998864

>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=99.77  E-value=1.1e-19  Score=104.52  Aligned_cols=50  Identities=20%  Similarity=0.742  Sum_probs=43.9

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcC--CCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS--NLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~   63 (108)
                      .+.+.||||+++|.+|++++|||+||..||.+|+...  ...||.||..+..
T Consensus        19 ~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             ccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            4568999999999999999999999999999999743  2579999998873

>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=99.73  E-value=5.8e-19  Score=100.44  Aligned_cols=63  Identities=29%  Similarity=0.549  Sum_probs=50.7

Q ss_pred             CCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179         14 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY   86 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~   86 (108)
                      .+.+.|+||+++|.+|+++ +|||+||..||.+|+..   .||.||..+.       ..++..|..+..+++.+
T Consensus        20 ~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~---~CP~Cr~~~~-------~~~l~~n~~l~~lv~~~   83 (97)
T d1jm7b_          20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT---GCPVCYTPAW-------IQDLKINRQLDSMIQLC   83 (97)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTT---BCSSSCCBCS-------CSSCCCCHHHHHHHHHH
T ss_pred             hhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhc---cccccCCcCc-------hhhCcccHHHHHHHHHH
Confidence            4578999999999999986 89999999999999853   4999999876       23455566676766654

>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=99.73  E-value=1.2e-18  Score=95.57  Aligned_cols=49  Identities=27%  Similarity=0.600  Sum_probs=43.8

Q ss_pred             CccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +...|+||++.+.+|+.++|||.||..||.+|+..+...||+||..+..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            3457999999999999999999999999999998665679999999874

>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=99.73  E-value=2.5e-18  Score=97.88  Aligned_cols=71  Identities=18%  Similarity=0.230  Sum_probs=59.4

Q ss_pred             CCCCCccccccccccccCceecCCC-CcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179         11 TLTPDSVLCLVCQGILIKPIKLPCN-HHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK   89 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~~p~~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   89 (108)
                      ....++|.||||+++|.+||+++|| |+||+.||.+|+..+. .||.|+..+.       ..++..|..|++.++.|...
T Consensus        17 ~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~-~~P~~~~~l~-------~~~L~pN~~Lr~~I~~~~~~   88 (98)
T d1wgma_          17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQ-TDPFNRSPLT-------MDQIRPNTELKEKIQRWLAE   88 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSC-BCTTTCSBCC-------TTTSEECHHHHHHHHHHHHH
T ss_pred             cCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcC-Cccccccccc-------chhhcchHHHHHHHHHHHHH
Confidence            3455789999999999999999876 5899999999998654 6999999887       34667788899999887654

>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=99.65  E-value=7.5e-18  Score=86.53  Aligned_cols=46  Identities=30%  Similarity=0.738  Sum_probs=40.2

Q ss_pred             CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      .+.+.|+||++.+.+|+.++|||+||..||.+|    ...||.||..+..
T Consensus         4 ~~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             cCCCCCcccCcccCCCEEecCCCHHhHHHHHcC----CCcCcCCCCcccC
Confidence            356799999999999999999999999999754    3569999999874

>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=99.65  E-value=2.2e-17  Score=84.86  Aligned_cols=46  Identities=17%  Similarity=0.326  Sum_probs=41.4

Q ss_pred             cccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         17 VLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      +.|+||++.+.+|+.+ .|||+||+.||.+|+.+.+ .||.||..+..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~-~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG-NDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS-BCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhcc-CCCccCCcCCH
Confidence            5799999999999988 5999999999999999764 69999998874

>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=99.65  E-value=2.6e-17  Score=87.05  Aligned_cols=48  Identities=25%  Similarity=0.600  Sum_probs=39.5

Q ss_pred             Ccccccccccccc-Cc----eecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         15 DSVLCLVCQGILI-KP----IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        15 ~~~~C~IC~~~~~-~p----~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ++..||||++.+. .+    +.++|||.||..||.+|+..++..||.||+.+.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcc
Confidence            5678999998654 22    445899999999999999766667999999886

>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=99.64  E-value=5.1e-17  Score=82.27  Aligned_cols=46  Identities=33%  Similarity=0.638  Sum_probs=38.8

Q ss_pred             cccccccccccC----ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         17 VLCLVCQGILIK----PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        17 ~~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      +.||||++.|..    ++.++|||.||..|+.+|+..++..||+||+++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            579999998863    3345899999999999999876668999999875

>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=99.60  E-value=1.3e-16  Score=85.01  Aligned_cols=44  Identities=27%  Similarity=0.704  Sum_probs=38.9

Q ss_pred             ccccccccccCcee-cCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         18 LCLVCQGILIKPIK-LPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        18 ~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .|+||++.+.+++. ++|||+||..||.+|+..+ ..||.||..+.
T Consensus         7 ~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-~~CP~CR~~i~   51 (68)
T d1chca_           7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN-PTCPLCKVPVE   51 (68)
T ss_dssp             CCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS-CSTTTTCCCCC
T ss_pred             CCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhC-CcCCCCCcchH
Confidence            59999999988765 6999999999999999875 47999999875

>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=99.55  E-value=1.5e-15  Score=77.54  Aligned_cols=49  Identities=31%  Similarity=0.606  Sum_probs=39.9

Q ss_pred             CCCccccccccccccC---ceec-CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         13 TPDSVLCLVCQGILIK---PIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~---p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      .+++..|+||++.|..   .+.+ +|||.||..||.+|+... .+||+||..+.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~-~~CP~CR~~i~   54 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC-CSCSSSCCCSC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC-CcCCCCCCEeE
Confidence            3566789999999874   3445 699999999999999865 47999998763

>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=99.37  E-value=1.7e-13  Score=79.46  Aligned_cols=48  Identities=27%  Similarity=0.563  Sum_probs=38.3

Q ss_pred             ccccccccccccCc------------------eecCCCCcchHHhHHHHhhcC----CCcccccccccch
Q psy18179         16 SVLCLVCQGILIKP------------------IKLPCNHHVCLECLQRICDNS----NLSCPMCRKRLSI   63 (108)
Q Consensus        16 ~~~C~IC~~~~~~p------------------~~l~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   63 (108)
                      +..|+||++.|..+                  ..++|||.||..||..|+...    ..+||+||..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            45799999987643                  346899999999999999743    3579999987753

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.31  E-value=8.3e-13  Score=68.27  Aligned_cols=50  Identities=22%  Similarity=0.418  Sum_probs=41.0

Q ss_pred             CCCccccccccccccCceecCC-----CCcchHHhHHHHhhc-CCCcccccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKLPC-----NHHVCLECLQRICDN-SNLSCPMCRKRLS   62 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~C-----gH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~   62 (108)
                      .++...|+||++.+.++...+|     +|.||..||.+|+.. +..+||+||+.+.
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            3566789999998887776655     599999999999973 4568999999876

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=1e-12  Score=72.86  Aligned_cols=45  Identities=20%  Similarity=0.516  Sum_probs=36.3

Q ss_pred             cccccccccccC------------------ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         17 VLCLVCQGILIK------------------PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        17 ~~C~IC~~~~~~------------------p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      -.|+||++.+..                  ++.++|||.||..||.+|+..+ .+||+||..+.
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            348888876653                  2345899999999999999876 47999999875

>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=98.96  E-value=3e-10  Score=63.28  Aligned_cols=45  Identities=24%  Similarity=0.518  Sum_probs=33.9

Q ss_pred             Ccccccccccccc--C-ceecCCCCcchHHhHHHHhhc-------CCCccccccc
Q psy18179         15 DSVLCLVCQGILI--K-PIKLPCNHHVCLECLQRICDN-------SNLSCPMCRK   59 (108)
Q Consensus        15 ~~~~C~IC~~~~~--~-p~~l~CgH~fC~~Ci~~~~~~-------~~~~CP~Cr~   59 (108)
                      ....|+||++.+.  + +..++|||.||..||..|+..       ....||.|+-
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            4567999999875  3 344589999999999999862       1247998654

>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=96.09  E-value=0.0037  Score=31.84  Aligned_cols=34  Identities=21%  Similarity=0.614  Sum_probs=28.5

Q ss_pred             CccccccccccccCceecCC----CCcchHHhHHHHhh
Q psy18179         15 DSVLCLVCQGILIKPIKLPC----NHHVCLECLQRICD   48 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~l~C----gH~fC~~Ci~~~~~   48 (108)
                      ..+.|.+|.+.+.+-..+.|    +|.||..|-...++
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik   44 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIK   44 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHH
Confidence            45889999999998766644    79999999988877

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.57  E-value=0.029  Score=29.48  Aligned_cols=53  Identities=19%  Similarity=0.483  Sum_probs=39.5

Q ss_pred             CCCCCcccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179         11 TLTPDSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLSI   63 (108)
Q Consensus        11 ~~~~~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   63 (108)
                      ......-.|.||.+..-     ++.+.  .|+--.|+.|.+=-.+.++..||.|+..+..
T Consensus        11 ~~~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          11 LKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CSCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             hhhcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            33455678999998655     33333  6888899999987667777789999988763

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.28  E-value=0.081  Score=25.76  Aligned_cols=41  Identities=32%  Similarity=0.705  Sum_probs=28.1

Q ss_pred             ccccccccccccCceec---CCCCcchHHhHHHHhhcCCCccccc
Q psy18179         16 SVLCLVCQGILIKPIKL---PCNHHVCLECLQRICDNSNLSCPMC   57 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~~~~~~CP~C   57 (108)
                      ...|--|+..+.+....   .|++.||..|=. ++...-..||-|
T Consensus        15 ~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~-fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQHVYVCAVCQNVFCVDCDV-FVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTSEEECCTTTTCCBCHHHHH-TTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCCceEECcCCCCccccccch-hhhhhhcCCCCC
Confidence            45688888887765433   699999999942 333333468877

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=92.22  E-value=0.0023  Score=32.60  Aligned_cols=41  Identities=29%  Similarity=0.570  Sum_probs=28.3

Q ss_pred             ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179         16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS   62 (108)
Q Consensus        16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   62 (108)
                      ++.||.|...+..-    =||.+|..|-..+...  ..||.|.+++.
T Consensus         2 ~~~CP~C~~eL~~~----~~~~~C~~C~~~~~~~--a~CPdC~~~Le   42 (71)
T d2jnea1           2 ELHCPQCQHVLDQD----NGHARCRSCGEFIEMK--ALCPDCHQPLQ   42 (71)
T ss_dssp             CCBCSSSCSBEEEE----TTEEEETTTCCEEEEE--EECTTTCSBCE
T ss_pred             CCcCCCccCccccc----CCCEehhhhhhhheeE--EeCCccccHHH
Confidence            46899999876531    1677888885544333  35999998775

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=91.95  E-value=0.054  Score=27.50  Aligned_cols=33  Identities=18%  Similarity=0.390  Sum_probs=23.7

Q ss_pred             CCCccccccccccccCce----ecCCCCcchHHhHHH
Q psy18179         13 TPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQR   45 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~   45 (108)
                      ..+.-.|.+|...|.--.    --.||+.||..|...
T Consensus        10 W~~~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          10 WADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CCCCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCcCCccccCCCcccCccccccccccCCeeChhhhCC
Confidence            445567999998776322    237999999999754

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.30  E-value=0.05  Score=25.50  Aligned_cols=42  Identities=26%  Similarity=0.556  Sum_probs=28.3

Q ss_pred             ccccccccccCceec---CCCCcchHHhHHHHhh---cCCCccccccc
Q psy18179         18 LCLVCQGILIKPIKL---PCNHHVCLECLQRICD---NSNLSCPMCRK   59 (108)
Q Consensus        18 ~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~   59 (108)
                      .|.||...-..-..+   .|...|...|+..-+.   .+...||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            578887644322222   6999999999976554   33467999975

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.30  E-value=0.066  Score=26.47  Aligned_cols=31  Identities=19%  Similarity=0.595  Sum_probs=21.9

Q ss_pred             CccccccccccccCcee----cCCCCcchHHhHHH
Q psy18179         15 DSVLCLVCQGILIKPIK----LPCNHHVCLECLQR   45 (108)
Q Consensus        15 ~~~~C~IC~~~~~~p~~----l~CgH~fC~~Ci~~   45 (108)
                      +-..|.+|...|.--..    -.||+.||..|...
T Consensus         7 ~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~   41 (64)
T d1joca1           7 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK   41 (64)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             cCCcCcCcCCcccCCccccchhhhCCeecccccCC
Confidence            34569999887763222    37999999999654

>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=89.63  E-value=0.22  Score=25.86  Aligned_cols=46  Identities=24%  Similarity=0.577  Sum_probs=32.4

Q ss_pred             CCCccccccccccccCceecC---CCCcchHHhHHHHh-h--------------cCCCccccccc
Q psy18179         13 TPDSVLCLVCQGILIKPIKLP---CNHHVCLECLQRIC-D--------------NSNLSCPMCRK   59 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p~~l~---CgH~fC~~Ci~~~~-~--------------~~~~~CP~Cr~   59 (108)
                      ...+-.|.|| +.+.--..+|   |+..|...|+.+.- .              ..+.+|+.|..
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            4457789999 6666555554   78899999999872 1              12467888854

>d2epqa1 g.37.1.1 (A:380-411) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: PATZ1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.16  E-value=0.056  Score=22.37  Aligned_cols=11  Identities=27%  Similarity=0.395  Sum_probs=5.0

Q ss_pred             ccccccccccc
Q psy18179         17 VLCLVCQGILI   27 (108)
Q Consensus        17 ~~C~IC~~~~~   27 (108)
                      +.||||.+.|.
T Consensus         4 ~~cpic~qrfk   14 (32)
T d2epqa1           4 YSCPVCGLRFK   14 (32)
T ss_dssp             SEETTTTEECS
T ss_pred             cccchHHHHhh
Confidence            44444444443

>d1wfha_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At2g36320 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At2g36320
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=88.74  E-value=0.36  Score=23.75  Aligned_cols=34  Identities=15%  Similarity=0.277  Sum_probs=24.6

Q ss_pred             CCCCCCCcccccccccccc-CceecCCCCcchHHh
Q psy18179          9 NNTLTPDSVLCLVCQGILI-KPIKLPCNHHVCLEC   42 (108)
Q Consensus         9 ~~~~~~~~~~C~IC~~~~~-~p~~l~CgH~fC~~C   42 (108)
                      +..+....-.|.+|..-+. .++.-.||+.||..-
T Consensus         8 ~~~~~~k~~RC~~C~KKl~l~~~~CrCg~~FC~~H   42 (64)
T d1wfha_           8 QPSPPQRPNRCTVCRKRVGLTGFMCRCGTTFCGSH   42 (64)
T ss_dssp             CCCCCSSCCCCTTTCCCCCTTCEECSSSCEECTTT
T ss_pred             CCCCCCCCCcChhhCCCccceeeeccCCCEehhhc
Confidence            3445566779999997655 356668999999754

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=88.14  E-value=0.094  Score=21.55  Aligned_cols=28  Identities=18%  Similarity=0.304  Sum_probs=21.1

Q ss_pred             cccccccccccCceec-CCCCcchHHhHH
Q psy18179         17 VLCLVCQGILIKPIKL-PCNHHVCLECLQ   44 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~   44 (108)
                      |.|..|..-+...... .=|..||+.|..
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cya   29 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYA   29 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeee
Confidence            5788998877754444 578899999964

>d1vfya_ g.50.1.1 (A:) vps27p protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: vps27p protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.95  E-value=0.17  Score=25.10  Aligned_cols=29  Identities=17%  Similarity=0.402  Sum_probs=20.9

Q ss_pred             cccccccccccCcee----cCCCCcchHHhHHH
Q psy18179         17 VLCLVCQGILIKPIK----LPCNHHVCLECLQR   45 (108)
Q Consensus        17 ~~C~IC~~~~~~p~~----l~CgH~fC~~Ci~~   45 (108)
                      -.|.+|...|.--..    -.||..||..|...
T Consensus         6 ~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~   38 (67)
T d1vfya_           6 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   38 (67)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             cccccCCCcccCcccccccccCCCEecccccCC
Confidence            369999987763221    27999999999644

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.14  E-value=0.63  Score=23.17  Aligned_cols=49  Identities=18%  Similarity=0.579  Sum_probs=31.7

Q ss_pred             CCCCccccccccccccCceec---CCCCcchHHhHH----H--H--hhcCCCccccccccc
Q psy18179         12 LTPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQ----R--I--CDNSNLSCPMCRKRL   61 (108)
Q Consensus        12 ~~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~----~--~--~~~~~~~CP~Cr~~~   61 (108)
                      ...+.+.| ||.........+   .|.--|+..|+.    .  .  .....+.||.|+...
T Consensus        12 ~d~~~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          12 YDPNALYC-ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CCTTCCCS-TTCCCCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             cCCCcCEE-ECCCccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            44566778 898765544344   688889999982    1  1  113357899996543

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.13  E-value=0.055  Score=27.47  Aligned_cols=38  Identities=18%  Similarity=0.416  Sum_probs=25.3

Q ss_pred             CCCCCCcccccccccccc----Cce-ec-CCCCcchHHhHHHHh
Q psy18179         10 NTLTPDSVLCLVCQGILI----KPI-KL-PCNHHVCLECLQRIC   47 (108)
Q Consensus        10 ~~~~~~~~~C~IC~~~~~----~p~-~l-~CgH~fC~~Ci~~~~   47 (108)
                      +........||-|...+.    .+. +- .||+.||..|-..|-
T Consensus        12 l~~~~~~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~w~   55 (73)
T d2ct7a1          12 LMRDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQWE   55 (73)
T ss_dssp             CCSCCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBCC
T ss_pred             HHHCCCCCCCCCCCCEeEECCCCCEEEcCCCCCeECcccCcchh
Confidence            334445677898977554    122 22 699999999988773

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.28  E-value=0.16  Score=23.87  Aligned_cols=41  Identities=20%  Similarity=0.672  Sum_probs=24.3

Q ss_pred             ccccccccccCce----ecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179         18 LCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRK   59 (108)
Q Consensus        18 ~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~   59 (108)
                      .|.+|...|..-.    --.||..||..|...... ....|..|..
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~-~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGN-GPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCC-CCeECHhHhh
Confidence            4777877666222    237999999999654322 2245776643

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=84.73  E-value=0.27  Score=25.01  Aligned_cols=48  Identities=25%  Similarity=0.467  Sum_probs=30.6

Q ss_pred             CCCccccccccccccCc--eecC---CCCcchHHhHHHHh---h-----cCCCccccccccc
Q psy18179         13 TPDSVLCLVCQGILIKP--IKLP---CNHHVCLECLQRIC---D-----NSNLSCPMCRKRL   61 (108)
Q Consensus        13 ~~~~~~C~IC~~~~~~p--~~l~---CgH~fC~~Ci~~~~---~-----~~~~~CP~Cr~~~   61 (108)
                      ..+...| ||.......  +.+.   |..-|+..|+.-.-   .     ...+.||.|+..-
T Consensus        13 ~~~~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          13 PEIKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             CCCccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            4445788 898866542  3443   88889999984211   0     1137899997643

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 domain containing protein 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.49  E-value=0.74  Score=23.25  Aligned_cols=28  Identities=14%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             Ccccccccccccc-CceecCCCCcchHHh
Q psy18179         15 DSVLCLVCQGILI-KPIKLPCNHHVCLEC   42 (108)
Q Consensus        15 ~~~~C~IC~~~~~-~p~~l~CgH~fC~~C   42 (108)
                      ..-.|.+|..-+. .+..-.||+.||..-
T Consensus        24 k~~RC~~C~KKl~l~~~~CrCg~~FC~~H   52 (74)
T d1wfla_          24 KKNRCFMCRKKVGLTGFDCRCGNLFCGLH   52 (74)
T ss_dssp             CTTBCSSSCCBCGGGCEECTTSCEECSSS
T ss_pred             CCCcChhhCCcccceeeEccCCCEehhhc
Confidence            4568999986554 356668999999753

>d2o35a1 a.293.1.1 (A:2-80) Hypothetical protein SMc04008 {Rhizobium meliloti [TaxId: 382]}

class: All alpha proteins
fold: SMc04008-like
superfamily: SMc04008-like
family: SMc04008-like
domain: Hypothetical protein SMc04008
species: Rhizobium meliloti [TaxId: 382]

Probab=83.65  E-value=0.21  Score=25.55  Aligned_cols=12  Identities=25%  Similarity=0.620  Sum_probs=10.9

Q ss_pred             cchHHhHHHHhh
Q psy18179         37 HVCLECLQRICD   48 (108)
Q Consensus        37 ~fC~~Ci~~~~~   48 (108)
                      .||+.|+.+|..
T Consensus        39 GFCRNCLskWy~   50 (79)
T d2o35a1          39 GFCRNCLSNWYR   50 (79)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999986

>d2dlqa3 g.37.1.1 (A:63-92) GLI-Krueppel family member HKR3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: GLI-Krueppel family member HKR3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.21  E-value=0.21  Score=20.17  Aligned_cols=14  Identities=29%  Similarity=0.634  Sum_probs=9.1

Q ss_pred             CccccccccccccC
Q psy18179         15 DSVLCLVCQGILIK   28 (108)
Q Consensus        15 ~~~~C~IC~~~~~~   28 (108)
                      .-|+|.+|.+.|..
T Consensus         3 qvftcs~cqe~f~r   16 (30)
T d2dlqa3           3 QVFTCSVCQETFRR   16 (30)
T ss_dssp             CCEECSSSCCEESS
T ss_pred             ceEEeHHHHHHHHH
Confidence            45677777776654

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=82.30  E-value=0.13  Score=25.13  Aligned_cols=47  Identities=17%  Similarity=0.372  Sum_probs=31.1

Q ss_pred             CCccccccccccccCc-eec---CCCCcchHHhHHHHhh----cCCCcccccccc
Q psy18179         14 PDSVLCLVCQGILIKP-IKL---PCNHHVCLECLQRICD----NSNLSCPMCRKR   60 (108)
Q Consensus        14 ~~~~~C~IC~~~~~~p-~~l---~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~   60 (108)
                      .....|.+|.+...+- ..+   .|+.-|...|+..-..    ...+.||.|+..
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            3456899999865532 223   6998999999853211    235789999764

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]}

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]

Probab=81.86  E-value=0.32  Score=27.00  Aligned_cols=47  Identities=19%  Similarity=0.485  Sum_probs=29.0

Q ss_pred             CCcccccccccccc---Cce--ecCCCCcchHHhHHHHhh---cCCCcccccccc
Q psy18179         14 PDSVLCLVCQGILI---KPI--KLPCNHHVCLECLQRICD---NSNLSCPMCRKR   60 (108)
Q Consensus        14 ~~~~~C~IC~~~~~---~p~--~l~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~   60 (108)
                      .+.-.|.+|...|.   ...  -..||+.||..|-.....   .....|..|...
T Consensus        46 ~~~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~~~~~~~~~~~~w~C~~C~k~  100 (124)
T d1zbdb_          46 DGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICLEQ  100 (124)
T ss_dssp             CSSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEEECCCSSSSCCEEEHHHHHH
T ss_pred             cCCCcCcccCCcccCCCCCCCcCccCCcccccCCCCCccCCCCCCCEECccCcch
Confidence            34567999988655   222  237999999999533211   122567777654