Citrus Sinensis ID: 036238

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100------
Protein Sequence
MLIALIVLYYSIHLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLVSCYV
Secondary Structure (PSIPRED)
cEEEHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccEEEc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHccccccHHccccHHHHHHccccccccEEEEEcccccccEEEEcccccccccHHHHHHHHHcccccccccccccccccccccccEEEc
Coil and Loop (DISEMBL)
MLIALIVLYYSIHLCSKRmaqsndrhhgnkekssrgslslgisADCAVCLskissaeplqvlptchhgfhaHCIDAWLVLHstcplcranvpfcspqraglvscyv
Flexible Loop (DISEMBL)
MLIALIVLYYSIHLCSKRMAqsndrhhgnkekssrgslslGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVpfcspqraglvscyv
Low Complexity Region (SEG)
MLIALIVLYYSIHLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLVSCYV
Disordered region (IsUnstruct)
*LIALIVLYYSIHLCS***********************LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLVSC**
Disordered Region (DISOPRED)
MLIALIVLYYSIHLCSK***************************DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP***********CYV
Disordered Region (DISEMBL)
MLIALIVLYYSIHLCSKR********************SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLVSCYV
Disordered Region (DISPRO)
MLIALIVLYYSIHLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLVSCYV
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLIALIVLYYSIHLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLVSCYV
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	106	2.2.26 [Sep-21-2011]
Q7XLY8	383	E3 ubiquitin-protein liga	yes	no	0.5	0.138	0.547	5e-13
Q8RXX9	398	E3 ubiquitin-protein liga	yes	no	0.443	0.118	0.574	7e-13
Q5XF85	432	E3 ubiquitin-protein liga	no	no	0.443	0.108	0.617	9e-13
Q9ZV53	423	Putative RING-H2 finger p	no	no	0.443	0.111	0.553	2e-12
Q9SL78	390	Putative RING-H2 finger p	no	no	0.443	0.120	0.574	4e-12
Q9LF64	362	RING-H2 finger protein AT	no	no	0.452	0.132	0.583	5e-12
Q7X843	349	RING-H2 finger protein AT	no	no	0.490	0.148	0.557	5e-12
Q8LGA5	368	E3 ubiquitin-protein liga	no	no	0.575	0.165	0.432	6e-12
Q940Q4	472	RING-H2 finger protein AT	no	no	0.415	0.093	0.590	6e-12
Q9FL07	376	RING-H2 finger protein AT	no	no	0.443	0.125	0.553	7e-12

>sp|Q7XLY8|ATL41_ORYSJ E3 ubiquitin-protein ligase Os04g0590900 OS=Oryza sativa subsp. japonica GN=Os04g0590900 PE=2 SV=2

 Score = 72.8 bits (177), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 29/53 (54%), Positives = 36/53 (67%)

Query: 43  SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95
           + DC+VCL + S  E L++LP C H FH  CID WL  HS CPLCRAN+ F +
Sbjct: 154 TTDCSVCLGEFSDGESLRLLPRCSHAFHQQCIDTWLKSHSNCPLCRANITFVT 206

Possesses E3 ubiquitin-protein ligase in vitro.
Oryza sativa subsp. japonica (taxid: 39947)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8RXX9|ATL6_ARATH E3 ubiquitin-protein ligase ATL6 OS=Arabidopsis thaliana GN=ATL6 PE=1 SV=2

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 27/47 (57%), Positives = 35/47 (74%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           +CA+CL++    E L++LP C H FH HCIDAWL  H TCP+CRAN+
Sbjct: 127 ECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHVTCPVCRANL 173

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. May be involved in the plant C/N response and the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5XF85|ATL42_ARATH E3 ubiquitin-protein ligase ATL42 OS=Arabidopsis thaliana GN=ATL42 PE=1 SV=2

 Score = 72.0 bits (175), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 29/47 (61%), Positives = 33/47 (70%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           DC+VCLSK  S E L++LP C H FH  CID WL  H+TCPLCR  V
Sbjct: 122 DCSVCLSKFESVEILRLLPKCRHAFHIGCIDQWLEQHATCPLCRDRV 168

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9ZV53|ATL49_ARATH Putative RING-H2 finger protein ATL49 OS=Arabidopsis thaliana GN=ATL49 PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 26/47 (55%), Positives = 34/47 (72%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           DC VCL +  + + L++LP C H FH  CID WL+ HSTCPLCR+N+
Sbjct: 125 DCPVCLCEFETEDKLRLLPKCSHAFHVECIDTWLLSHSTCPLCRSNL 171

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SL78|ATL12_ARATH Putative RING-H2 finger protein ATL12 OS=Arabidopsis thaliana GN=ATL12 PE=3 SV=1

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 27/47 (57%), Positives = 32/47 (68%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           +C+VCLSK    E L++LP C H FH  CID WL  H+TCPLCR  V
Sbjct: 123 ECSVCLSKFEDVEILRLLPKCRHAFHIGCIDQWLEQHATCPLCRNRV 169

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LF64|ATL52_ARATH RING-H2 finger protein ATL52 OS=Arabidopsis thaliana GN=ATL52 PE=2 SV=1

 Score = 69.7 bits (169), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 28/48 (58%), Positives = 34/48 (70%)

Query: 44  ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           +DC+VCLS+    E L++LP C+H FH  CID WL  HS CPLCRA V
Sbjct: 140 SDCSVCLSEFEENESLRLLPKCNHAFHLPCIDTWLKSHSNCPLCRAFV 187

Arabidopsis thaliana (taxid: 3702)

>sp|Q7X843|ATL48_ARATH RING-H2 finger protein ATL48 OS=Arabidopsis thaliana GN=ATL48 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 29/52 (55%), Positives = 38/52 (73%)

Query: 37  SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88
           ++SL    DCAVCL++ S  + L++LP C H FH HCID WL+ +STCPLCR
Sbjct: 198 TISLEQPFDCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCR 249

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LGA5|ATL31_ARATH E3 ubiquitin-protein ligase ATL31 OS=Arabidopsis thaliana GN=ATL31 PE=1 SV=2

 Score = 69.3 bits (168), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 29/67 (43%), Positives = 42/67 (62%), Gaps = 6/67 (8%)

Query: 31  EKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRAN 90
           +K  +G+L      +CA+CL++    E L++LP C H FH HCI AWL  H TCP+CR N
Sbjct: 115 QKIGKGAL------ECAICLNEFEDDETLRLLPKCDHVFHPHCIGAWLQGHVTCPVCRTN 168

Query: 91  VPFCSPQ 97
           +   +P+
Sbjct: 169 LAEQTPE 175

E3 ubiquitin-protein ligase that is required for the plant C/N response during seedling growth transition. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q940Q4|ATL13_ARATH RING-H2 finger protein ATL13 OS=Arabidopsis thaliana GN=ATL13 PE=2 SV=2

 Score = 69.3 bits (168), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 26/44 (59%), Positives = 32/44 (72%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88
           DCAVCL +  + + L++LP C H FH  CID WL+ HSTCPLCR
Sbjct: 133 DCAVCLCEFETEDKLRLLPKCSHAFHMDCIDTWLLSHSTCPLCR 176

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL07|ATL46_ARATH RING-H2 finger protein ATL46 OS=Arabidopsis thaliana GN=ATL46 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 26/47 (55%), Positives = 33/47 (70%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           DCAVCL + S  + L++LP C H FH +CID WL  +STCPLCR  +
Sbjct: 142 DCAVCLCEFSEKDKLRLLPMCSHAFHLNCIDTWLQSNSTCPLCRGTL 188

Arabidopsis thaliana (taxid: 3702)

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	106
357465277	402	RING zinc finger protein-like protein [M	0.443	0.116	0.638	3e-12
147777624	1377	hypothetical protein VITISV_014334 [Viti	0.443	0.034	0.595	4e-12
357465141	377	RING-H2 finger protein ATL1N [Medicago t	0.688	0.193	0.428	6e-12
357479895	511	RING finger protein [Medicago truncatula	0.443	0.091	0.595	1e-11
413919783	188	putative RING zinc finger domain superfa	0.528	0.297	0.553	1e-11
356510090	336	PREDICTED: RING-H2 finger protein ATL43-	0.443	0.139	0.617	1e-11
356518453	334	PREDICTED: RING-H2 finger protein ATL11-	0.556	0.176	0.533	2e-11
356560202	319	PREDICTED: RING-H2 finger protein ATL3-l	0.5	0.166	0.584	2e-11
449470088	369	PREDICTED: RING-H2 finger protein ATL11-	0.462	0.132	0.571	2e-11
357118462	440	PREDICTED: putative RING-H2 finger prote	0.481	0.115	0.588	2e-11

>gi|357465277|ref|XP_003602920.1| RING zinc finger protein-like protein [Medicago truncatula] gi|355491968|gb|AES73171.1| RING zinc finger protein-like protein [Medicago truncatula]

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 30/47 (63%), Positives = 34/47 (72%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           DCAVCLSK  S+E L++LP C H FH  C+D WL  HSTCPLCR  V
Sbjct: 146 DCAVCLSKFESSEVLRLLPKCKHAFHVECVDTWLDAHSTCPLCRYRV 192

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147777624|emb|CAN78205.1| hypothetical protein VITISV_014334 [Vitis vinifera]

 Score = 75.5 bits (184), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 28/47 (59%), Positives = 33/47 (70%)

Query: 45   DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
            DC+VCLS+    E L++LP C H FH  CID WL  HS CPLCRAN+
Sbjct: 1143 DCSVCLSEFEEDESLRLLPKCSHAFHVQCIDTWLKSHSNCPLCRANI 1189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357465141|ref|XP_003602852.1| RING-H2 finger protein ATL1N [Medicago truncatula] gi|355491900|gb|AES73103.1| RING-H2 finger protein ATL1N [Medicago truncatula] gi|388520889|gb|AFK48506.1| unknown [Medicago truncatula]

 Score = 75.1 bits (183), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 36/84 (42%), Positives = 53/84 (63%), Gaps = 11/84 (13%)

Query: 19  MAQSNDRHHGNKEK----------SSRGSLSLGISA-DCAVCLSKISSAEPLQVLPTCHH 67
           +A S+ RH G + +          S+   L +G +A +CAVCL++    E L+++P C H
Sbjct: 98  IAGSHRRHRGLETEIIETFPTFVYSTVKGLKIGRAALECAVCLNEFQDDETLRLIPNCSH 157

Query: 68  GFHAHCIDAWLVLHSTCPLCRANV 91
            FH+ C+DAWLV HSTCP+CRAN+
Sbjct: 158 VFHSQCVDAWLVNHSTCPVCRANL 181

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357479895|ref|XP_003610233.1| RING finger protein [Medicago truncatula] gi|355511288|gb|AES92430.1| RING finger protein [Medicago truncatula]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/47 (59%), Positives = 34/47 (72%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           DCAVCL +    + L++LP C H FH  CID WL+ HSTCPLCRAN+
Sbjct: 143 DCAVCLCEFEHEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRANL 189

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413919783|gb|AFW59715.1| putative RING zinc finger domain superfamily protein [Zea mays]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/56 (55%), Positives = 39/56 (69%)

Query: 36  GSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           G + +G + +CAVCL    +AE L+VLP C H FHA CID WL+ HSTCP+CR  V
Sbjct: 93  GDVDVGRATECAVCLGAFDAAELLRVLPACRHAFHAECIDTWLLAHSTCPVCRRRV 148

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510090|ref|XP_003523773.1| PREDICTED: RING-H2 finger protein ATL43-like [Glycine max]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 29/47 (61%), Positives = 34/47 (72%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           DCAVCL+K  +AE L++LP C H FH  C+D WL  HSTCPLCR  V
Sbjct: 117 DCAVCLNKFEAAEVLRLLPKCKHAFHVECVDTWLDAHSTCPLCRYRV 163

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518453|ref|XP_003527893.1| PREDICTED: RING-H2 finger protein ATL11-like [Glycine max]

 Score = 73.6 bits (179), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 32/60 (53%), Positives = 42/60 (70%), Gaps = 1/60 (1%)

Query: 33  SSRGSLSLG-ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           S+  SL LG  + +CAVCL++    E L+ +P C H FH+ CIDAWL  HSTCP+CRAN+
Sbjct: 118 STVKSLKLGRATLECAVCLNEFEEVETLRFIPNCSHVFHSECIDAWLANHSTCPVCRANL 177

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560202|ref|XP_003548383.1| PREDICTED: RING-H2 finger protein ATL3-like [Glycine max]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 31/53 (58%), Positives = 37/53 (69%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ 97
           +CAVCLS+I   E L++LP C+HGFH  CID W   HSTCPLCR  V F S +
Sbjct: 107 ECAVCLSEIVEGEKLRLLPKCNHGFHVDCIDMWFHSHSTCPLCRNPVTFESSK 159

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449470088|ref|XP_004152750.1| PREDICTED: RING-H2 finger protein ATL11-like [Cucumis sativus] gi|449513102|ref|XP_004164231.1| PREDICTED: RING-H2 finger protein ATL11-like [Cucumis sativus]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 28/49 (57%), Positives = 38/49 (77%)

Query: 43  SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           S +CA+CLS+    + L++LP C H FH+ CIDAWLV HSTCP+CRA++
Sbjct: 124 SLECAICLSEFGDDDTLRLLPKCSHVFHSDCIDAWLVSHSTCPVCRASL 172

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357118462|ref|XP_003560973.1| PREDICTED: putative RING-H2 finger protein ATL49-like [Brachypodium distachyon]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 30/51 (58%), Positives = 38/51 (74%)

Query: 41  GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           G + DCAVCL + +  + L++LPTC H FH  CIDAWL+ HSTCPLCR +V
Sbjct: 120 GGAFDCAVCLCEFAMDDGLRLLPTCGHAFHVPCIDAWLLSHSTCPLCRRSV 170

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	106
TAIR|locus:2028436	219	AT1G49230 [Arabidopsis thalian	0.452	0.219	0.562	6.2e-14
TAIR|locus:2206722	327	AT1G35330 [Arabidopsis thalian	0.452	0.146	0.520	8.1e-14
UNIPROTKB|Q7XLY8	383	LOC_Os04g50100 "E3 ubiquitin-p	0.547	0.151	0.524	1.2e-13
TAIR|locus:2097890	349	AT3G48030 "AT3G48030" [Arabido	0.518	0.157	0.527	3.3e-13
TAIR|locus:2140069	323	AT4G40070 [Arabidopsis thalian	0.575	0.188	0.415	5.8e-13
TAIR|locus:2028411	226	AT1G49200 [Arabidopsis thalian	0.452	0.212	0.541	7.1e-13
TAIR|locus:2081907	334	ATL4 "TOXICOS EN LEVADURA 4" [	0.518	0.164	0.571	7.9e-13
TAIR|locus:2830088	220	AT3G18773 [Arabidopsis thalian	0.452	0.218	0.541	1.2e-12
TAIR|locus:2172550	210	AT5G57750 [Arabidopsis thalian	0.452	0.228	0.541	1.2e-12
UNIPROTKB|I3LA46	218	I3LA46 "Uncharacterized protei	0.641	0.311	0.436	1.5e-12

TAIR|locus:2028436 AT1G49230 [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 27/48 (56%), Positives = 36/48 (75%)

Query:    41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88
             G+  +CA+CLS+  + E +++LPTCHHGFH  CID WL  HS+CP CR
Sbjct:   126 GLDTECAICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSSHSSCPTCR 173

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

TAIR|locus:2206722 AT1G35330 [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 8.1e-14, Sum P(2) = 8.1e-14
 Identities = 25/48 (52%), Positives = 35/48 (72%)

Query:    45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
             +CA+CL++    E L+++P C H FHA CID WL   STCP+CRA++P
Sbjct:   127 ECAICLNEFEDEETLRLMPPCSHAFHASCIDVWLSSRSTCPVCRASLP 174

GO:0005576 "extracellular region" evidence=ISM

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

UNIPROTKB|Q7XLY8 LOC_Os04g50100 "E3 ubiquitin-protein ligase Os04g0590900" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 183 (69.5 bits), Expect = 1.2e-13, P = 1.2e-13
 Identities = 32/61 (52%), Positives = 39/61 (63%)

Query:    43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAGLV 102
             + DC+VCL + S  E L++LP C H FH  CID WL  HS CPLCRAN+ F +    GL 
Sbjct:   154 TTDCSVCLGEFSDGESLRLLPRCSHAFHQQCIDTWLKSHSNCPLCRANITFVT---VGLA 210

Query:   103 S 103
             S
Sbjct:   211 S 211

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2097890 AT3G48030 "AT3G48030" [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 3.3e-13, P = 3.3e-13
 Identities = 29/55 (52%), Positives = 40/55 (72%)

Query:    37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
             ++SL    DCAVCL++ S  + L++LP C H FH HCID WL+ +STCPLCR ++
Sbjct:   198 TISLEQPFDCAVCLNEFSDTDKLRLLPVCSHAFHLHCIDTWLLSNSTCPLCRRSL 252

GO:0001666 "response to hypoxia" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2140069 AT4G40070 [Arabidopsis thaliana (taxid:3702)]

 Score = 161 (61.7 bits), Expect = 5.8e-13, Sum P(2) = 5.8e-13
 Identities = 27/65 (41%), Positives = 44/65 (67%)

Query:    27 HGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPL 86
             + + ++S  GS  L    +CA+CL+++   E +++LP C+H FH  CID WL  H+TCP+
Sbjct:   109 YSSVKESKIGSKDL----ECAICLNELEDHETVRLLPICNHLFHIDCIDTWLYSHATCPV 164

Query:    87 CRANV 91
             CR+N+
Sbjct:   165 CRSNL 169

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2028411 AT1G49200 [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 7.1e-13, P = 7.1e-13
 Identities = 26/48 (54%), Positives = 32/48 (66%)

Query:    41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88
             G+  +C +CLS   S E +++LP CHHGFH  CID WL  H TCP CR
Sbjct:   131 GLGEECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCR 178

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

TAIR|locus:2081907 ATL4 "TOXICOS EN LEVADURA 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 174 (66.3 bits), Expect = 7.9e-13, P = 7.9e-13
 Identities = 32/56 (57%), Positives = 39/56 (69%)

Query:    34 SRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89
             +R S S+  S DCAVCLSK    + L++LP C H FHA CID WLV + TCPLCR+
Sbjct:   106 TRRSSSMN-SGDCAVCLSKFEPEDQLRLLPLCCHAFHADCIDIWLVSNQTCPLCRS 160

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2830088 AT3G18773 [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 26/48 (54%), Positives = 32/48 (66%)

Query:    41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88
             G+  +C +CLS   + E L+VLP C+HGFH  CID WL  H TCP CR
Sbjct:   125 GVGEECVICLSDFVAGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCR 172

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

TAIR|locus:2172550 AT5G57750 [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 26/48 (54%), Positives = 36/48 (75%)

Query:    44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
             +DCAVCL + ++ + L++LP C H FH  CID WL+ +STCPLCR N+
Sbjct:   120 SDCAVCLREFTAEDELRLLPKCSHAFHVECIDTWLLTNSTCPLCRDNL 167

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

UNIPROTKB|I3LA46 I3LA46 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 31/71 (43%), Positives = 43/71 (60%)

Query:    23 NDRHHGNKEKS--SRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL 80
             N +  G +E S  +  +LS   ++DCA+CL K    E L+V+P C H FH  C+D WL+ 
Sbjct:    77 NSKSKGRREGSCGALDTLSSSSTSDCAICLEKYIDGEELRVIP-CTHRFHRKCVDPWLLQ 135

Query:    81 HSTCPLCRANV 91
             H TCP CR N+
Sbjct:   136 HHTCPHCRHNI 146

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00011451001 SubName- Full=Chromosome undetermined scaffold_309, whole genome shotgun sequence; (309 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	106
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	7e-11
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-10
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	2e-09
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	7e-08
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	9e-08
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	7e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.001

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

 Score = 56.9 bits (137), Expect = 7e-11
 Identities = 22/49 (44%), Positives = 32/49 (65%), Gaps = 2/49 (4%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCPLCRANVP 92
           +CA+C+S     + L+VLP C H FH  C+D WL+ +S  CP+CR  +P
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372

Length = 374

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

 Score = 50.5 bits (121), Expect = 4e-10
 Identities = 22/45 (48%), Positives = 28/45 (62%), Gaps = 1/45 (2%)

Query: 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89
          +C +CL +    E + VLP C H FH  C+D WL   +TCPLCRA
Sbjct: 2  ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRA 45

Length = 46

>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 53.1 bits (127), Expect = 2e-09
 Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 5/54 (9%)

Query: 45   DCAVCLSKISSAE---PLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF 93
            +CA+C S +   +   P +   TC + FH  C+  W      S CPLCR+ + F
Sbjct: 1471 ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524

Length = 1525

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

 Score = 47.9 bits (114), Expect = 7e-08
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 6/55 (10%)

Query: 45  DCAVCLSKISSAEP----LQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95
           +CA+C+ K+   E       +L  C+H F   CID W    +TCP+CR   PF S
Sbjct: 176 ECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR--TPFIS 228

Length = 238

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

 Score = 45.1 bits (107), Expect = 9e-08
 Identities = 20/53 (37%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 45 DCAVCLSKISSAEPLQ---------VLPTCHHGFHAHCIDAWLVLHSTCPLCR 88
           CA+C +      P           V   C H FH HCI  WL   +TCPLCR
Sbjct: 21 VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

>gnl|CDD|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 = 40.5 bits (95), Expect = 3e-06
 Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 4/48 (8%)

Query: 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL-VLHSTCPLCRANV 91
          +C +CL +        VL  C H F   CID WL    +TCPLCR  +
Sbjct: 1  ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 39.8 bits (93), Expect = 2e-05
 Identities = 13/25 (52%), Positives = 14/25 (56%)

Query: 64 TCHHGFHAHCIDAWLVLHSTCPLCR 88
           C+H FH HCI  WL     CPL R
Sbjct: 53 VCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 14/30 (46%), Positives = 16/30 (53%)

Query: 64  TCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93
            C H  H HC+  WL    TCP+CR  V F
Sbjct: 317 PCGHILHLHCLKNWLERQQTCPICRRPVIF 346

Length = 491

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 35.5 bits (82), Expect = 7e-04
 Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 3/31 (9%)

Query: 61 VLPTCHHGFHAHCIDAWLVLHST---CPLCR 88
          V   C H FH HCI  WL   ++   CP+CR
Sbjct: 48 VWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

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

 Score = 36.2 bits (83), Expect = 0.001
 Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 6/49 (12%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94
          C +C  +IS    +    TC H F + CI   L     CP+CR     C
Sbjct: 28 CRICDCRIS----IPCETTCGHTFCSLCIRRHLGTQPFCPVCRE--DPC 70

Length = 391

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	106
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.77
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.75
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.65
PHA02929	238	N1R/p28-like protein; Provisional	99.61
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.59
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.57
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.55
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.54
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.49
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.45
PHA02926	242	zinc finger-like protein; Provisional	99.44
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.41
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.4
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.35
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	99.35
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.34
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.3
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.3
PF14634	44	zf-RING_5: zinc-RING finger domain	99.29
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	99.28
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.23
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.23
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.17
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.16
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	99.14
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	99.09
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	99.05
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.97
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.92
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.88
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.85
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.81
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.78
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.78
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.78
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.74
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.73
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.68
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.66
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.64
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.62
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.6
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.57
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.55
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.55
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	98.36
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.34
KOG0825	1134	consensus PHD Zn-finger protein [General function	98.21
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.11
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.1
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	98.01
KOG0297	391	consensus TNF receptor-associated factor [Signal t	98.0
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.99
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.99
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.98
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.91
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.69
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.68
COG5152	259	Uncharacterized conserved protein, contains RING a	97.63
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.61
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.58
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.56
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.55
KOG2660	331	consensus Locus-specific chromosome binding protei	97.51
PHA03096	284	p28-like protein; Provisional	97.5
PHA02862	156	5L protein; Provisional	97.49
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.47
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.46
PHA02825	162	LAP/PHD finger-like protein; Provisional	97.46
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	97.44
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.4
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	97.4
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.36
PF04641	260	Rtf2: Rtf2 RING-finger	97.19
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	97.07
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.04
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.02
KOG4739	233	consensus Uncharacterized protein involved in syna	97.0
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.82
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.79
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.77
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	96.72
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.62
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.6
KOG1001	674	consensus Helicase-like transcription factor HLTF/	96.19
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	96.13
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.12
KOG1940	276	consensus Zn-finger protein [General function pred	96.11
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.84
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	95.66
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	95.44
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.27
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.26
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	95.02
KOG1609	323	consensus Protein involved in mRNA turnover and st	95.02
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	94.9
KOG3002	299	consensus Zn finger protein [General function pred	94.84
KOG3053	293	consensus Uncharacterized conserved protein [Funct	94.8
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.64
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	94.42
KOG0298	1394	consensus DEAD box-containing helicase-like transc	94.31
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.24
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	94.13
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	93.89
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	93.35
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	93.33
COG5109	396	Uncharacterized conserved protein, contains RING Z	92.94
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.92
KOG3899	381	consensus Uncharacterized conserved protein [Funct	92.86
KOG0825	1134	consensus PHD Zn-finger protein [General function	92.37
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	92.17
KOG0269	839	consensus WD40 repeat-containing protein [Function	91.1
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	91.08
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	91.07
KOG3113	293	consensus Uncharacterized conserved protein [Funct	90.88
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	90.86
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	89.6
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	89.29
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	89.24
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	89.24
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	89.21
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	89.08
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	88.75
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	87.71
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	87.34
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	87.24
KOG3005	276	consensus GIY-YIG type nuclease [General function	86.7
PLN02189	1040	cellulose synthase	85.21
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	85.0
cd00065	57	FYVE FYVE domain; Zinc-binding domain; targets pro	84.55
PLN02638	1079	cellulose synthase A (UDP-forming), catalytic subu	84.49
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	84.39
PLN02436	1094	cellulose synthase A	83.99
KOG3842	429	consensus Adaptor protein Pellino [Signal transduc	83.67
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	83.62
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	83.41
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	83.12
smart00064	68	FYVE Protein present in Fab1, YOTB, Vac1, and EEA1	82.85
KOG1829	580	consensus Uncharacterized conserved protein, conta	82.82
PF04710	416	Pellino: Pellino; InterPro: IPR006800 Pellino is i	82.62
KOG3039	303	consensus Uncharacterized conserved protein [Funct	81.85
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	81.58
PLN02915	1044	cellulose synthase A [UDP-forming], catalytic subu	81.34
PF13717	36	zinc_ribbon_4: zinc-ribbon domain	81.14

>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=99.77  E-value=1.1e-19  Score=94.61  Aligned_cols=44  Identities=41%  Similarity=1.102  Sum_probs=40.1

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      ++|+||++++..++.+..++ |||.||.+||.+|++++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            47999999999888999998 999999999999999999999997

...

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

Probab=99.75  E-value=9.8e-19  Score=124.35  Aligned_cols=49  Identities=41%  Similarity=1.098  Sum_probs=45.3

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCC-CcccCCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHST-CPLCRANVPF   93 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-CP~Cr~~~~~   93 (106)
                      +.|+||+|+|+.++.+++|| |+|.||..||+.|+.+.++ ||+|++++..
T Consensus       230 ~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            58999999999999999999 9999999999999998755 9999998764

>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=99.65  E-value=1.6e-16  Score=90.99  Aligned_cols=45  Identities=44%  Similarity=1.047  Sum_probs=35.4

Q ss_pred             cccccccccccccC----------CCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           43 SADCAVCLSKISSA----------EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        43 ~~~C~ICl~~~~~~----------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      ++.|+||++.+.++          -.+...+ |||.||..||.+|++.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            44699999999432          2334445 999999999999999999999998

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 ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.61  E-value=3.7e-16  Score=106.86  Aligned_cols=56  Identities=32%  Similarity=0.758  Sum_probs=44.7

Q ss_pred             CccccccccccccccCC----CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAE----PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      ..+.+|+||++.+.+++    ...+++.|+|.||..||.+|++.+.+||+||.++....+
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~  231 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIK  231 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEee
Confidence            44678999999987543    123444599999999999999999999999999876443

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

Probab=99.59  E-value=2e-15  Score=107.67  Aligned_cols=54  Identities=33%  Similarity=0.838  Sum_probs=44.7

Q ss_pred             CCcccccccccccc-ccC---------CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           40 LGISADCAVCLSKI-SSA---------EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        40 ~~~~~~C~ICl~~~-~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ..++..|.|||+++ ..+         .....+| |||+||.+|++.|++++++||+||.|+-.+
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd  347 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFD  347 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccc
Confidence            46677899999994 332         2456788 999999999999999999999999996543

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

Probab=99.57  E-value=1.5e-15  Score=105.78  Aligned_cols=52  Identities=40%  Similarity=1.085  Sum_probs=47.6

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   93 (106)
                      ....+|+|||+.|...++++++| |+|.||..|+.+|+. .+..||+||.++++
T Consensus       321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            34568999999999999999999 999999999999999 58889999999976

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

Probab=99.55  E-value=9.9e-15  Score=100.98  Aligned_cols=51  Identities=31%  Similarity=0.720  Sum_probs=44.3

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      .....|.+||+...++   ..+| |||+||..||..|...+..||+||..+.+..
T Consensus       237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            4456799999997554   7788 9999999999999999999999999987653

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

Probab=99.54  E-value=5e-15  Score=86.09  Aligned_cols=54  Identities=31%  Similarity=0.728  Sum_probs=41.5

Q ss_pred             Ccccccccccccccc---------CCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCCCC
Q 036238           41 GISADCAVCLSKISS---------AEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~---------~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~   94 (106)
                      .+++.|.||+..|..         ++...+...|+|.||..||.+|+.+   +..||+||+++..+
T Consensus        19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k   84 (85)
T PF12861_consen   19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK   84 (85)
T ss_pred             CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence            347789999998863         1223334469999999999999986   46799999998654

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.49  E-value=3.3e-14  Score=94.08  Aligned_cols=53  Identities=30%  Similarity=0.713  Sum_probs=42.5

Q ss_pred             CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----------------CCCCcccCCCCCC
Q 036238           37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----------------HSTCPLCRANVPF   93 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~   93 (106)
                      ..+..++.+|+||++.+.++   ++++ |||.||..||.+|+..                ...||+||.++..
T Consensus        12 ~~~~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         12 LVDSGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             eccCCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            34455678999999998654   6676 9999999999999852                3479999999864

>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=99.45  E-value=7.2e-14  Score=74.40  Aligned_cols=46  Identities=28%  Similarity=0.820  Sum_probs=39.3

Q ss_pred             cccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      +..|.||++...   .+..+| |||. ||..|+.+|+..+..||+||+++.
T Consensus         2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            568999999853   468888 9999 999999999999999999999885

...

>PHA02926 zinc finger-like protein; Provisional

Probab=99.44  E-value=6.9e-14  Score=93.98  Aligned_cols=59  Identities=24%  Similarity=0.666  Sum_probs=45.0

Q ss_pred             CCccccccccccccccC-----CCeeEeCCCCccccHhhHHHHHhCC------CCCcccCCCCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSA-----EPLQVLPTCHHGFHAHCIDAWLVLH------STCPLCRANVPFCSPQR   98 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~-----~~~~~l~~C~H~Fh~~Ci~~wl~~~------~~CP~Cr~~~~~~~~~~   98 (106)
                      .+.+.+|+||||..-.+     ....+++.|+|.||..||..|...+      .+||+||..+....|++
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSr  236 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSK  236 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccc
Confidence            35578899999986322     2334565699999999999999853      45999999998766654

>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=99.41  E-value=1.4e-13  Score=69.68  Aligned_cols=39  Identities=38%  Similarity=1.118  Sum_probs=32.3

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC   87 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C   87 (106)
                      |+||++.+.+  .++.++ |||.||.+|+.+|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999864  345676 99999999999999998899997

>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=99.40  E-value=3e-13  Score=69.45  Aligned_cols=44  Identities=48%  Similarity=1.197  Sum_probs=36.6

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANV   91 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~   91 (106)
                      +|+||++.+.  +.....+ |||.||..|+..|++. +..||+||.++
T Consensus         1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999983  3445555 9999999999999997 77899999864

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

Probab=99.35  E-value=4.2e-13  Score=101.44  Aligned_cols=52  Identities=33%  Similarity=0.767  Sum_probs=44.6

Q ss_pred             CCccccccccccccccCCC--eeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           40 LGISADCAVCLSKISSAEP--LQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~--~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ...+..|+||+|.+..+..  ...++ |+|+||..|++.|++++++||+||..+.
T Consensus       288 ~~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  288 ALSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hhcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            3447789999999986544  67788 9999999999999999999999999554

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

Probab=99.35  E-value=8.4e-13  Score=90.89  Aligned_cols=85  Identities=31%  Similarity=0.634  Sum_probs=60.7

Q ss_pred             HHHHHHHHHH----------HHHHHHHhhhccccCCCCccccCCCCCCCccccccccccccccCC-------CeeEeCCC
Q 036238            3 IALIVLYYSI----------HLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAE-------PLQVLPTC   65 (106)
Q Consensus         3 ~~~i~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~-------~~~~l~~C   65 (106)
                      .|+.++||++          .+|+..++.    ..+....+..+... .++..|+||-..+...+       +...+. |
T Consensus       179 ~gi~~lfyglYyGvlgRdfa~icsd~mAs----~iGfYs~~glPtkh-l~d~vCaVCg~~~~~s~~eegvienty~Ls-C  252 (328)
T KOG1734|consen  179 FGISFLFYGLYYGVLGRDFAEICSDYMAS----TIGFYSPSGLPTKH-LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-C  252 (328)
T ss_pred             hhHHHHHHHHHHHhhhhHHHHHHHHHHHH----HhcccCCCCCCCCC-CCcchhHhhcchheeecchhhhhhhheeee-c
Confidence            4555666664          677888877    34444444444443 34558999998876544       566776 9


Q ss_pred             CccccHhhHHHHHh--CCCCCcccCCCCCC
Q 036238           66 HHGFHAHCIDAWLV--LHSTCPLCRANVPF   93 (106)
Q Consensus        66 ~H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~   93 (106)
                      +|+||+.||+.|-.  ++++||.|+..+..
T Consensus       253 nHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  253 NHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             ccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            99999999999986  57899999887753

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

Probab=99.34  E-value=1.2e-12  Score=88.37  Aligned_cols=51  Identities=33%  Similarity=0.677  Sum_probs=41.4

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVPFC   94 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~   94 (106)
                      .....+|.|||+.-+++   +++. |||.||..||.+|+..   ++.||+|+..+..+
T Consensus        44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~   97 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID   97 (230)
T ss_pred             CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence            45677899999996543   6665 9999999999999986   44599999988643

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

Probab=99.30  E-value=1.7e-12  Score=84.55  Aligned_cols=53  Identities=28%  Similarity=0.632  Sum_probs=42.9

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      +....|+|||+.+..... +.+ +|||+||..||+.-++....||+|++.+..+.
T Consensus       129 ~~~~~CPiCl~~~sek~~-vsT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP-VST-KCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhccc-ccc-ccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            445679999999975433 334 59999999999999999999999999776543

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

Probab=99.30  E-value=1.6e-12  Score=66.74  Aligned_cols=38  Identities=32%  Similarity=0.851  Sum_probs=29.2

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCccc
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLC   87 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~C   87 (106)
                      |+||++.|.++   +.++ |||.|+..||.+|.+..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999765   7887 99999999999999863    359987

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.29  E-value=2.5e-12  Score=66.67  Aligned_cols=44  Identities=27%  Similarity=0.709  Sum_probs=37.7

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   89 (106)
                      .|+||++.+.+.....+++ |||+||..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4899999996556777787 9999999999998866778999985

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

Probab=99.28  E-value=2e-12  Score=73.78  Aligned_cols=51  Identities=37%  Similarity=0.739  Sum_probs=39.5

Q ss_pred             cccccccccccc------------CCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           44 ADCAVCLSKISS------------AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        44 ~~C~ICl~~~~~------------~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      +.|+||...+.+            ++..+....|+|.||..||.+||..+..||++|+++...
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            578888776532            223334445999999999999999999999999998653

>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=99.23  E-value=5.3e-12  Score=64.35  Aligned_cols=39  Identities=38%  Similarity=1.078  Sum_probs=32.7

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHh--CCCCCccc
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV--LHSTCPLC   87 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~--~~~~CP~C   87 (106)
                      |+||++.+.++  ..+++ |||.||..|+.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998654  24676 999999999999999  46679987

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 ....

>smart00504 Ubox Modified RING finger domain

Probab=99.23  E-value=1.2e-11  Score=68.43  Aligned_cols=48  Identities=21%  Similarity=0.477  Sum_probs=41.8

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      ..|+||++.+.++   ++++ |||+|+..||.+|+..+.+||+|+.++....
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            4699999999765   6677 9999999999999999889999999886543

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.17  E-value=1.2e-11  Score=90.11  Aligned_cols=58  Identities=28%  Similarity=0.553  Sum_probs=47.2

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRA   99 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~   99 (106)
                      ........|+||++.|..+   ++++ |||.||..||..|+.....||+||.++.......+
T Consensus        21 ~~Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N   78 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSN   78 (397)
T ss_pred             cccccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccccCccc
Confidence            3456677899999999755   5677 99999999999999988889999999876544433

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

>smart00184 RING Ring finger

Probab=99.16  E-value=3.5e-11  Score=59.66  Aligned_cols=38  Identities=45%  Similarity=1.149  Sum_probs=32.1

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHh-CCCCCccc
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLC   87 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~C   87 (106)
                      |+||++..   .....++ |||.||..|+..|+. .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999883   4557787 999999999999998 56679987

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

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

Probab=99.14  E-value=6.1e-12  Score=71.24  Aligned_cols=52  Identities=35%  Similarity=0.797  Sum_probs=38.9

Q ss_pred             cccccccccccccc---------CCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCCC
Q 036238           42 ISADCAVCLSKISS---------AEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVPF   93 (106)
Q Consensus        42 ~~~~C~ICl~~~~~---------~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~   93 (106)
                      .++.|.||.-+|..         ++...++..|.|.||..||.+|+..   +..||+||+.+..
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            34489999988853         2223333359999999999999985   4469999998864

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

Probab=99.09  E-value=4e-11  Score=71.58  Aligned_cols=53  Identities=36%  Similarity=0.761  Sum_probs=41.5

Q ss_pred             ccccccccccccc-------------cCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKIS-------------SAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~-------------~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ..+.|+||..-+-             .++..+....|+|.||..||.+|+++++.||+|.+++...
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q  110 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ  110 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence            3567999986542             2334455556999999999999999999999999988653

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

Probab=99.05  E-value=9.2e-11  Score=86.58  Aligned_cols=53  Identities=32%  Similarity=0.877  Sum_probs=41.8

Q ss_pred             CCccccccccccccccC--------------CCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSA--------------EPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~--------------~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   93 (106)
                      .....+|+|||.++.-.              .....+| |.|+||..|++.|+. .+-.||.||.++++
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            45566899999986421              1234567 999999999999999 46689999999875

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

Probab=98.97  E-value=4.3e-10  Score=77.34  Aligned_cols=50  Identities=32%  Similarity=0.612  Sum_probs=41.5

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHH-HHhCCCC-CcccCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA-WLVLHST-CPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~   94 (106)
                      ..+..|+||++....   ...++ |||+||..||.. |-.++.. ||+||+...++
T Consensus       213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk  264 (271)
T COG5574         213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK  264 (271)
T ss_pred             ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence            447789999999654   46777 999999999999 9887766 99999987654

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

Probab=98.92  E-value=2.2e-10  Score=81.37  Aligned_cols=57  Identities=25%  Similarity=0.596  Sum_probs=48.4

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAG  100 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~  100 (106)
                      ..+...|.||.+.|..+   +++| |+|.||.-||+.+|..+..||.|+.++.+.....+.
T Consensus        20 lD~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~   76 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNR   76 (442)
T ss_pred             hHHHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhhhhh
Confidence            34556799999999765   7888 999999999999999999999999999876655443

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

Probab=98.88  E-value=1.2e-09  Score=56.16  Aligned_cols=34  Identities=35%  Similarity=0.770  Sum_probs=21.5

Q ss_pred             ccccccccccCC-CeeEeCCCCccccHhhHHHHHhCC
Q 036238           46 CAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLH   81 (106)
Q Consensus        46 C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~   81 (106)
                      |+||.+ |..++ ..++|+ |||+|+.+|+++++.++
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~   35 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS   35 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence            899999 76544 567788 99999999999999853

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

Probab=98.85  E-value=2.4e-09  Score=56.64  Aligned_cols=42  Identities=26%  Similarity=0.771  Sum_probs=33.0

Q ss_pred             cccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCcccC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCR   88 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr   88 (106)
                      .|.||++ ...++...+.| |.     |.+|..|+.+|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899998 33445666788 85     89999999999975  44799995

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

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

Probab=98.81  E-value=2.9e-09  Score=60.77  Aligned_cols=52  Identities=19%  Similarity=0.321  Sum_probs=40.4

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~   97 (106)
                      +...|+|+.+.|.++   +++| +||.|...+|+.|+.+ +.+||++++++......
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~   55 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI   55 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred             cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence            567899999999766   7888 9999999999999999 88999999998865443

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 ....

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

Probab=98.78  E-value=2.9e-09  Score=78.94  Aligned_cols=48  Identities=27%  Similarity=0.671  Sum_probs=38.4

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC-----CCCcccCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH-----STCPLCRANVPFC   94 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~   94 (106)
                      +..||||++....+   ..+. |||+||..||..++...     ..||+||..+..+
T Consensus       186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k  238 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK  238 (513)
T ss_pred             CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence            67899999985433   4454 99999999999988753     4699999988763

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

Probab=98.78  E-value=2.4e-09  Score=74.89  Aligned_cols=55  Identities=27%  Similarity=0.510  Sum_probs=45.3

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR   98 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~   98 (106)
                      ...-..|-||-+.|..+   ..++ |||.||.-||+..|..+..||+||.+..+.....
T Consensus        22 LDs~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~   76 (391)
T COG5432          22 LDSMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRG   76 (391)
T ss_pred             chhHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhhccc
Confidence            34556799999998755   5666 9999999999999999999999999887654433

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.78  E-value=5.8e-09  Score=73.76  Aligned_cols=55  Identities=22%  Similarity=0.475  Sum_probs=39.8

Q ss_pred             ccccccccccc-cccCC-CeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238           42 ISADCAVCLSK-ISSAE-PLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        42 ~~~~C~ICl~~-~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~   97 (106)
                      ++..||+|... +..++ ...+.+ |||.||.+|+...+.. ...||.|+.++......
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr   59 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR   59 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence            34689999995 33333 334445 9999999999996544 56799999988765533

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).

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

Probab=98.74  E-value=1.5e-09  Score=61.59  Aligned_cols=50  Identities=28%  Similarity=0.805  Sum_probs=23.9

Q ss_pred             cccccccccccccCC--CeeEeC--CCCccccHhhHHHHHhC---C--------CCCcccCCCCC
Q 036238           43 SADCAVCLSKISSAE--PLQVLP--TCHHGFHAHCIDAWLVL---H--------STCPLCRANVP   92 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~--~~~~l~--~C~H~Fh~~Ci~~wl~~---~--------~~CP~Cr~~~~   92 (106)
                      +.+|.||++.+.+++  ...+.+  .|++.||..|+.+|+..   .        .+||.|++++.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999999865222  223333  69999999999999973   1        14999999875

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

Probab=98.73  E-value=4.4e-09  Score=82.80  Aligned_cols=55  Identities=33%  Similarity=0.863  Sum_probs=42.3

Q ss_pred             CCCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           39 SLGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      ..++..+|+||...+..   .-+....+.|.|.||..|+.+|+..  +++||+||..+++
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            45677899999987651   1133344579999999999999986  5679999988765

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

Probab=98.68  E-value=1.2e-08  Score=74.80  Aligned_cols=54  Identities=31%  Similarity=0.797  Sum_probs=42.1

Q ss_pred             CCCCCCccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           36 GSLSLGISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        36 ~~~~~~~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      +.....+-.+|+||||.+.... .+.... |.|.||-.|+..|  ...+||+||.-..
T Consensus       168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~  222 (493)
T KOG0804|consen  168 PPTGLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS  222 (493)
T ss_pred             CCCCcccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence            4445566778999999997554 334445 9999999999999  5578999998666

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

Probab=98.66  E-value=2.5e-08  Score=71.23  Aligned_cols=50  Identities=28%  Similarity=0.662  Sum_probs=42.4

Q ss_pred             CCccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      .++..+|.|||.+-   ..+.++| |.|. .|.+|.+.-.-+.+.||+||+++..
T Consensus       287 ~~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  287 SESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             ccCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            35577899999985   4568999 9998 9999999877678899999999864

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

Probab=98.64  E-value=9.9e-09  Score=70.77  Aligned_cols=47  Identities=30%  Similarity=0.709  Sum_probs=40.3

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA   89 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   89 (106)
                      ...+...|+||++.|..+   .++| |||.||..|+..+......||.||.
T Consensus         9 ~~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             hccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            445677899999999876   7787 9999999999999885567999994

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

Probab=98.62  E-value=5.7e-09  Score=55.63  Aligned_cols=46  Identities=26%  Similarity=0.574  Sum_probs=34.6

Q ss_pred             ccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHh-CCCCCcccCCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLV-LHSTCPLCRANVPF   93 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   93 (106)
                      ++|.||+|.-.   ..++-. |||. .|..|-.+-++ .+..||+||+++..
T Consensus         8 dECTICye~pv---dsVlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPV---DSVLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcc---hHHHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            78999998733   334444 9998 89999555444 68899999998753

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

Probab=98.60  E-value=2.8e-08  Score=71.45  Aligned_cols=57  Identities=30%  Similarity=0.890  Sum_probs=44.0

Q ss_pred             CccccccccccccccCC----CeeEeCCCCccccHhhHHHHHh--C-----CCCCcccCCCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAE----PLQVLPTCHHGFHAHCIDAWLV--L-----HSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~--~-----~~~CP~Cr~~~~~~~~~   97 (106)
                      ..+.+|.||++......    ...++|+|.|.||..||+.|-.  +     .+.||.||.+.....+.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS  226 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPS  226 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccc
Confidence            55778999999876432    1345677999999999999994  3     46799999987765544

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

Probab=98.57  E-value=5.7e-09  Score=57.57  Aligned_cols=53  Identities=25%  Similarity=0.531  Sum_probs=24.7

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRA   99 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~   99 (106)
                      ....|++|.+.+..+   +.+..|.|+||..||..-+.  ..||+|+.|.-....+.+
T Consensus         6 ~lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~N   58 (65)
T PF14835_consen    6 ELLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQIN   58 (65)
T ss_dssp             HTTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----
T ss_pred             HhcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhh
Confidence            345799999998644   44446999999999988544  459999988765554444

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

Probab=98.55  E-value=4.2e-08  Score=68.79  Aligned_cols=51  Identities=24%  Similarity=0.456  Sum_probs=41.3

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      ....+|+||+....-   .+.++ |+|.||.-||+.-... +.+||+||.++.+.-
T Consensus         5 ~~~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    5 TKKKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             ccCCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            345689999998643   37777 9999999999998776 556999999998643

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

Probab=98.55  E-value=3.1e-08  Score=71.56  Aligned_cols=49  Identities=29%  Similarity=0.825  Sum_probs=34.7

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVP   92 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~   92 (106)
                      ..|.||.+-+.....+.-...|||+||..|+..|++.   +++||+|+-.+.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            4799994444333333333349999999999999997   357999983333

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

Probab=98.36  E-value=3e-07  Score=66.92  Aligned_cols=49  Identities=33%  Similarity=0.785  Sum_probs=36.9

Q ss_pred             ccccccccccccccC-CCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCC
Q 036238           42 ISADCAVCLSKISSA-EPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRAN   90 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~   90 (106)
                      ...+|+||++.++-+ +.-...+.|||.|..+||++|+.+  ...||.|...
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            356899999998743 333333459999999999999974  3459999654

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

Probab=98.34  E-value=6e-08  Score=69.30  Aligned_cols=53  Identities=28%  Similarity=0.560  Sum_probs=42.8

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      ...+..|+|||+-+...   +.++.|.|.||.+||..-+.. ++.||.||+.+..+.
T Consensus        40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            34567899999998643   555579999999999998875 778999999887643

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

Probab=98.21  E-value=2.4e-07  Score=72.05  Aligned_cols=52  Identities=21%  Similarity=0.408  Sum_probs=40.6

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      .|++|+..+.+.....-.+ |+|.||..||..|-+..++||+||..|....+.
T Consensus       125 ~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~  176 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL  176 (1134)
T ss_pred             hhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence            4777777776554444444 999999999999999999999999988755443

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

Probab=98.11  E-value=8.7e-07  Score=68.53  Aligned_cols=50  Identities=22%  Similarity=0.523  Sum_probs=39.1

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      .-..|+.|-..+.+   .++. .|||+||..|+..-+.. .+.||.|..+|....
T Consensus       642 ~~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             hceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            34569999876543   3555 49999999999998875 678999999987543

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

Probab=98.10  E-value=1.8e-06  Score=63.35  Aligned_cols=49  Identities=33%  Similarity=0.718  Sum_probs=42.8

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ..+.+|.||+..+..+   +.+| |||.||..||.+-+.++..||.||.++..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            5678899999988654   6677 99999999999988888889999999986

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

Probab=98.01  E-value=2.1e-06  Score=62.71  Aligned_cols=45  Identities=29%  Similarity=0.792  Sum_probs=37.7

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      -|-||-|.   +..+.+-| |||..|..|+..|-..  .++||.||..+..
T Consensus       371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            49999876   45678888 9999999999999754  6789999998764

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

Probab=98.00  E-value=3.5e-06  Score=61.94  Aligned_cols=51  Identities=29%  Similarity=0.639  Sum_probs=42.7

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ...+..|++|+..+.++...  +. |||.||..|+..|+..+..||.|+..+..
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQ   68 (391)
T ss_pred             CcccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccch
Confidence            46677899999999866332  34 99999999999999999999999887754

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

Probab=97.99  E-value=1.8e-06  Score=62.84  Aligned_cols=48  Identities=38%  Similarity=0.787  Sum_probs=39.8

Q ss_pred             Cccccccccccccc-cCCCeeEeCCCCccccHhhHHHHHhCC--CCCcccCC
Q 036238           41 GISADCAVCLSKIS-SAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRA   89 (106)
Q Consensus        41 ~~~~~C~ICl~~~~-~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~   89 (106)
                      +.+.-|..|-+.+. .++..-.+| |.|+||..|+...+.++  ++||.||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            44556999999987 455777888 99999999999999874  57999984

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

Probab=97.99  E-value=3.9e-05  Score=53.52  Aligned_cols=55  Identities=27%  Similarity=0.451  Sum_probs=40.6

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPFCS   95 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~   95 (106)
                      .....+.+|++|-+.-..  +..+.+ |||+||.-||..-...  ..+||.|-.+..+-+
T Consensus       234 s~~t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  234 STGTSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             ccccCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            334567789999887443  334454 9999999999987764  468999988877433

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

Probab=97.98  E-value=2.9e-06  Score=59.84  Aligned_cols=53  Identities=26%  Similarity=0.712  Sum_probs=43.2

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-----------------------CCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-----------------------HSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~~~   95 (106)
                      ....|.|||--|.+++....++ |.|.||..|+.+++..                       +..||+||..+....
T Consensus       114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            4557999999999888888887 9999999999988731                       224999999887543

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

Probab=97.91  E-value=6.1e-06  Score=44.88  Aligned_cols=43  Identities=23%  Similarity=0.553  Sum_probs=27.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcc
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPL   86 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~   86 (106)
                      .....|+|.+..|+++  +... .|||.|-.+.|.+|+++  ...||+
T Consensus         9 ~~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4456899999999754  3334 49999999999999954  345998

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

Probab=97.69  E-value=3.6e-05  Score=40.22  Aligned_cols=40  Identities=28%  Similarity=0.860  Sum_probs=27.0

Q ss_pred             ccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCccc
Q 036238           46 CAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLC   87 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~C   87 (106)
                      |-||++.-.+++ ..+.| |+     -..|.+|+.+|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679999866544 45566 65     37899999999984  5679887

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

Probab=97.68  E-value=3.9e-05  Score=40.16  Aligned_cols=45  Identities=22%  Similarity=0.601  Sum_probs=22.3

Q ss_pred             ccccccccccCCCeeEeC-CCCccccHhhHHHHHhC-CCCCcccCCCC
Q 036238           46 CAVCLSKISSAEPLQVLP-TCHHGFHAHCIDAWLVL-HSTCPLCRANV   91 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~   91 (106)
                      |++|.+++...+. ...| .||+.++..|...-++. +..||-||++.
T Consensus         1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7899999853332 3333 48999999999987763 77899999875

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

Probab=97.63  E-value=2.9e-05  Score=52.03  Aligned_cols=47  Identities=23%  Similarity=0.450  Sum_probs=38.4

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ....|.||-++|..+   +++. |||.||..|...-++....|-+|-+...
T Consensus       195 IPF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~  241 (259)
T COG5152         195 IPFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKATY  241 (259)
T ss_pred             Cceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhhc
Confidence            345799999999755   5554 9999999999888888899999976543

>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=97.61  E-value=3.6e-05  Score=48.49  Aligned_cols=37  Identities=19%  Similarity=0.528  Sum_probs=30.3

Q ss_pred             cccccccccccccCCCeeEeCCCC------ccccHhhHHHHHhC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCH------HGFHAHCIDAWLVL   80 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~------H~Fh~~Ci~~wl~~   80 (106)
                      ..+|.||++.+.+.+.++.++ ||      |.||.+|+.+|-..
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhh
Confidence            568999999998755667776 66      89999999999543

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.

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

Probab=97.58  E-value=4.6e-05  Score=52.00  Aligned_cols=52  Identities=21%  Similarity=0.556  Sum_probs=42.0

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~~   95 (106)
                      ....|..|-..+..++.++..  |-|.||..|+.+|.-+        .-.||-|..++.+..
T Consensus        49 Y~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~  108 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI  108 (299)
T ss_pred             CCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence            345699999999888776654  9999999999999864        335999999887643

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

Probab=97.56  E-value=0.00011  Score=55.76  Aligned_cols=57  Identities=23%  Similarity=0.529  Sum_probs=42.6

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-----CCCCcccCCCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-----HSTCPLCRANVPFCSPQRA   99 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~~~~~~   99 (106)
                      ...++.+|.+|.++-++.   +... |.|.||..|+.+++..     +-+||.|-.++.-...+.+
T Consensus       532 enk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~a  593 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPA  593 (791)
T ss_pred             cccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchh
Confidence            335566899999985433   5554 9999999999998863     5689999888876554443

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

Probab=97.55  E-value=5.3e-05  Score=63.00  Aligned_cols=54  Identities=28%  Similarity=0.634  Sum_probs=41.8

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----------CCCcccCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----------STCPLCRANVPFC   94 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----------~~CP~Cr~~~~~~   94 (106)
                      ...++.|-||+.+--...+.+.+. |+|+||..|.+.-+++.          -+||+|+.++...
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence            345678999998755555677786 99999999999877652          2599999988753

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

Probab=97.51  E-value=2.7e-05  Score=55.45  Aligned_cols=56  Identities=25%  Similarity=0.523  Sum_probs=44.0

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      ......+|.+|-..|.+..  .+. .|-|.||.+||.+.+..+..||+|...+....|.
T Consensus        11 ~~n~~itC~LC~GYliDAT--TI~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl   66 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDAT--TIT-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPL   66 (331)
T ss_pred             hcccceehhhccceeecch--hHH-HHHHHHHHHHHHHHHHHhccCCccceeccCcccc
Confidence            3455668999998887542  233 4999999999999999999999998877665543

>PHA03096 p28-like protein; Provisional

Probab=97.50  E-value=5.4e-05  Score=53.51  Aligned_cols=46  Identities=28%  Similarity=0.620  Sum_probs=33.7

Q ss_pred             ccccccccccccC----CCeeEeCCCCccccHhhHHHHHhC---CCCCcccCC
Q 036238           44 ADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRA   89 (106)
Q Consensus        44 ~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~   89 (106)
                      ..|.||++.....    ..-.+++.|.|.|+..|++.|...   ..+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            6799999986532    244467789999999999999975   334555544

>PHA02862 5L protein; Provisional

Probab=97.49  E-value=8.6e-05  Score=47.32  Aligned_cols=46  Identities=22%  Similarity=0.564  Sum_probs=34.5

Q ss_pred             cccccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      ++.|-||+++-++  .  .-| |.     ..-|.+|+.+|++.  +..||+|+.++..
T Consensus         2 ~diCWIC~~~~~e--~--~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          2 SDICWICNDVCDE--R--NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CCEEEEecCcCCC--C--ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            4689999998432  2  244 54     56999999999985  5569999987753

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

Probab=97.47  E-value=9.7e-05  Score=53.44  Aligned_cols=55  Identities=22%  Similarity=0.404  Sum_probs=45.1

Q ss_pred             CCCCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           35 RGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        35 ~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ..+....++..|+||...   +...+..| |+|.-|..||.+-+.+.+.|=.|+..+..
T Consensus       414 ~~~lp~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  414 NKDLPDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cCCCCCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            344455677789999776   45667888 99999999999999999999999987763

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

Probab=97.46  E-value=6.1e-05  Score=59.37  Aligned_cols=49  Identities=29%  Similarity=0.769  Sum_probs=36.8

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC-------CCCcccCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH-------STCPLCRA   89 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-------~~CP~Cr~   89 (106)
                      ....+|.||.+.+.....+-....|-|+||..||++|....       =.||.|..
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            45678999999987654443333477999999999999751       14999973

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=97.46  E-value=0.00012  Score=47.31  Aligned_cols=51  Identities=16%  Similarity=0.497  Sum_probs=36.4

Q ss_pred             CCccccccccccccccCCCeeEeC-CCCc---cccHhhHHHHHhC--CCCCcccCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLP-TCHH---GFHAHCIDAWLVL--HSTCPLCRANVPFC   94 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~-~C~H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~   94 (106)
                      +..+..|-||.++-.+  .  ..| .|..   ..|.+|+++|+..  ...|++|+.++...
T Consensus         5 s~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          5 SLMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            4556789999988432  2  234 2444   5799999999986  45699999887643

>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=97.44  E-value=4.7e-05  Score=45.85  Aligned_cols=35  Identities=31%  Similarity=0.690  Sum_probs=28.4

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHH
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCID   75 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~   75 (106)
                      ...++..|++|-..+.. ....+-| |||+||..|+.
T Consensus        74 ~i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             EECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            34556789999999976 4667778 99999999975

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 [].

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

Probab=97.40  E-value=0.00042  Score=49.57  Aligned_cols=52  Identities=27%  Similarity=0.383  Sum_probs=39.0

Q ss_pred             CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCC
Q 036238           37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV   91 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   91 (106)
                      .....+...|++|+..-.++   .++..=|-+||..|+-.++.+.+.||+=-.|.
T Consensus       294 e~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  294 ELLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             ccCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            33445566799999997654   22322699999999999999999999865443

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

Probab=97.40  E-value=0.0001  Score=54.06  Aligned_cols=47  Identities=23%  Similarity=0.655  Sum_probs=37.9

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRA   89 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~   89 (106)
                      .-..|.||++..........+| |+|+||..|+..+...        .-.||-+.-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            4557999999987667888998 9999999999999863        234877644

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

Probab=97.39  E-value=7.9e-05  Score=52.50  Aligned_cols=47  Identities=19%  Similarity=0.324  Sum_probs=39.6

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ...|-||...|..+   +++. |+|.||..|...-++....|++|-++...
T Consensus       241 Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             Cccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccccc
Confidence            45699999999765   5665 99999999999888888999999887654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.36  E-value=0.00021  Score=49.39  Aligned_cols=54  Identities=15%  Similarity=0.231  Sum_probs=47.0

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      ..+.|++|.+.+.+......+..|||+|+.+|.++.+.....||+|-.++....
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            566799999999988777777669999999999998888889999999987653

>PF04641 Rtf2: Rtf2 RING-finger

Probab=97.19  E-value=0.00062  Score=47.57  Aligned_cols=54  Identities=15%  Similarity=0.235  Sum_probs=42.8

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ......|||...+|......+.+..|||+|...++..- .....||+|-.++...
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence            45566799999999766666666559999999999995 3356799999988743

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

Probab=97.07  E-value=0.00045  Score=49.89  Aligned_cols=47  Identities=28%  Similarity=0.596  Sum_probs=33.4

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      .....+.|.||+++..   ....+| |||.-+  |..- .+...+||+||+.+.
T Consensus       301 ~~~~p~lcVVcl~e~~---~~~fvp-cGh~cc--ct~c-s~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPK---SAVFVP-CGHVCC--CTLC-SKHLPQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCcc---ceeeec-CCcEEE--chHH-HhhCCCCchhHHHHH
Confidence            3455667999999854   468888 999855  5443 234556999998765

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

Probab=97.04  E-value=0.00093  Score=48.42  Aligned_cols=51  Identities=24%  Similarity=0.565  Sum_probs=38.3

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHH--HhCCCCCcccCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW--LVLHSTCPLCRANVPF   93 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w--l~~~~~CP~Cr~~~~~   93 (106)
                      ..++...|.||-+.++   ....+| |+|..|.-|..+-  |-....||+||..+..
T Consensus        57 tDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~  109 (493)
T COG5236          57 TDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA  109 (493)
T ss_pred             cccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence            3455567999998864   447788 9999999996543  3357789999998764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.02  E-value=0.00056  Score=36.68  Aligned_cols=48  Identities=27%  Similarity=0.539  Sum_probs=33.9

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      ...|..|...-   ..-.++| |||..+..|...+  +-+.||.|-.++....+
T Consensus         7 ~~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~~   54 (55)
T PF14447_consen    7 EQPCVFCGFVG---TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDDP   54 (55)
T ss_pred             ceeEEEccccc---ccccccc-ccceeeccccChh--hccCCCCCCCcccCCCC
Confidence            33455555442   2346777 9999999998854  56789999999876543

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

Probab=97.00  E-value=0.00037  Score=47.85  Aligned_cols=50  Identities=28%  Similarity=0.691  Sum_probs=34.9

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR   98 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~   98 (106)
                      -|.-|...-. ++...++. |+|+||..|...-  ....||+|++++.......
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~   54 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNR   54 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeeeccc
Confidence            4666655433 56666775 9999999997642  2348999999976654443

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

Probab=96.94  E-value=0.00053  Score=48.46  Aligned_cols=48  Identities=29%  Similarity=0.638  Sum_probs=37.8

Q ss_pred             cccccccccccccCC---CeeEeCCCCccccHhhHHHHHhCC-CCCcccCCCC
Q 036238           43 SADCAVCLSKISSAE---PLQVLPTCHHGFHAHCIDAWLVLH-STCPLCRANV   91 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~---~~~~l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~   91 (106)
                      ...|-||-++|...+   .++.+. |||.|+..|+..-+... ..||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            357999999998542   344554 99999999999877763 4599999986

>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.00038  Score=45.30  Aligned_cols=31  Identities=23%  Similarity=0.672  Sum_probs=27.5

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccH
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHA   71 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~   71 (106)
                      ..+..+|.||||+++.++.+..+| |-.+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            355668999999999999999999 9999986

>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=96.79  E-value=0.00061  Score=34.88  Aligned_cols=41  Identities=22%  Similarity=0.672  Sum_probs=22.4

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC--CCccc
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS--TCPLC   87 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~CP~C   87 (106)
                      |.+|.+....+..-... +|+=.+|..|+..++....  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777776655322212 4888999999999998754  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=96.77  E-value=0.00036  Score=49.28  Aligned_cols=41  Identities=27%  Similarity=0.679  Sum_probs=31.8

Q ss_pred             cccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANV   91 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~   91 (106)
                      ..-|.|||+.   +...+.|+ |||. -|..|-..    -+.||+||+-+
T Consensus       300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKR----MNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcC---CcceEEee-cCcEEeehhhccc----cccCchHHHHH
Confidence            5569999998   35568898 9996 78888554    35899999855

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

Probab=96.76  E-value=0.0014  Score=43.44  Aligned_cols=32  Identities=28%  Similarity=0.800  Sum_probs=25.9

Q ss_pred             CCCccccHhhHHHHHhC----C-------CCCcccCCCCCCCC
Q 036238           64 TCHHGFHAHCIDAWLVL----H-------STCPLCRANVPFCS   95 (106)
Q Consensus        64 ~C~H~Fh~~Ci~~wl~~----~-------~~CP~Cr~~~~~~~   95 (106)
                      .||.-||.-|+..|++.    .       ..||+|..|+.-+.
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm  231 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM  231 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence            59999999999999973    1       14999999886543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=96.72  E-value=0.0018  Score=34.64  Aligned_cols=35  Identities=26%  Similarity=0.664  Sum_probs=30.5

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      ....|++|-+.|.+++.+++.|.||-.+|..|...
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            34579999999998889999999999999999654

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

Probab=96.62  E-value=0.001  Score=52.79  Aligned_cols=43  Identities=23%  Similarity=0.759  Sum_probs=33.0

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV   91 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   91 (106)
                      ...|..|-..++-|  .+.-. |||.||.+|+.   .....||.|+...
T Consensus       840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            45899998888644  33333 99999999998   4567899998743

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.60  E-value=0.0015  Score=47.23  Aligned_cols=56  Identities=16%  Similarity=0.399  Sum_probs=39.0

Q ss_pred             CccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~   97 (106)
                      .+++.|+.|+|++...+ ...-.| ||-..|.-|...--+. +..||.||+.......+
T Consensus        12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            34445999999987554 334455 9988888886653333 66799999988765543

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

Probab=96.19  E-value=0.0018  Score=50.83  Aligned_cols=45  Identities=24%  Similarity=0.668  Sum_probs=36.8

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      ..|.||++    .+...+.+ |+|.||.+|+..-+..  ...||.||..+..
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            79999999    25667777 9999999999998875  3359999987654

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

Probab=96.13  E-value=0.026  Score=41.52  Aligned_cols=48  Identities=21%  Similarity=0.349  Sum_probs=39.0

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC---CCCcccCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH---STCPLCRA   89 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~   89 (106)
                      -....|||=.+.-.+..+++.+. |||+...+-+.+-.+..   ..||+|-.
T Consensus       332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            34567999998888777888998 99999999999976653   36999943

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

Probab=96.12  E-value=0.00022  Score=52.10  Aligned_cols=51  Identities=20%  Similarity=0.578  Sum_probs=42.3

Q ss_pred             cccccccccccccC-CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           43 SADCAVCLSKISSA-EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        43 ~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...|+||.+.+... +.+..+- |||.+|..|+++|+.....||.|++.++..
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            45699999988754 4555564 999999999999999999999999988643

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

Probab=96.11  E-value=0.0038  Score=44.00  Aligned_cols=46  Identities=26%  Similarity=0.646  Sum_probs=37.3

Q ss_pred             cccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238           43 SADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA   89 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   89 (106)
                      ...|+||.+.+.... .+..++ |||.-|..|++.....+-+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            334999999876543 455666 9999999999998887888999977

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

Probab=95.84  E-value=0.0052  Score=43.82  Aligned_cols=43  Identities=28%  Similarity=0.675  Sum_probs=34.4

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRA   89 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~   89 (106)
                      ..|+.|...+..+   ..+|.|+|.||.+||..-|.. ...||.|..
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            6799998887655   344669999999999987765 567999944

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

Probab=95.66  E-value=0.0052  Score=49.09  Aligned_cols=38  Identities=29%  Similarity=0.662  Sum_probs=30.0

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV   79 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~   79 (106)
                      .+.++.|.+|...+... +-.+-| |||.||.+|+.+-..
T Consensus       814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHVL  851 (911)
T ss_pred             ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHHH
Confidence            46677899999988753 455566 999999999988663

>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]

Probab=95.44  E-value=0.0098  Score=47.14  Aligned_cols=40  Identities=28%  Similarity=0.636  Sum_probs=28.2

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcc
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPL   86 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~   86 (106)
                      .|+||--.+... ...-. .|+|+-|.+|...|+.....||.
T Consensus      1030 ~C~~C~l~V~gs-s~~Cg-~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGS-SNFCG-TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             eeeeEeeEeecc-chhhc-cccccccHHHHHHHHhcCCcCCC
Confidence            366665444321 22223 49999999999999999999884

>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=95.27  E-value=0.0056  Score=31.84  Aligned_cols=30  Identities=27%  Similarity=0.695  Sum_probs=21.9

Q ss_pred             CC-ccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           65 CH-HGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        65 C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      |. |..|..|+..-+..+..||+|..+++.+
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            76 9999999999999999999999998754

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.

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

Probab=95.26  E-value=0.022  Score=36.98  Aligned_cols=50  Identities=26%  Similarity=0.634  Sum_probs=32.9

Q ss_pred             cccccccccccccCCCeeEeC------C-----CCc-cccHhhHHHHHhC------------------------------
Q 036238           43 SADCAVCLSKISSAEPLQVLP------T-----CHH-GFHAHCIDAWLVL------------------------------   80 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~------~-----C~H-~Fh~~Ci~~wl~~------------------------------   80 (106)
                      +..|+||||--   ...+.|-      +     |+- .-|..|++++-+.                              
T Consensus         2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            56899999973   3334443      1     332 3578999987641                              


Q ss_pred             -CCCCcccCCCCCCCC
Q 036238           81 -HSTCPLCRANVPFCS   95 (106)
Q Consensus        81 -~~~CP~Cr~~~~~~~   95 (106)
                       +..||+||..+..+.
T Consensus        79 ~~L~CPLCRG~V~GWt   94 (162)
T PF07800_consen   79 PELACPLCRGEVKGWT   94 (162)
T ss_pred             ccccCccccCceeceE
Confidence             124999999987654

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.

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

Probab=95.02  E-value=0.0089  Score=42.80  Aligned_cols=43  Identities=30%  Similarity=0.627  Sum_probs=29.0

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      .|--|--.+.  ..-++.| |.|+||.+|.+.  ...+.||.|-.++.
T Consensus        92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            3655644332  2335677 999999999774  34568999977654

>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=95.02  E-value=0.023  Score=40.13  Aligned_cols=50  Identities=22%  Similarity=0.658  Sum_probs=36.1

Q ss_pred             cccccccccccccCCC-eeEeCCCC-----ccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           43 SADCAVCLSKISSAEP-LQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~-~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      +..|-||.++...... ....| |.     +..|..|++.|+..  +..|.+|......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            4679999997653321 34555 55     66899999999984  5669999876643

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

Probab=94.90  E-value=0.013  Score=39.73  Aligned_cols=40  Identities=28%  Similarity=0.736  Sum_probs=30.2

Q ss_pred             ccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      |-.|.+.   ...+..+| |.|. +|..|-..    -..||+|+.+...
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence            8888766   45678888 9986 99999654    3569999886543

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

Probab=94.84  E-value=0.026  Score=40.33  Aligned_cols=50  Identities=24%  Similarity=0.390  Sum_probs=36.3

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ....+-.+||||.+.+..+  +...+ =||.-|.+|-.   +..+.||.||.++..
T Consensus        43 ~~~~~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   43 LLDLDLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIGN   92 (299)
T ss_pred             ccchhhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCcccccccc
Confidence            3345566899999999765  22222 36999998865   357789999999873

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.80  E-value=0.022  Score=39.75  Aligned_cols=60  Identities=22%  Similarity=0.535  Sum_probs=39.8

Q ss_pred             CCCCccccccccccccccCCCe-eEeCCCC-----ccccHhhHHHHHhCCC--------CCcccCCCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPL-QVLPTCH-----HGFHAHCIDAWLVLHS--------TCPLCRANVPFCSPQR   98 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~-~~l~~C~-----H~Fh~~Ci~~wl~~~~--------~CP~Cr~~~~~~~~~~   98 (106)
                      .+.+.+..|=||+..=++.... -+-| |.     |=.|.+|+..|+..++        +||.|+.+.-..-|..
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l   88 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQL   88 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeecccc
Confidence            3345566799999874433222 2334 54     6799999999997422        4999998776554444

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

Probab=94.64  E-value=0.021  Score=42.86  Aligned_cols=36  Identities=31%  Similarity=0.566  Sum_probs=30.1

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL   80 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~   80 (106)
                      +++..|+||..-|.++   +++| |+|..|..|...-+.+
T Consensus         2 eeelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREP---IILP-CSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCc---eEee-cccHHHHHHHHhhccc
Confidence            4677899999999755   8898 9999999999876554

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

Probab=94.42  E-value=0.041  Score=34.76  Aligned_cols=53  Identities=17%  Similarity=0.470  Sum_probs=37.2

Q ss_pred             ccccccccccccccCCCeeEeC--CCCccccHhhHHHHHhC---CCCCcccCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLP--TCHHGFHAHCIDAWLVL---HSTCPLCRANVPFCSP   96 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~--~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~~~   96 (106)
                      .-.+|.||.|.-.+..  ..-|  -||-..|..|-..-++.   ...||.|+..+.....
T Consensus        79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~  136 (140)
T PF05290_consen   79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS  136 (140)
T ss_pred             CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence            5678999998754321  1122  49999999986655553   6779999998876543

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

Probab=94.31  E-value=0.015  Score=48.31  Aligned_cols=47  Identities=26%  Similarity=0.666  Sum_probs=37.8

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~   90 (106)
                      .....|.||++.+....  .+. .|||.++..|+..|+..+..||+|+..
T Consensus      1151 ~~~~~c~ic~dil~~~~--~I~-~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQG--GIA-GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             hcccchHHHHHHHHhcC--Cee-eechhHhhhHHHHHHHHhccCcchhhh
Confidence            44557999999987332  233 399999999999999999999999753

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

Probab=94.24  E-value=0.029  Score=41.08  Aligned_cols=29  Identities=28%  Similarity=0.838  Sum_probs=21.9

Q ss_pred             CCccccHhhHHHHHhC-------------CCCCcccCCCCCC
Q 036238           65 CHHGFHAHCIDAWLVL-------------HSTCPLCRANVPF   93 (106)
Q Consensus        65 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~   93 (106)
                      |.-.+|.+|+-+|+-.             +-.||+||+.+.-
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            4456789999999952             3369999998853

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

>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=94.13  E-value=0.045  Score=43.89  Aligned_cols=52  Identities=21%  Similarity=0.622  Sum_probs=37.7

Q ss_pred             CccccccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCcccCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~   94 (106)
                      +++..|-||..+=..+++ ..-| |.     ...|.+|+.+|+.-  ...|-+|..++..+
T Consensus        10 ~d~~~CRICr~e~~~d~p-LfhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk   68 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDP-LFHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK   68 (1175)
T ss_pred             ccchhceeecCCCCCCCc-Cccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence            344689999987544433 4445 55     46899999999986  44599999887654

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

Probab=93.89  E-value=0.023  Score=39.45  Aligned_cols=48  Identities=25%  Similarity=0.562  Sum_probs=35.0

Q ss_pred             ccccccccccc-cc-cCCCeeEeCCCCccccHhhHHHHHhCCC-CCc--ccCC
Q 036238           42 ISADCAVCLSK-IS-SAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCP--LCRA   89 (106)
Q Consensus        42 ~~~~C~ICl~~-~~-~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~CP--~Cr~   89 (106)
                      .+..||||..+ |- ++..+.+-|.|-|..|.+|..+-+...+ .||  -|-+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            34579999876 33 3335555567999999999999888754 599  6643

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

Probab=93.35  E-value=0.032  Score=41.18  Aligned_cols=38  Identities=21%  Similarity=0.665  Sum_probs=27.6

Q ss_pred             ccccccccc-cccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238           42 ISADCAVCL-SKISSAEPLQVLPTCHHGFHAHCIDAWLVL   80 (106)
Q Consensus        42 ~~~~C~ICl-~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~   80 (106)
                      ...+|.||. +.....+...+. .|+|.||.+|..+.++.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence            466899999 444333333444 59999999999998874

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

Probab=93.33  E-value=0.028  Score=43.96  Aligned_cols=44  Identities=23%  Similarity=0.616  Sum_probs=31.2

Q ss_pred             ccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238           42 ISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA   89 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   89 (106)
                      +-..|.||+..|-... ..+.+ .|||..|..|++.-  .+.+|| |+.
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~l--yn~scp-~~~   54 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLL--YNASCP-TKR   54 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhH--hhccCC-CCc
Confidence            3456999988875433 33445 59999999999864  467888 543

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

Probab=92.94  E-value=0.33  Score=35.12  Aligned_cols=47  Identities=19%  Similarity=0.328  Sum_probs=35.7

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCR   88 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr   88 (106)
                      -.-..||+=-+.-.+...++.+. |||+.-..-++.-.++   ...||+|-
T Consensus       334 Hs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP  383 (396)
T COG5109         334 HSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP  383 (396)
T ss_pred             cceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence            44567998877766666778887 9999999999885554   33599993

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

Probab=92.92  E-value=0.1  Score=37.03  Aligned_cols=48  Identities=23%  Similarity=0.573  Sum_probs=34.6

Q ss_pred             cccccccc-cccCC-CeeEeCCCCccccHhhHHHHHhCC-CCCcccCCCCCC
Q 036238           45 DCAVCLSK-ISSAE-PLQVLPTCHHGFHAHCIDAWLVLH-STCPLCRANVPF   93 (106)
Q Consensus        45 ~C~ICl~~-~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~   93 (106)
                      .|++|-.+ |..++ ...+-+ |+|..|.+|...-+..+ ..||.|-..+..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence            58888765 33443 333445 99999999999988764 569999776643

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.86  E-value=0.06  Score=38.42  Aligned_cols=29  Identities=24%  Similarity=0.657  Sum_probs=22.6

Q ss_pred             CCccccHhhHHHHHh-------------CCCCCcccCCCCCC
Q 036238           65 CHHGFHAHCIDAWLV-------------LHSTCPLCRANVPF   93 (106)
Q Consensus        65 C~H~Fh~~Ci~~wl~-------------~~~~CP~Cr~~~~~   93 (106)
                      |.-.+|.+|+-+|+.             ++-+||+||+.+.-
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            556788999999884             34579999998753

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

Probab=92.37  E-value=0.11  Score=41.70  Aligned_cols=56  Identities=18%  Similarity=0.185  Sum_probs=38.5

Q ss_pred             CCccccccccccccccCC---CeeEeCCCCccccHhhHHHHHhC------CCCCcccCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAE---PLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCRANVPFCS   95 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~---~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~   95 (106)
                      ......|.+|..++.+++   .+-.+.+|+|.||..||..|..+      .-.|+.|..-|..+.
T Consensus        93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs  157 (1134)
T KOG0825|consen   93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS  157 (1134)
T ss_pred             cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence            345667888888887632   22222269999999999999975      234888877665443

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

Probab=92.17  E-value=0.11  Score=40.00  Aligned_cols=50  Identities=28%  Similarity=0.731  Sum_probs=39.1

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      .+..+.|.||+++.    ..+..+ |.   |..|+.+|+..+..||+|+..+......
T Consensus       476 ~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~  525 (543)
T KOG0802|consen  476 REPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL  525 (543)
T ss_pred             hcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence            35567899999997    234555 77   9999999999999999998877655433

>KOG0269 consensus WD40 repeat-containing protein [Function unknown]

Probab=91.10  E-value=0.21  Score=39.78  Aligned_cols=42  Identities=31%  Similarity=0.534  Sum_probs=31.6

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcc
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPL   86 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~   86 (106)
                      ...|.+|-..+.  ......+.|||.=|.+|+++|+.....||.
T Consensus       779 ~~~CtVC~~vi~--G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  779 SAKCTVCDLVIR--GVDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             hcCceeecceee--eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence            346888876653  223344479999999999999999888876

>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=91.08  E-value=0.17  Score=26.77  Aligned_cols=43  Identities=21%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             ccccccccccCC------CeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           46 CAVCLSKISSAE------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        46 C~ICl~~~~~~~------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      |--|+..|....      ....-|.|++.|+.+|=.--=+.=.+||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            445666665431      2345567999999999553223345699884

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.

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

Probab=91.07  E-value=0.13  Score=38.64  Aligned_cols=38  Identities=21%  Similarity=0.486  Sum_probs=30.5

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL   80 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~   80 (106)
                      ......|.||.+.+..  ....+. |||.|+..|....+.+
T Consensus        67 ~~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~  104 (444)
T KOG1815|consen   67 KKGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT  104 (444)
T ss_pred             CCccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence            3556789999999764  445555 9999999999999975

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.88  E-value=0.3  Score=34.22  Aligned_cols=51  Identities=18%  Similarity=0.231  Sum_probs=39.0

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ....|+|=--+|........+..|||+|-..-+.+-  ...+|++|-+++...
T Consensus       110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~  160 (293)
T KOG3113|consen  110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED  160 (293)
T ss_pred             ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence            355699988888766555556569999999887763  367899999988654

>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=90.86  E-value=0.12  Score=23.47  Aligned_cols=23  Identities=26%  Similarity=0.696  Sum_probs=12.7

Q ss_pred             cccccccccccCCCeeEeCCCCccc
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGF   69 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~F   69 (106)
                      .|+-|...+.  ......|.|||.|
T Consensus         2 ~CP~C~~~V~--~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVP--ESAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCch--hhcCcCCCCCCCC
Confidence            4666666653  2334445577766

Several members are annotated as putative helicases.

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

Probab=89.60  E-value=0.089  Score=41.42  Aligned_cols=49  Identities=22%  Similarity=0.683  Sum_probs=37.3

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC---CCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH---STCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~~   94 (106)
                      ...+|+||.+.+..+   ..+. |.|.|+..|+..-+...   ..||+|+..+...
T Consensus        20 k~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~   71 (684)
T KOG4362|consen   20 KILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR   71 (684)
T ss_pred             hhccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence            356899999998765   4554 99999999988766653   4599999766543

>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=89.29  E-value=0.42  Score=25.03  Aligned_cols=43  Identities=19%  Similarity=0.503  Sum_probs=18.2

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---C--CCCcccCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---H--STCPLCRAN   90 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~--~~CP~Cr~~   90 (106)
                      ..|+|-...+..+  ++.. .|.|.-+.+ ++.|+..   .  -.||+|.++
T Consensus         3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            4688888777543  4444 499984432 3334432   2  259999864

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.

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=89.24  E-value=0.33  Score=32.76  Aligned_cols=40  Identities=28%  Similarity=0.717  Sum_probs=28.2

Q ss_pred             cccccccccc-----cccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           43 SADCAVCLSK-----ISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        43 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      +..|-+|-++     |+. +.+...+.|+-+||..|..+     ..||-|.
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~  196 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA  196 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence            5567777653     222 35566668999999999762     6799994

>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=89.24  E-value=0.24  Score=27.35  Aligned_cols=38  Identities=16%  Similarity=0.336  Sum_probs=19.4

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL   78 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl   78 (106)
                      .+...|.+|...|.--..-..-..||++|+..|.....
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            44567999999996544334444699999999976443

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 ....

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

Probab=89.21  E-value=0.57  Score=26.91  Aligned_cols=53  Identities=15%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             Ccccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   93 (106)
                      .....|.||-+++..   ++..+..-.|+--.|..|.+-=.+. ++.||.|+.+...
T Consensus         7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr   63 (80)
T PF14569_consen    7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR   63 (80)
T ss_dssp             -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred             cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence            345689999998753   2222222246777899998755544 6779999987753

>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]

Probab=89.08  E-value=0.38  Score=32.82  Aligned_cols=50  Identities=20%  Similarity=0.489  Sum_probs=37.4

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      .-..|.+|.+-.-.+   +....||=.+|..|+..+++....||.|..-|+..
T Consensus       180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~h~  229 (235)
T KOG4718|consen  180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWTHP  229 (235)
T ss_pred             HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhcccCcc
Confidence            345799999876543   22224777899999999999999999996655543

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

Probab=88.75  E-value=0.25  Score=36.53  Aligned_cols=44  Identities=23%  Similarity=0.445  Sum_probs=32.2

Q ss_pred             ccccccccccccc--CCCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238           43 SADCAVCLSKISS--AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC   87 (106)
Q Consensus        43 ~~~C~ICl~~~~~--~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C   87 (106)
                      -..|+.|.-.++.  +=..++.. |||.|+..|...|...+..|..|
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~  351 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC  351 (384)
T ss_pred             cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence            3468888766543  33455666 99999999999998887776555

>smart00249 PHD PHD zinc finger

Probab=87.71  E-value=0.42  Score=23.54  Aligned_cols=30  Identities=23%  Similarity=0.555  Sum_probs=20.9

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      |.+|.... +++..+.-..|+..||..|+..
T Consensus         2 C~~C~~~~-~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        2 CSVCGKPD-DGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             cccCCCcC-CCCCEEECCCCCchhhhhhCCC
Confidence            67787765 3344454456999999999754

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

>TIGR00622 ssl1 transcription factor ssl1

Probab=87.34  E-value=1.2  Score=27.38  Aligned_cols=46  Identities=22%  Similarity=0.310  Sum_probs=33.8

Q ss_pred             cccccccccccccCC----------CeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           43 SADCAVCLSKISSAE----------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~----------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      ...|--|+..|....          .....+.|++.|+.+|=.-+-+.=.+||-|.
T Consensus        55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~  110 (112)
T TIGR00622        55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI  110 (112)
T ss_pred             CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence            346999999886421          1123456999999999887777777899995

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

>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=87.24  E-value=0.4  Score=24.67  Aligned_cols=43  Identities=23%  Similarity=0.544  Sum_probs=28.1

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC------CCCCcccC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCR   88 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr   88 (106)
                      .|.||... .+++..+.-..|+..||..|+..-...      .-.||.|+
T Consensus         1 ~C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~   49 (51)
T PF00628_consen    1 YCPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR   49 (51)
T ss_dssp             EBTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred             eCcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence            37889883 334455565679999999998754331      22477764

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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]

Probab=86.70  E-value=0.53  Score=33.19  Aligned_cols=48  Identities=23%  Similarity=0.564  Sum_probs=33.8

Q ss_pred             ccccccccccccCCCeeEe---CCCCccccHhhHHHHHhC---------CCCCcccCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVL---PTCHHGFHAHCIDAWLVL---------HSTCPLCRANV   91 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l---~~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~   91 (106)
                      .+|-+|.+++...+..+..   +.|+-.+|..|+..-+..         ...||.|++-+
T Consensus       183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~  242 (276)
T KOG3005|consen  183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL  242 (276)
T ss_pred             hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence            5899999999544433321   258889999999984432         45799998743

>PLN02189 cellulose synthase

Probab=85.21  E-value=1.1  Score=37.10  Aligned_cols=53  Identities=15%  Similarity=0.291  Sum_probs=36.5

Q ss_pred             CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCC
Q 036238           40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVP   92 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~   92 (106)
                      ......|.||-+++..   ++.-+....|+--.|..|.+-=.+ .++.||.|+....
T Consensus        31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~   87 (1040)
T PLN02189         31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK   87 (1040)
T ss_pred             cccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            3445589999999762   333334445777799999854333 2678999998876

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

Probab=85.00  E-value=0.43  Score=34.07  Aligned_cols=37  Identities=16%  Similarity=0.375  Sum_probs=27.3

Q ss_pred             cccccccccccccCCCeeEeCC-CCccccHhhHHHHHhC
Q 036238           43 SADCAVCLSKISSAEPLQVLPT-CHHGFHAHCIDAWLVL   80 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~-C~H~Fh~~Ci~~wl~~   80 (106)
                      ...|.+|.|.+++. +.+..|. =.|.||..|-++-+++
T Consensus       268 pLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  268 PLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             ceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHh
Confidence            35699999999864 3333331 2499999999999885

>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=84.55  E-value=0.81  Score=24.05  Aligned_cols=37  Identities=14%  Similarity=0.319  Sum_probs=25.5

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV   79 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~   79 (106)
                      ...|.+|-..|..-..-.....||++|+..|......
T Consensus         2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~   38 (57)
T cd00065           2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP   38 (57)
T ss_pred             cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence            3468899888865433233335999999999876544

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

Probab=84.49  E-value=2  Score=35.91  Aligned_cols=53  Identities=19%  Similarity=0.461  Sum_probs=35.7

Q ss_pred             CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCC
Q 036238           40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVP   92 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~   92 (106)
                      ......|.||-+++..   ++.-+....|+--.|..|.+-=.+ .++.||.|+....
T Consensus        14 ~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk   70 (1079)
T PLN02638         14 HGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK   70 (1079)
T ss_pred             ccCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence            3445589999998753   333333334666699999853222 3678999998776

>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3

Probab=84.39  E-value=1.2  Score=20.95  Aligned_cols=37  Identities=24%  Similarity=0.524  Sum_probs=23.9

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      |..|.+.+.+.+. .+.. =+..||.+|+        .|..|..++.
T Consensus         2 C~~C~~~i~~~~~-~~~~-~~~~~H~~Cf--------~C~~C~~~L~   38 (39)
T smart00132        2 CAGCGKPIRGGEL-VLRA-LGKVWHPECF--------KCSKCGKPLG   38 (39)
T ss_pred             ccccCCcccCCcE-EEEe-CCccccccCC--------CCcccCCcCc
Confidence            7778888765422 2322 4678998884        4777877653

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.

>PLN02436 cellulose synthase A

Probab=83.99  E-value=1.4  Score=36.76  Aligned_cols=53  Identities=19%  Similarity=0.428  Sum_probs=36.3

Q ss_pred             CCccccccccccccc---cCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCC
Q 036238           40 LGISADCAVCLSKIS---SAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVP   92 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   92 (106)
                      ......|.||-+++.   +++.-+....|+--.|..|.+-=.+. ++.||.|+....
T Consensus        33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~   89 (1094)
T PLN02436         33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK   89 (1094)
T ss_pred             ccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            344558999999974   33444444446667999998543332 677999998876

>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]

Probab=83.67  E-value=2  Score=31.31  Aligned_cols=53  Identities=19%  Similarity=0.501  Sum_probs=35.9

Q ss_pred             Cccccccccccccc--------------c-C-CCeeEeCCCCccccHhhHHHHHhC---------CCCCcccCCCCCCC
Q 036238           41 GISADCAVCLSKIS--------------S-A-EPLQVLPTCHHGFHAHCIDAWLVL---------HSTCPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~--------------~-~-~~~~~l~~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~~   94 (106)
                      ..+.+|++|+..=.              + + -.-...| |||+--+.=..-|.+.         +..||.|-..+...
T Consensus       339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge  416 (429)
T KOG3842|consen  339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE  416 (429)
T ss_pred             cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence            34668999987510              0 0 1123456 9999888888889874         34699998877544

>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=83.62  E-value=1.2  Score=23.34  Aligned_cols=39  Identities=23%  Similarity=0.457  Sum_probs=24.4

Q ss_pred             ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      |+-|.+.+.+.+ ..+.. -|..||.+|        ..|-.|+.++...
T Consensus         1 C~~C~~~I~~~~-~~~~~-~~~~~H~~C--------f~C~~C~~~l~~~   39 (58)
T PF00412_consen    1 CARCGKPIYGTE-IVIKA-MGKFWHPEC--------FKCSKCGKPLNDG   39 (58)
T ss_dssp             BTTTSSBESSSS-EEEEE-TTEEEETTT--------SBETTTTCBTTTS
T ss_pred             CCCCCCCccCcE-EEEEe-CCcEEEccc--------cccCCCCCccCCC
Confidence            566777766433 23223 677788877        4577887777654

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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....

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

Probab=83.41  E-value=0.11  Score=29.27  Aligned_cols=40  Identities=18%  Similarity=0.412  Sum_probs=20.6

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ..||.|..+++...        +|.+|..|-.. +.....||-|.+++.
T Consensus         2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le   41 (70)
T PF07191_consen    2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE   41 (70)
T ss_dssp             -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred             CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence            46888888765331        56666666554 344566898888775

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

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.12  E-value=0.36  Score=38.70  Aligned_cols=45  Identities=18%  Similarity=0.538  Sum_probs=31.4

Q ss_pred             CccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238           41 GISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC   87 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C   87 (106)
                      ..+..|.-|.+.....    +.+.+.- |||+||..|+..-..+++ |-.|
T Consensus       782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~  830 (846)
T KOG2066|consen  782 SVEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE  830 (846)
T ss_pred             eehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence            3344899999876522    3455665 999999999988776654 5444

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

Probab=82.85  E-value=1.2  Score=24.29  Aligned_cols=37  Identities=14%  Similarity=0.280  Sum_probs=26.2

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV   79 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~   79 (106)
                      ...|..|-..|..-..-.....||.+|+..|......
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            4579999888874332233335999999999887654

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

>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]

Probab=82.82  E-value=0.41  Score=37.28  Aligned_cols=43  Identities=23%  Similarity=0.597  Sum_probs=26.2

Q ss_pred             cccccccccc-----cccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238           43 SADCAVCLSK-----ISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA   89 (106)
Q Consensus        43 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~   89 (106)
                      ...|.+|-..     |+ .+.+.....|+++||..|+..   .+..||.|-+
T Consensus       511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R  558 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER  558 (580)
T ss_pred             eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence            4457777221     22 123333336999999999664   4555999943

>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ]

Probab=82.62  E-value=0.4  Score=35.61  Aligned_cols=36  Identities=36%  Similarity=0.664  Sum_probs=0.0

Q ss_pred             CeeEeCCCCccccHhhHHHHHhC------CCCCcccCCCCCCCCCC
Q 036238           58 PLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        58 ~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~~~   97 (106)
                      ..+.+ .|||++...   .|-..      ..+||+||..-+.....
T Consensus       303 P~VYl-~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~V~L~  344 (416)
T PF04710_consen  303 PWVYL-NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPYVPLW  344 (416)
T ss_dssp             ----------------------------------------------
T ss_pred             ceeec-cccceeeec---ccccccccccccccCCCccccCCceeEe
Confidence            33455 499986653   36532      45799999866554433

; PDB: 3EGB_B 3EGA_A.

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.85  E-value=1.5  Score=30.82  Aligned_cols=36  Identities=14%  Similarity=0.214  Sum_probs=29.7

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV   79 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~   79 (106)
                      ..+-+.|+.||.++.++   ++.| =||+|+.+||.+++.
T Consensus        40 iK~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~il   75 (303)
T KOG3039|consen   40 IKPFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL   75 (303)
T ss_pred             cCCcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence            34566799999998765   7777 899999999999874

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=81.58  E-value=0.8  Score=22.34  Aligned_cols=26  Identities=23%  Similarity=0.600  Sum_probs=14.2

Q ss_pred             cccccccccccCCC-------eeEeCCCCcccc
Q 036238           45 DCAVCLSKISSAEP-------LQVLPTCHHGFH   70 (106)
Q Consensus        45 ~C~ICl~~~~~~~~-------~~~l~~C~H~Fh   70 (106)
                      .|+-|...|..++.       .+..+.|+|.|.
T Consensus         4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~   36 (37)
T PF13719_consen    4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR   36 (37)
T ss_pred             ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence            57777776654331       223345667664

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

Probab=81.34  E-value=2.5  Score=35.25  Aligned_cols=53  Identities=17%  Similarity=0.409  Sum_probs=36.2

Q ss_pred             CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCC
Q 036238           40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVP   92 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   92 (106)
                      .-....|.||-+++..   ++.-+....|+--.|..|.+-=.+. ++.||.|+.+..
T Consensus        12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~   68 (1044)
T PLN02915         12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK   68 (1044)
T ss_pred             CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence            3456689999998753   3333333346667999998543332 677999998876

>PF13717 zinc_ribbon_4: zinc-ribbon domain

Probab=81.14  E-value=1.2  Score=21.59  Aligned_cols=26  Identities=23%  Similarity=0.469  Sum_probs=14.7

Q ss_pred             cccccccccccCCC-------eeEeCCCCcccc
Q 036238           45 DCAVCLSKISSAEP-------LQVLPTCHHGFH   70 (106)
Q Consensus        45 ~C~ICl~~~~~~~~-------~~~l~~C~H~Fh   70 (106)
                      +|+=|...|..++.       .+..+.|||.|+
T Consensus         4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~   36 (36)
T PF13717_consen    4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF   36 (36)
T ss_pred             ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence            57777777764332       123335777764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	106
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-11
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		4e-08
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		9e-07
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		2e-04
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		3e-04

>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5 Length = 55

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          ++    +CAVCL+++   E  + LP C HGFHA C+D WL  HSTCPLCR  V
Sbjct: 1  AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein 38 Length = 75

Iteration: 1
 Score = 52.8 bits (125), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 23/45 (51%), Positives = 31/45 (68%), Gaps = 1/45 (2%)
Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRAN 90
          C VC+    S + L+VLP C+H FHA C+D WL  + TCP+CRA+
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRAD 69

>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain Length = 69

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 19/46 (41%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          C +CLS +   E ++ LP C H FH  C+D WL+ +  CP+CR ++
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          +G   +C VC    +  E ++ LP C+H FH  CI  WL  H +CP+CR ++
Sbjct: 12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
           L +   CAVCL      + L + P C H FH  C+  WL +   CPLC   V
Sbjct: 11 ELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
          ++G    C +C S+    +    LP CHH FH  C+  WL    TCP+CR   P
Sbjct: 36 AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	106
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	5e-21
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-18
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	5e-18
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	5e-18
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-17
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-15
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	3e-14
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-14
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-11
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-10
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	7e-10
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	5e-09
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	7e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	8e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	5e-07
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-06
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-06
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	7e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-05
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	5e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-04

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

 Score = 78.0 bits (193), Expect = 5e-21
 Identities = 27/53 (50%), Positives = 35/53 (66%)

Query: 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          ++    +CAVCL+++   E  + LP C HGFHA C+D WL  HSTCPLCR  V
Sbjct: 1  AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 72.0 bits (177), Expect = 2e-18
 Identities = 23/49 (46%), Positives = 31/49 (63%), Gaps = 1/49 (2%)

Query: 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
             C VC+    S + L+VLP C+H FHA C+D WL  + TCP+CRA+ 
Sbjct: 23 QTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADS 70

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

 Score = 71.2 bits (175), Expect = 5e-18
 Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 34 SRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
          +    ++G    C +C S+    +    LP CHH FH  C+  WL    TCP+CR   P
Sbjct: 31 TEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFP 88

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 70.5 bits (173), Expect = 5e-18
 Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 2/63 (3%)

Query: 30 KEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89
          K+    G+        C +CLS +   E ++ LP C H FH  C+D WL+ +  CP+CR 
Sbjct: 2  KQDGEEGTEE-DTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRV 59

Query: 90 NVP 92
          ++ 
Sbjct: 60 DIE 62

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 69.4 bits (170), Expect = 2e-17
 Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
          +G   +C VC    +  E ++ LP C+H FH  CI  WL  H +CP+CR ++ 
Sbjct: 12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLT 63

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

 Score = 64.0 bits (156), Expect = 2e-15
 Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
           CAVCL      + L + P C H FH  C+  WL +   CPLC   V 
Sbjct: 17 LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVL 63

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

 Score = 61.5 bits (149), Expect = 3e-14
 Identities = 13/48 (27%), Positives = 24/48 (50%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93
          C  C ++    + + V   C+H FH  C+  W+  ++ CPLC+ +   
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76

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

 Score = 60.0 bits (146), Expect = 6e-14
 Identities = 14/49 (28%), Positives = 21/49 (42%)

Query: 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          S+ C +CL  I ++  +  +  C H  H  C +  L     CPLC    
Sbjct: 5  SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 54.3 bits (131), Expect = 1e-11
 Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 5/49 (10%)

Query: 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
           +C +C+          +LP C H F   CID W   H  CP+CR  + 
Sbjct: 16 EECCICMDG----RADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMT 59

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

 Score = 51.6 bits (124), Expect = 1e-10
 Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          C +CL   S       LP C H F   CI  W+  + TCPLC+  V
Sbjct: 8  CPICLEDPS--NYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 51.0 bits (121), Expect = 7e-10
 Identities = 16/48 (33%), Positives = 19/48 (39%)

Query: 46  CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93
           C    +  +S E       C+H FH HCI  WL     CPL      F
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 101

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

 Score = 49.1 bits (116), Expect = 5e-09
 Identities = 16/48 (33%), Positives = 19/48 (39%)

Query: 46  CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93
           C    +  +S E       C+H FH HCI  WL     CPL      F
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 112

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

 Score = 46.8 bits (111), Expect = 1e-08
 Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 3/62 (4%)

Query: 33 SSRGSLSLGISADCAVCLSKISSAEPLQVLPT---CHHGFHAHCIDAWLVLHSTCPLCRA 89
          SS   L    +  C +C+   S       L     C H F + C+   L   +TCP CR 
Sbjct: 5  SSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 64

Query: 90 NV 91
           +
Sbjct: 65 KI 66

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

 Score = 47.9 bits (113), Expect = 7e-08
 Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 15/65 (23%)

Query: 42  ISADCAVCLSKISSAEPLQVL----PTCHHGFHAHCIDAWL-----------VLHSTCPL 86
               C +C +       + ++      C    HA C++ W            V    CP 
Sbjct: 307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPF 366

Query: 87  CRANV 91
           C+A +
Sbjct: 367 CKAKL 371

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 44.9 bits (106), Expect = 8e-08
 Identities = 13/54 (24%), Positives = 18/54 (33%), Gaps = 5/54 (9%)

Query: 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRANVPFCSP 96
           C +C S +      Q   TC    H  C+  +   +    CP C    P   P
Sbjct: 17 ICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIP 67

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 44.9 bits (106), Expect = 2e-07
 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 26 HHGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTC 84
          HH +     +   S+     C +C+ K+  A   ++ P C       CI  WL    + C
Sbjct: 5  HHHHSHMDEQSVESIAEVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQC 61

Query: 85 PLCRANVP 92
          P CRA + 
Sbjct: 62 PHCRAPLQ 69

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 45.1 bits (106), Expect = 5e-07
 Identities = 13/82 (15%), Positives = 21/82 (25%), Gaps = 5/82 (6%)

Query: 11  SIHLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFH 70
           +  L         D     +E+             C +C            +  C H   
Sbjct: 300 NPDLTGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDV----KIEPCGHLMC 355

Query: 71  AHCIDAWLVLHS-TCPLCRANV 91
             C+ +W       CP CR  +
Sbjct: 356 TSCLTSWQESEGQGCPFCRCEI 377

>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 = 41.7 bits (98), Expect = 1e-06
 Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 5/61 (8%)

Query: 36 GSLSLGISAD--CAVCLSKISSAEPLQVLPT---CHHGFHAHCIDAWLVLHSTCPLCRAN 90
          G+  L  S    C +C+   S       L     C H F + C+   L   +TCP CR  
Sbjct: 1  GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

Query: 91 V 91
          +
Sbjct: 61 I 61

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

 Score = 41.3 bits (97), Expect = 1e-06
 Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 3/49 (6%)

Query: 46 CAVCLSKISSAEPLQVLPT---CHHGFHAHCIDAWLVLHSTCPLCRANV 91
          C +C+   S       L     C H F + C+   L   +TCP CR  +
Sbjct: 6  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 41.0 bits (96), Expect = 3e-06
 Identities = 18/60 (30%), Positives = 23/60 (38%), Gaps = 4/60 (6%)

Query: 33 SSRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
          SS  +       +CA+CL       P  V   C H F   C+     L   C LCR  +P
Sbjct: 5  SSGNTAPSLTVPECAICLQTCV--HP--VSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60

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

 Score = 39.8 bits (93), Expect = 7e-06
 Identities = 9/46 (19%), Positives = 13/46 (28%), Gaps = 4/46 (8%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          C +C     +     V+  C H F   C          C +C    
Sbjct: 18 CFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQPT 59

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

 Score = 41.3 bits (96), Expect = 1e-05
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 5/50 (10%)

Query: 45  DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRANVP 92
            C +C S +      Q   TC    H  C+  +   +    CP C    P
Sbjct: 182 ICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 228

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

 Score = 40.0 bits (93), Expect = 2e-05
 Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 4/51 (7%)

Query: 46  CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP 96
           C +C      A    V   C H F ++CI+ W+     CP+CR ++   + 
Sbjct: 67  CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTY 113

>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 = 39.0 bits (91), Expect = 3e-05
 Identities = 14/53 (26%), Positives = 18/53 (33%), Gaps = 3/53 (5%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR 98
          C +C      A     +  C H F   CI  +L     CP+C   V    P  
Sbjct: 18 CVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLL 67

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

 Score = 37.8 bits (88), Expect = 4e-05
 Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          C++C   +  A     +  C H F   CI       + CP C   V
Sbjct: 18 CSICKGYLIDA---TTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 38.7 bits (89), Expect = 5e-05
 Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 19/64 (29%)

Query: 45 DCAVCLSKISSA--------------EPLQVLPTCHHGFHAHCIDAWLV-----LHSTCP 85
          DC +C+ K++ A                +  L  C H FH  C+ A            CP
Sbjct: 27 DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 86 LCRA 89
           C+ 
Sbjct: 87 SCKT 90

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

 Score = 36.3 bits (84), Expect = 2e-04
 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
          C +C    + A    ++P C H + + CI  +L   + CP C   V
Sbjct: 25 CGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	106
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.81
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.79
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.79
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.79
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.78
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.76
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.74
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.72
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.72
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.71
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.71
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.7
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.69
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.68
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.68
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.66
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.66
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.66
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.66
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.66
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.65
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.65
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.65
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.65
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.64
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.64
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.63
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.61
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.61
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.61
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.58
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.57
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.57
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.55
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.55
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.54
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.54
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.53
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.53
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.53
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.5
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.49
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.49
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.49
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.47
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.47
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.47
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.46
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.46
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.46
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.44
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.41
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.39
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.39
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.36
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.33
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.3
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.28
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.25
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.23
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.22
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.17
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.16
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.15
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	99.15
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.14
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.08
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.97
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.92
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.91
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.77
3nw0_A	238	Non-structural maintenance of chromosomes element	98.76
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	97.41
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.16
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.67
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	96.17
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	95.73
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	95.46
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	95.09
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	94.8
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	94.53
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	94.49
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	94.46
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	94.3
1we9_A	64	PHD finger family protein; structural genomics, PH	94.29
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	93.99
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	93.65
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	93.44
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	93.43
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	93.35
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	93.32
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	92.82
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	92.58
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	92.06
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	91.96
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	91.77
2yt5_A	66	Metal-response element-binding transcription facto	91.43
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	91.12
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	91.11
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	90.97
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	90.79
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	90.77
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	90.48
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	90.04
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	89.83
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	89.37
1wem_A	76	Death associated transcription factor 1; structura	89.31
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	89.17
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	89.11
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	89.03
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	88.98
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	88.7
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	88.48
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	88.46
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	88.43
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	88.29
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	88.16
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	88.14
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	87.93
1weu_A	91	Inhibitor of growth family, member 4; structural g	87.82
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	87.35
1dvp_A	220	HRS, hepatocyte growth factor-regulated tyrosine k	87.19
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	86.98
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	86.64
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	85.95
3ask_A	226	E3 ubiquitin-protein ligase UHRF1; histone reader	85.21
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	84.15
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	84.04
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	83.87
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	83.77
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	82.95
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	82.6
1zbd_B	134	Rabphilin-3A; G protein, effector, RABCDR, synapti	82.59
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	82.59
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	82.56
2zet_C	153	Melanophilin; complex, GTP-binding protein, GTPase	82.52
1z60_A	59	TFIIH basal transcription factor complex P44 subun	82.03
2co8_A	82	NEDD9 interacting protein with calponin homology a	81.97
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	81.91
3mjh_B	34	Early endosome antigen 1; protein-zinc finger comp	81.57
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	80.33
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	80.04

>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=99.81  E-value=6.2e-20  Score=102.87  Aligned_cols=59  Identities=34%  Similarity=0.877  Sum_probs=51.3

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR   98 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~   98 (106)
                      ....+..|+||++.+..++.+..++ |||.||..||..|+..+.+||+||+++....+..
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   68 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE   68 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSCCCCC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCcCCCC
Confidence            3455678999999998777888898 9999999999999999999999999998776543

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

Probab=99.79  E-value=2e-19  Score=102.06  Aligned_cols=58  Identities=34%  Similarity=0.814  Sum_probs=50.5

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      .....+..|+||++.+..++.+..++ |||.||..||.+|++.+.+||+||+++.....
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           10 KELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCCCCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCS
T ss_pred             ccCCCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccccc
Confidence            34456778999999999888888888 99999999999999999999999999976443

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

Probab=99.79  E-value=2.2e-19  Score=102.79  Aligned_cols=59  Identities=34%  Similarity=0.803  Sum_probs=51.1

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      ....++.+|+||++.|..++.+..++ |||.||..||.+|++.+.+||+||+++......
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   68 (78)
T 2ect_A           10 EHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTA   68 (78)
T ss_dssp             TTSSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSC
T ss_pred             ccCCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccC
Confidence            34456778999999999888888888 999999999999999999999999999875443

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

Probab=99.79  E-value=9.6e-20  Score=103.73  Aligned_cols=55  Identities=42%  Similarity=0.928  Sum_probs=49.0

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...++.+|+||++.+..++.+..++ |||.||..||..|++.+.+||+||+++.+.
T Consensus        19 ~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           19 HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            3456678999999999888888898 999999999999999999999999998764

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

Probab=99.78  E-value=1.1e-19  Score=97.56  Aligned_cols=52  Identities=52%  Similarity=1.116  Sum_probs=46.4

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      +++.+|+||++.+..++.+..++.|||.||..||.+|++++.+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            4567899999999987777777669999999999999999999999999874

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

Probab=99.76  E-value=5.3e-19  Score=104.26  Aligned_cols=53  Identities=38%  Similarity=0.888  Sum_probs=47.8

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ..++..|+||++.|..++.+..++ |||.||..||..|+..+.+||+||+++..
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            345678999999998887888898 99999999999999999999999999875

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

Probab=99.74  E-value=2.4e-18  Score=99.49  Aligned_cols=53  Identities=26%  Similarity=0.735  Sum_probs=42.8

Q ss_pred             cccccccccccccc-----------CCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISS-----------AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~-----------~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      +++.|+||++.|.+           ++.++.++.|||.||..||.+|++++.+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            45678888888854           344555555999999999999999999999999998653

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

Probab=99.72  E-value=4.3e-18  Score=94.97  Aligned_cols=55  Identities=25%  Similarity=0.577  Sum_probs=45.8

Q ss_pred             CCCCccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ....+...|+||++.+.++    ..++.++ |||.||..||..|+..+.+||+||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            3445677899999999754    3346677 99999999999999999999999998864

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

Probab=99.72  E-value=3.2e-18  Score=96.13  Aligned_cols=57  Identities=23%  Similarity=0.498  Sum_probs=47.3

Q ss_pred             CCCccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      ...++.+|+||++.+.++    +..+.++ |||.||..||.+|++.+.+||+||+++.....
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            345667899999998753    4446776 99999999999999999999999999986543

>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=99.71  E-value=7.8e-18  Score=90.22  Aligned_cols=51  Identities=33%  Similarity=0.726  Sum_probs=43.6

Q ss_pred             CccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      .++.+|+||++.+.+++ .+..++ |||.||..||.+|+..+.+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            45678999999996543 566777 9999999999999999999999999875

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

Probab=99.71  E-value=3e-17  Score=92.67  Aligned_cols=61  Identities=23%  Similarity=0.444  Sum_probs=48.6

Q ss_pred             CCCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCC
Q 036238           36 GSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRA   99 (106)
Q Consensus        36 ~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~   99 (106)
                      ......++..|+||++.+.++  +.+++ |||.||..||..|+..+.+||+||+++....+..+
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   68 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSG   68 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCCC
T ss_pred             hHhhcCCCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccccccc
Confidence            334456678899999998753  33346 99999999999999999999999999987665543

>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=99.70  E-value=3.7e-17  Score=99.61  Aligned_cols=53  Identities=26%  Similarity=0.538  Sum_probs=42.4

Q ss_pred             ccccccccccccccCC---------------CeeEeCCCCccccHhhHHHHH-----hCCCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAE---------------PLQVLPTCHHGFHAHCIDAWL-----VLHSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~Fh~~Ci~~wl-----~~~~~CP~Cr~~~~~~~   95 (106)
                      .+.+|+||++.|..+.               .+..++ |+|.||..||..|+     ..+.+||+||+.+....
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCC
Confidence            3568999999997543               233666 99999999999999     45678999999987653

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

Probab=99.69  E-value=1.4e-17  Score=91.61  Aligned_cols=53  Identities=25%  Similarity=0.573  Sum_probs=45.0

Q ss_pred             ccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      ++.+|+||++.+.++    +.+..++ |||.||..|+.+|++++.+||+||+++....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            456899999998753    3456777 9999999999999999999999999987643

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

Probab=99.68  E-value=1e-17  Score=94.40  Aligned_cols=52  Identities=31%  Similarity=0.627  Sum_probs=44.6

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...++..|+||++.+.++   +.++ |||.||..||..|+..+.+||+||+++...
T Consensus        11 ~~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             cCCCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            345667899999998643   6777 999999999999999999999999998754

>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=99.68  E-value=3.3e-17  Score=99.12  Aligned_cols=51  Identities=33%  Similarity=0.753  Sum_probs=43.1

Q ss_pred             ccccccccccccccCC---------------CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           42 ISADCAVCLSKISSAE---------------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      +++.|+||++.|..+.               .++.++ |+|.||..||.+|+.++.+||+||+++..
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            5678999999987541               355666 99999999999999999999999999754

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

Probab=99.66  E-value=3.1e-17  Score=91.99  Aligned_cols=52  Identities=33%  Similarity=0.866  Sum_probs=44.9

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      ...+...|+||++.+.+    +.++ |||.||..|+.+|+..+.+||+||+++....
T Consensus        11 ~~~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             cCCCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            34567789999999864    6787 9999999999999999999999999987654

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

Probab=99.66  E-value=1.9e-16  Score=91.37  Aligned_cols=63  Identities=24%  Similarity=0.514  Sum_probs=49.8

Q ss_pred             CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC------CCCCcccCCCCCCCCCCCCCCcc
Q 036238           37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCRANVPFCSPQRAGLVS  103 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~~~~~~~~~  103 (106)
                      .....++..|+||++.+.++   +.++ |||.||..|+..|+..      ...||+||.++.......+..+.
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~   81 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVA   81 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCC
T ss_pred             HHhCccCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHH
Confidence            34456677899999998754   5777 9999999999999987      66899999999876555544433

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

Probab=99.66  E-value=1.5e-16  Score=91.70  Aligned_cols=58  Identities=26%  Similarity=0.673  Sum_probs=46.6

Q ss_pred             CCCCCccccccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhCC--CCCcccCCCCCCCCC
Q 036238           37 SLSLGISADCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVLH--STCPLCRANVPFCSP   96 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~~~~   96 (106)
                      .....++..|.||++++.+++.+ ++| |+     |.||..||.+|+..+  .+||+||.++.....
T Consensus         9 s~~~~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~   73 (80)
T 2d8s_A            9 SITPSSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETK   73 (80)
T ss_dssp             CCCCTTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCC
T ss_pred             CCCCCCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcc
Confidence            33445567899999999866554 688 96     999999999999875  489999999976543

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

Probab=99.66  E-value=2.8e-16  Score=90.62  Aligned_cols=63  Identities=24%  Similarity=0.503  Sum_probs=50.0

Q ss_pred             CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC------CCCCcccCCCCCCCCCCCCCCcc
Q 036238           37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCRANVPFCSPQRAGLVS  103 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~~~~~~~~~  103 (106)
                      .....+...|+||++.+.++   +.++ |||.||..|+..|+..      ...||+||.++.......+..+.
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~   81 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRHVA   81 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCCCC
T ss_pred             HHHccCCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHHHH
Confidence            34456677899999998754   5567 9999999999999987      77899999999876655554443

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

Probab=99.66  E-value=2e-16  Score=92.04  Aligned_cols=57  Identities=19%  Similarity=0.538  Sum_probs=46.9

Q ss_pred             CCCCCccccccccccccccCCC-eeEeCCCCccccHhhHHHHHhCC---CCCcccCCCCCCC
Q 036238           37 SLSLGISADCAVCLSKISSAEP-LQVLPTCHHGFHAHCIDAWLVLH---STCPLCRANVPFC   94 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~~   94 (106)
                      .....+..+|+||++.|.+.+. .+.++ |||.||..|+..|+..+   ..||+||+++...
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             hhhccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            3445667789999999986553 67777 99999999999999875   7899999988654

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

Probab=99.65  E-value=3.1e-16  Score=88.95  Aligned_cols=55  Identities=25%  Similarity=0.530  Sum_probs=44.4

Q ss_pred             CCCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC--CCCcccCCCCCC
Q 036238           36 GSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRANVPF   93 (106)
Q Consensus        36 ~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~   93 (106)
                      ......++..|+||++.|.++   +.++.|||.||..||..|+..+  ..||+||+++..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             ccccCCCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            344556778999999999754   5565599999999999999865  689999998654

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

Probab=99.65  E-value=2.4e-16  Score=87.43  Aligned_cols=52  Identities=21%  Similarity=0.466  Sum_probs=43.0

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVPFC   94 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~~   94 (106)
                      ...++..|+||++.+.++   +.++ |||.||..||.+|+. .+.+||+||+++...
T Consensus        11 ~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCSP---KQTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             SCCCCEECTTTCCEESSC---CCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCcCCCCCCCChHhcCe---eECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            345677899999999755   4466 999999999999995 567899999998764

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

Probab=99.65  E-value=5.2e-17  Score=92.85  Aligned_cols=62  Identities=23%  Similarity=0.473  Sum_probs=48.8

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-------CCCCcccCCCCCCCCCCCCCCcc
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-------HSTCPLCRANVPFCSPQRAGLVS  103 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-------~~~CP~Cr~~~~~~~~~~~~~~~  103 (106)
                      ....++..|+||++.+.++   +.++ |||.||..||..|+..       ...||+||.++.......+..+.
T Consensus         7 ~~~~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~   75 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHLA   75 (79)
T ss_dssp             CCCCCCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSSC
T ss_pred             hhcccCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHHH
Confidence            3445677899999999754   4567 9999999999999987       56799999999876555554443

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

Probab=99.65  E-value=9.4e-17  Score=89.45  Aligned_cols=50  Identities=36%  Similarity=0.843  Sum_probs=43.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ..+..|+||++.+.+  ....++ |||.||..|+..|+.++.+||+||+++..
T Consensus         3 ~~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            3 TVAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            345689999999863  356777 99999999999999999999999999875

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

Probab=99.64  E-value=3.8e-16  Score=88.02  Aligned_cols=54  Identities=26%  Similarity=0.513  Sum_probs=44.2

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh---CCCCCcccCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV---LHSTCPLCRANVPFCS   95 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~---~~~~CP~Cr~~~~~~~   95 (106)
                      ....++..|+||++.+.+   .+.++ |||.||..||..|++   .+..||+||+++....
T Consensus        15 ~~~~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             HhCccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            345667789999999864   36677 999999999999997   3568999999987653

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

Probab=99.64  E-value=1.9e-16  Score=91.12  Aligned_cols=51  Identities=20%  Similarity=0.415  Sum_probs=43.7

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ........|+||++.+.++   ++++ |||.||..||..|+.....||+||+++.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             ccCCCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3345567899999998653   5677 9999999999999999999999999986

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

Probab=99.63  E-value=1.7e-16  Score=90.67  Aligned_cols=57  Identities=16%  Similarity=0.374  Sum_probs=47.1

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQRA   99 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~   99 (106)
                      ...++..|+||++.|.++   +.++ |||.||..||..|+.. +.+||+||+++.......+
T Consensus         4 ~~~~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n   61 (78)
T 1t1h_A            4 EFPEYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPN   61 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEEC
T ss_pred             CCcccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccC
Confidence            345677899999999754   6777 9999999999999997 7889999999976554433

>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=99.61  E-value=4.3e-17  Score=100.10  Aligned_cols=52  Identities=33%  Similarity=0.724  Sum_probs=1.0

Q ss_pred             ccccccccccccccCC---------------CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISSAE---------------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      +++.|+||++.|.++.               .+..++ |+|.||..||.+|+..+.+||+||+++...
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~~  113 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEFQ  113 (117)
T ss_dssp             CC------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeeeee
Confidence            4578999999996521               222345 999999999999999999999999998653

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

Probab=99.61  E-value=2.2e-16  Score=99.39  Aligned_cols=49  Identities=29%  Similarity=0.747  Sum_probs=42.9

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ++..|+||++.+.++   +++| |||.||..||..|+..+.+||+||+++...
T Consensus        52 ~~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            455799999998654   7788 999999999999999999999999998654

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

Probab=99.61  E-value=1e-15  Score=86.91  Aligned_cols=58  Identities=21%  Similarity=0.481  Sum_probs=46.8

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC--CCCcccCCCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRANVPFCSPQRA   99 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~~~~~~~   99 (106)
                      ..+...+|+||.+.+..++   ..+.|+|.||..||.+|++.+  .+||+||++|....+..+
T Consensus        11 y~~~i~~C~IC~~~i~~g~---~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~~~~~   70 (74)
T 2ct0_A           11 YPDAVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKSG   70 (74)
T ss_dssp             CSSSSCBCSSSCCBCSSSE---ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCCCCCC
T ss_pred             ccCCCCcCcchhhHcccCC---ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCCCCCC
Confidence            3455678999999998653   222599999999999999987  789999999987766554

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

Probab=99.58  E-value=1e-15  Score=94.79  Aligned_cols=55  Identities=24%  Similarity=0.532  Sum_probs=46.5

Q ss_pred             CccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           41 GISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      .++.+|+||++.|.++    +.++.++ |||.||..||.+|++.+.+||+||+++.....
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            4567899999999754    4457777 99999999999999999999999999976543

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

Probab=99.57  E-value=5.2e-15  Score=81.21  Aligned_cols=46  Identities=28%  Similarity=0.601  Sum_probs=38.3

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh---CCCCCccc
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV---LHSTCPLC   87 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~---~~~~CP~C   87 (106)
                      ....++..|+||++.+.++   +.++ |||.||..||.+|++   .+..||+|
T Consensus        15 ~~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456677899999998754   6677 999999999999998   45689998

>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=99.57  E-value=3.7e-16  Score=93.43  Aligned_cols=54  Identities=26%  Similarity=0.619  Sum_probs=44.3

Q ss_pred             CCccccccccccccccCCCeeE-eCCCCccccHhhHHHHHhCC-CCCcccCCCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQV-LPTCHHGFHAHCIDAWLVLH-STCPLCRANVPFCSPQ   97 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~-l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~~~~~   97 (106)
                      ..++..|+||++.+.++   +. ++ |||.||..||..|+..+ ..||+||.++......
T Consensus        19 l~~~~~C~IC~~~~~~p---~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~   74 (100)
T 3lrq_A           19 IAEVFRCFICMEKLRDA---RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELV   74 (100)
T ss_dssp             HHHHTBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCE
T ss_pred             CCCCCCCccCCccccCc---cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhH
Confidence            34567899999999643   55 76 99999999999999987 6999999999754433

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

Probab=99.55  E-value=3.5e-15  Score=82.45  Aligned_cols=54  Identities=22%  Similarity=0.444  Sum_probs=42.9

Q ss_pred             cccccccccc-ccccCCCe-eEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCC
Q 036238           42 ISADCAVCLS-KISSAEPL-QVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSP   96 (106)
Q Consensus        42 ~~~~C~ICl~-~~~~~~~~-~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~   96 (106)
                      ++..|+||++ .+.++... +.++ |||.||..||.+|+.+ +..||+||+++.....
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            3568999999 77766443 4566 9999999999999765 4679999999976544

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

Probab=99.55  E-value=5.9e-15  Score=79.54  Aligned_cols=46  Identities=33%  Similarity=0.866  Sum_probs=37.5

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh---CCCCCccc
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV---LHSTCPLC   87 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~---~~~~CP~C   87 (106)
                      ....+...|+||++.+.++   +.++ |||.||..||.+|+.   .+.+||+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hccccCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3445677899999999765   5577 999999999999954   46789998

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

Probab=99.54  E-value=7e-15  Score=86.30  Aligned_cols=52  Identities=27%  Similarity=0.584  Sum_probs=42.4

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVP   92 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   92 (106)
                      ....++..|+||++.|.++   +.++.|||.||..||..|+..  +..||+||.++.
T Consensus         8 ~~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCCTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             ccCCcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            3446678899999999754   566559999999999999975  358999999973

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

Probab=99.54  E-value=1.8e-15  Score=90.08  Aligned_cols=51  Identities=24%  Similarity=0.624  Sum_probs=43.2

Q ss_pred             CccccccccccccccCCCeeEe-CCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVL-PTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l-~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      .+...|+||++.+.++   +.+ + |||.||..||..|+..+.+||+||.++....
T Consensus        20 ~~~~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   71 (99)
T 2y43_A           20 DDLLRCGICFEYFNIA---MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD   71 (99)
T ss_dssp             HHHTBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGGG
T ss_pred             CCCCCcccCChhhCCc---CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChhh
Confidence            4567899999998753   555 6 9999999999999999999999999987543

>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=99.53  E-value=5.3e-15  Score=89.32  Aligned_cols=51  Identities=27%  Similarity=0.582  Sum_probs=43.8

Q ss_pred             CCccccccccccccccCCCeeEe-CCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVL-PTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l-~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ..++..|+||++.+.++   +.+ + |||.||..||..|+..+.+||+||.++...
T Consensus        12 ~~~~~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDA---TTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             HGGGTBCTTTSSBCSSE---EEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             cCCcCCCccCChHHhCc---CEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            35577899999998643   555 7 999999999999999999999999998765

>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=99.53  E-value=3.9e-15  Score=90.12  Aligned_cols=54  Identities=28%  Similarity=0.591  Sum_probs=44.2

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC---CCcccCCCCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS---TCPLCRANVPFCSPQRA   99 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~---~CP~Cr~~~~~~~~~~~   99 (106)
                      +...|+||++.+.++   +.++ |||.||..||..|+..+.   .||+||.++.......+
T Consensus        20 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~   76 (112)
T 1jm7_A           20 KILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQES   76 (112)
T ss_dssp             HHTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCC
T ss_pred             CCCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCcc
Confidence            456899999998654   5567 999999999999998754   89999999987655444

>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=99.53  E-value=6.2e-15  Score=91.03  Aligned_cols=49  Identities=20%  Similarity=0.513  Sum_probs=41.9

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC-CCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~   93 (106)
                      .++..|+||++.+.++   +.++ |||.||..||..|+..+. .||+||.++..
T Consensus        50 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4566799999999754   6677 999999999999998644 89999999976

>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=99.50  E-value=1.3e-14  Score=93.60  Aligned_cols=50  Identities=30%  Similarity=0.616  Sum_probs=41.9

Q ss_pred             CCccccccccccccccCCCeeEe-CCCCccccHhhHHHHHhC-CCCCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVL-PTCHHGFHAHCIDAWLVL-HSTCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l-~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   93 (106)
                      ..+...|+||++.+.++   +.+ + |||.||..||..|+.. +..||+||.++..
T Consensus        51 ~~~~~~C~IC~~~~~~p---~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNT---MTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             CHHHHBCTTTSSBCSSE---EEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCCCCcccChHhhCc---CEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            34566899999999753   455 6 9999999999999997 7789999999854

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

Probab=99.49  E-value=1.2e-14  Score=89.91  Aligned_cols=55  Identities=24%  Similarity=0.524  Sum_probs=45.7

Q ss_pred             CCccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      ..+...|+||++.+..+    ...+.++ |||.||..||.+|++.+.+||+||+++....
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            45677899999998753    3446676 9999999999999999999999999987543

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

Probab=99.49  E-value=3.3e-14  Score=85.08  Aligned_cols=56  Identities=13%  Similarity=-0.000  Sum_probs=47.8

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      ....++..|+||++.|.++   ++++ |||.|+..||..|+..+.+||+||.++......
T Consensus        24 ~~~p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~   79 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESMLE   79 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSE
T ss_pred             ccCcHhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhhce
Confidence            3456678899999999766   7888 999999999999999888999999999765433

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

Probab=99.49  E-value=7.5e-14  Score=80.01  Aligned_cols=57  Identities=16%  Similarity=0.369  Sum_probs=43.3

Q ss_pred             CCCccccccccccccccCCC-eeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEP-LQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSP   96 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~   96 (106)
                      ...++.+|+||++.+..++. ..-++ |||.||..|+..++.. +..||+||+++.....
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            34667789999999864332 22244 9999999999998754 5679999999976544

>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=99.47  E-value=7.8e-14  Score=83.13  Aligned_cols=56  Identities=14%  Similarity=0.084  Sum_probs=47.6

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCC-ccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCH-HGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      ....++..|+||++.|.++   ++++ || |.|+..||..|+..+.+||+||.++......
T Consensus        17 ~~~p~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~   73 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSE
T ss_pred             hcCcHhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhhce
Confidence            3446678899999999765   7787 99 9999999999999888999999999865443

>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=99.47  E-value=9.9e-15  Score=89.10  Aligned_cols=52  Identities=27%  Similarity=0.460  Sum_probs=43.7

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      ..++..|+||++.+.++   +.++ |||.||..||..|+.. +.+||+||.++....
T Consensus        20 ~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           20 FVKSISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHHHTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             ccCCCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            34567899999998654   5677 9999999999999987 778999999987644

>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=99.47  E-value=8.9e-15  Score=89.18  Aligned_cols=51  Identities=24%  Similarity=0.617  Sum_probs=42.9

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPF   93 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   93 (106)
                      ...++..|+||++.+.++   +.++ |||.||..||..|+.. +..||+||.++..
T Consensus        11 ~~~~~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            345677899999998754   6677 9999999999999987 6689999999863

>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=99.46  E-value=3.5e-14  Score=90.57  Aligned_cols=49  Identities=20%  Similarity=0.497  Sum_probs=42.3

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC-CCcccCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCPLCRANVPFC   94 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~~   94 (106)
                      +...|+||++.+.++   ++++ |||.||..||..|+..+. .||+||.++...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            456799999998654   6677 999999999999999754 899999999876

>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=99.46  E-value=3.4e-14  Score=78.51  Aligned_cols=50  Identities=18%  Similarity=0.421  Sum_probs=41.4

Q ss_pred             CCCccccccccccccccCCCeeEe--CCCCcc-ccHhhHHHHHhCCCCCcccCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVL--PTCHHG-FHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l--~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ...++.+|.||++...+   ...+  | |||. |+..|+..|...+..||+||+++.
T Consensus         4 ~~~~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            4 PLNAIEPCVICQGRPKN---GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             -CGGGSCCTTTSSSCSC---EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCCCcCCCCcCCCCCCC---EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            34567789999998643   3555  8 9999 899999999998899999999885

>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=99.46  E-value=3.9e-14  Score=86.81  Aligned_cols=53  Identities=25%  Similarity=0.459  Sum_probs=44.6

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC-CCcccCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCPLCRANVPFCS   95 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~~~   95 (106)
                      ...++..|+||++.+.++   +.++ |||.||..||..|+..+. +||+||.++....
T Consensus        14 ~~~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           14 PLESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            456677999999998754   6677 999999999999998765 8999999987643

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

Probab=99.44  E-value=6.1e-14  Score=81.56  Aligned_cols=54  Identities=13%  Similarity=-0.007  Sum_probs=46.5

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      ...++..|+||++.|.++   ++++ |||.|+..||..|+..+.+||+||.++.....
T Consensus        10 ~~p~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l   63 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTESML   63 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGC
T ss_pred             cCchheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChHhc
Confidence            345678899999999765   7888 99999999999999988899999999876443

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

Probab=99.41  E-value=7.9e-14  Score=75.03  Aligned_cols=48  Identities=27%  Similarity=0.666  Sum_probs=39.7

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      .+...|+||++.+.++   +.++ |||.||..|+..|   ...||+||+++....
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            4566799999999755   6777 9999999999873   678999999987644

>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=99.39  E-value=2e-13  Score=75.17  Aligned_cols=49  Identities=16%  Similarity=0.488  Sum_probs=40.4

Q ss_pred             CccccccccccccccCCCeeEe--CCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVL--PTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l--~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      +.+..|.||++...+   ..++  | |||. |+..|+..|.+.+..||+||+++..
T Consensus         5 ~~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRD---GNIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSC---EEEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcCCC---eEEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            446689999998643   2444  8 9998 9999999999888899999998853

>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=99.39  E-value=2.5e-14  Score=87.58  Aligned_cols=52  Identities=19%  Similarity=0.472  Sum_probs=42.6

Q ss_pred             CccccccccccccccCCCeeEe-CCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVL-PTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR   98 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l-~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~   98 (106)
                      .+...|+||++.|.++   +.+ + |||.||..||..|+.  ..||+||.++.......
T Consensus        20 ~~~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~~~~   72 (117)
T 1jm7_B           20 EKLLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (117)
T ss_dssp             HHTTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             hhCCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCccccccc
Confidence            4567899999999754   555 7 999999999999987  78999999986554443

>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=99.36  E-value=1.6e-13  Score=86.62  Aligned_cols=52  Identities=17%  Similarity=0.416  Sum_probs=43.2

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC-CCcccCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCPLCRANVPFC   94 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~~   94 (106)
                      ...++..|+||++.+.++   +.++ |||.||..||..|+..+. +||+||.++...
T Consensus        27 ~l~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             cCCcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            446678899999999755   6677 999999999999998654 899999987543

>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=99.33  E-value=7.2e-13  Score=95.37  Aligned_cols=48  Identities=23%  Similarity=0.663  Sum_probs=41.5

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVPFC   94 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~~   94 (106)
                      ...|+||++.+.+   ++.+| |||.||..|+..|+. .+.+||+||+++...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            3589999999853   47788 999999999999999 688999999988753

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

Probab=99.30  E-value=4.9e-13  Score=75.72  Aligned_cols=45  Identities=24%  Similarity=0.691  Sum_probs=38.3

Q ss_pred             CccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      .++..|+||++.+.   ..+.+| |||. ||..|+..|    ..||+||+++..
T Consensus        22 ~~~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           22 QEEKLCKICMDRNI---AIVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HHHTBCTTTSSSBC---CEEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             ccCCCCCCCCCCCC---CEEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            45668999999875   347788 9999 999999998    889999998864

>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=99.28  E-value=1.7e-12  Score=83.90  Aligned_cols=52  Identities=25%  Similarity=0.462  Sum_probs=44.2

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC-CCCcccCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH-STCPLCRANVPFC   94 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~~   94 (106)
                      ...+...|+||++.+.++   +.++ |||.||..||.+|+..+ .+||+||.++...
T Consensus        14 ~~~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           14 PLESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            456778999999999755   6677 99999999999999864 4899999998764

>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=99.25  E-value=2.8e-12  Score=87.89  Aligned_cols=54  Identities=9%  Similarity=0.055  Sum_probs=44.9

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSP   96 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~   96 (106)
                      ...+...|+||++.|.++   +++| |||.|+..||..|+.. +.+||+||.++.....
T Consensus       204 ~~~~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l  258 (281)
T 2c2l_A          204 DIPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL  258 (281)
T ss_dssp             CCCSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGC
T ss_pred             CCCcccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhcC
Confidence            445677899999999765   7888 9999999999999986 4459999999975443

>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=99.23  E-value=1.9e-12  Score=76.40  Aligned_cols=50  Identities=14%  Similarity=0.358  Sum_probs=40.5

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC------CCCcc--cCCC-CCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH------STCPL--CRAN-VPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~------~~CP~--Cr~~-~~~   93 (106)
                      ..+..|+||++.|.++   ++++.|||.|+..||..|+..+      .+||+  |+.. +..
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~   63 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK   63 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCG
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCH
Confidence            4567899999999754   6663499999999999999863      48999  9876 543

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

Probab=99.22  E-value=1.4e-11  Score=68.73  Aligned_cols=48  Identities=33%  Similarity=0.687  Sum_probs=38.8

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...++..|.||++...   .++.+| |||. ||..|+..    ...||+||+++...
T Consensus        11 ~~~~~~~C~IC~~~~~---~~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTV---NWVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQES   59 (68)
T ss_dssp             SCCCSSCCSSSSSSCC---CCEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCE
T ss_pred             cCCCCCCCCCcCcCCC---CEEEEC-CCChhhhHHHHhc----CCCCCCCCcchhce
Confidence            3455678999999854   457888 9999 99999984    47899999998753

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

Probab=99.17  E-value=7.4e-12  Score=70.90  Aligned_cols=46  Identities=24%  Similarity=0.666  Sum_probs=37.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      .++..|+||++.+.+   ++.+| |||. ||..|+..    ...||+||+++...
T Consensus        23 ~~~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           23 QEEKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHHHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            445679999999754   46778 9999 99999964    37899999998653

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

Probab=99.16  E-value=5.1e-12  Score=89.51  Aligned_cols=52  Identities=21%  Similarity=0.616  Sum_probs=39.7

Q ss_pred             CccccccccccccccCCCee----EeCCCCccccHhhHHHHHhCC-----------CCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQ----VLPTCHHGFHAHCIDAWLVLH-----------STCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~----~l~~C~H~Fh~~Ci~~wl~~~-----------~~CP~Cr~~~~   92 (106)
                      ....+|+||++.+.++..+.    ..+.|||.||..|+.+|++..           .+||+||+++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            45668999999987633221    122599999999999999752           36999999876

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

Probab=99.15  E-value=1.5e-11  Score=80.33  Aligned_cols=55  Identities=9%  Similarity=0.031  Sum_probs=45.4

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~   97 (106)
                      ...+...|+||++.|.+|   +++| |||.|+..||..|+.. +.+||+|+.++......
T Consensus       102 ~ip~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~  157 (179)
T 2f42_A          102 EIPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLI  157 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCE
T ss_pred             CCcHhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCc
Confidence            346678899999999865   7778 9999999999999986 35799999998765433

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

Probab=99.15  E-value=3e-11  Score=65.77  Aligned_cols=49  Identities=18%  Similarity=0.602  Sum_probs=38.1

Q ss_pred             CccccccccccccccCCCeeEeCCCC--c---cccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCH--H---GFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~--H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      ++...|.||+++..  +. .++| |.  |   .||..|+.+|+..  +.+||+|+.++..
T Consensus         4 ~~~~~CrIC~~~~~--~~-l~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELG--NE-RFRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECS--CC-CCCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCC--Cc-eecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            45668999999843  33 3577 65  4   8999999999975  6789999998864

>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=99.14  E-value=1.7e-11  Score=72.12  Aligned_cols=49  Identities=22%  Similarity=0.589  Sum_probs=39.0

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcc--cCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPL--CRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~--Cr~~   90 (106)
                      .+..+|+||++.+..++.+...+ |||.||.+|+..++..        ...||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            34668999999987664444456 9999999999999973        236999  9988

>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=99.08  E-value=2.1e-11  Score=69.85  Aligned_cols=45  Identities=27%  Similarity=0.609  Sum_probs=37.4

Q ss_pred             CccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      .++..|+||++.+.   .++.+| |||. ||..|+..|    ..||+||.++..
T Consensus        16 ~~~~~C~IC~~~~~---~~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   61 (79)
T 2yho_A           16 KEAMLCMVCCEEEI---NSTFCP-CGHTVCCESCAAQL----QSCPVCRSRVEH   61 (79)
T ss_dssp             HHHTBCTTTSSSBC---CEEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCE
T ss_pred             CCCCEeEEeCcccC---cEEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhC
Confidence            34568999999864   457888 9999 999999876    489999998864

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.97  E-value=4.5e-10  Score=77.02  Aligned_cols=55  Identities=22%  Similarity=0.370  Sum_probs=42.9

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC--CCCcc--cCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPL--CRANVPFCSP   96 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~CP~--Cr~~~~~~~~   96 (106)
                      ....+..|+||++.|.++  +.... |||.|+..||..|+..+  ..||+  ||+.+.....
T Consensus       177 ~~~~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL  235 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDF  235 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGE
T ss_pred             CCceeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhC
Confidence            345667899999999754  33345 99999999999999864  46999  9998865443

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.92  E-value=2e-10  Score=81.84  Aligned_cols=45  Identities=29%  Similarity=0.680  Sum_probs=38.1

Q ss_pred             CccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      .++..|+||++.+.+   ++.+| |||. ||..|+..|    ..||+||.++..
T Consensus       293 ~~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          293 QEERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             HTTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             cCCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            345689999999753   47788 9999 999999988    789999998864

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.91  E-value=3.5e-10  Score=61.68  Aligned_cols=49  Identities=8%  Similarity=0.103  Sum_probs=41.9

Q ss_pred             cccccccccccccCCCeeEe-CCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVL-PTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l-~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      ...|+|+++.+.++   +++ + +||.|...||.+|+..+.+||+.++++....
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             eEEecCCCCCCCCC---EEeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            35799999999855   666 6 9999999999999998888999999987644

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

Probab=98.77  E-value=4.8e-09  Score=61.96  Aligned_cols=47  Identities=26%  Similarity=0.414  Sum_probs=38.1

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFC   94 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~   94 (106)
                      -|.+|--++.  ...++.| |+|+||.+|+..|.++ .++||+|+.++...
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            4777866664  4567888 9999999999999865 67899999998753

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

Probab=98.76  E-value=9.9e-09  Score=69.71  Aligned_cols=55  Identities=24%  Similarity=0.510  Sum_probs=44.7

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC--CCCcccCCCCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRANVPFCSPQRA   99 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~~~~~~~   99 (106)
                      ....|.||.+.+..+   ...+.|+|.||..|+..|++.+  ..||.|+.+|+...|...
T Consensus       179 ~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~~~~  235 (238)
T 3nw0_A          179 AVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKVF  235 (238)
T ss_dssp             TCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCCCCC
T ss_pred             CCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCC
Confidence            356799999998755   4455699999999999999864  489999999988766543

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=97.41  E-value=0.00024  Score=38.86  Aligned_cols=50  Identities=24%  Similarity=0.404  Sum_probs=36.4

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC----CCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS----TCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~----~CP~Cr~~~~~   93 (106)
                      ......|.||.+.    ..+..-..|...||..|+...+....    .||.|+....+
T Consensus         9 ~~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p   62 (66)
T 2lri_C            9 LAPGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTP   62 (66)
T ss_dssp             CCTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCC
T ss_pred             CCCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCCCcc
Confidence            3445679999754    45566667999999999988776532    59999765443

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

Probab=96.67  E-value=0.0014  Score=38.20  Aligned_cols=35  Identities=14%  Similarity=0.358  Sum_probs=24.4

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      ++..|+||.+.+..+....-++ |+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            3567999998643221222265 9999999999983

>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=96.17  E-value=0.011  Score=33.65  Aligned_cols=39  Identities=18%  Similarity=0.365  Sum_probs=25.5

Q ss_pred             CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      ......++.|.||- .+...+... ...|+-+||..|+++-
T Consensus         9 ~e~~~~D~~C~VC~-~~t~~~l~p-CRvC~RvfH~~CL~r~   47 (89)
T 1wil_A            9 REPVVNDEMCDVCE-VWTAESLFP-CRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCCSCCCTTTC-CCCSSCCSS-CSSSSSCCCHHHHHHH
T ss_pred             ccCCCCCcccCccc-cccccceec-cccccccccHhhcccc
Confidence            34445778899994 333332221 1139999999999995

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=95.73  E-value=0.0063  Score=32.52  Aligned_cols=48  Identities=23%  Similarity=0.555  Sum_probs=33.9

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----CCCCcccCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----HSTCPLCRA   89 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~   89 (106)
                      .....+..|.+|.+.    ..+.....|...||..|+..-+..    .=.||.|+.
T Consensus         6 ~~~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            6 YETDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CSSCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             ccCCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            344556789999874    355565668899999999875443    224999965

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=95.46  E-value=0.017  Score=33.17  Aligned_cols=53  Identities=23%  Similarity=0.332  Sum_probs=36.9

Q ss_pred             cCCCCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCC
Q 036238           34 SRGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRAN   90 (106)
Q Consensus        34 ~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~   90 (106)
                      ........++..|.+|.+.    ..+.....|.-.||..|+..=+...    =.||.|+..
T Consensus        16 ~~~~~~d~n~~~C~vC~~~----g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           16 DEFGTLDDSATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             CCCCSSSSSSSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             ccccccCCCCCcCcCcCCC----CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            3344455667789999865    3455556688899999997755442    249999754

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=95.09  E-value=0.0055  Score=32.74  Aligned_cols=46  Identities=28%  Similarity=0.538  Sum_probs=31.8

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~   90 (106)
                      .++..|.||.+.    ..+.....|...||..|+..-+...    =.||.|+..
T Consensus         7 ~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCCcCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            456679999763    3445555688999999998644432    249999764

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.80  E-value=0.0039  Score=32.72  Aligned_cols=46  Identities=30%  Similarity=0.611  Sum_probs=31.2

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRA   89 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~   89 (106)
                      ..++..|.+|.+.    ..++....|...||..|+..-+...    =.||.|+.
T Consensus         6 ~~~~~~C~vC~~~----g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS----SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC----CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            3456679999875    3455555699999999988644432    23777753

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=94.53  E-value=0.0087  Score=32.42  Aligned_cols=48  Identities=25%  Similarity=0.454  Sum_probs=33.2

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRANV   91 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~~   91 (106)
                      ..++..|.||.+.    ..++....|.-.||..|+..-+...    =.||.|...-
T Consensus         5 ~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~   56 (66)
T 1xwh_A            5 QKNEDECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQAT   56 (66)
T ss_dssp             CSCCCSBSSSSCC----SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTC
T ss_pred             CCCCCCCccCCCC----CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccCcc
Confidence            3456789999864    3455555688999999988544432    2499996543

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=94.49  E-value=0.022  Score=29.02  Aligned_cols=44  Identities=30%  Similarity=0.668  Sum_probs=29.4

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~   89 (106)
                      .|.||...-. ++.+..-..|...||..|+..=+...    =.||.|+.
T Consensus         2 ~C~vC~~~~~-~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCC-CCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            4888876532 33555556799999999997544432    24998865

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=94.46  E-value=0.01  Score=38.36  Aligned_cols=47  Identities=28%  Similarity=0.444  Sum_probs=33.9

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRANVP   92 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~~~   92 (106)
                      +++.|.+|.+.    ..+.....|.-.||..|+..-+...    =.||.|+..-.
T Consensus         3 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            3 NEDWCAVCQNG----GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC----SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC----CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            45679999854    3455666799999999987665542    24999987543

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=94.30  E-value=0.0085  Score=39.44  Aligned_cols=48  Identities=27%  Similarity=0.426  Sum_probs=34.4

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~~~   92 (106)
                      .+++.|.+|...    ..+.....|...||..|+..-+...    =.||.|+..-.
T Consensus         5 ~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~   56 (207)
T 3u5n_A            5 PNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGK   56 (207)
T ss_dssp             SSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCccc
Confidence            455679999754    3455666799999999997766542    25999987543

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=94.29  E-value=0.013  Score=31.34  Aligned_cols=50  Identities=24%  Similarity=0.522  Sum_probs=34.0

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHh-----CCCCCcccCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-----LHSTCPLCRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-----~~~~CP~Cr~~   90 (106)
                      .+...|+||...+.++...+....|..=||..|+.--..     ..-.||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            455679999988765445555556888899999864322     23459999753

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=93.99  E-value=0.042  Score=43.79  Aligned_cols=54  Identities=17%  Similarity=0.161  Sum_probs=45.5

Q ss_pred             CCCccccccccccccccCCCeeEeCCCC-ccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCH-HGFHAHCIDAWLVLHSTCPLCRANVPFCSP   96 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~   96 (106)
                      +..++..|||=++.|.+|   +++| -| +.|-...|++|+..+.+||+=|+++.....
T Consensus       887 ~iP~~F~cPIs~~lM~DP---Vilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~l  941 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDP---VILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDV  941 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGC
T ss_pred             CCcHHhCCcchhhHHhCC---eEcC-CCCEEECHHHHHHHHhcCCCCCCCCCCCCcccc
Confidence            445677899999999766   7888 77 689999999999999999999999976543

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=93.65  E-value=0.053  Score=31.02  Aligned_cols=55  Identities=15%  Similarity=0.368  Sum_probs=35.3

Q ss_pred             CCCCcccccccccccc-ccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCC
Q 036238           38 LSLGISADCAVCLSKI-SSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVP   92 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~-~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~   92 (106)
                      ....++..|.||.+.- .+++.++....|.-.||..|+..-..-  .=.||.|.....
T Consensus        20 ~~~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~~   77 (88)
T 2l43_A           20 SLIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRA   77 (88)
T ss_dssp             CCCCCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHTT
T ss_pred             CcCCCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCccc
Confidence            3345677899998753 223355555678889999998753211  224888866443

>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=93.44  E-value=0.23  Score=28.02  Aligned_cols=39  Identities=15%  Similarity=0.323  Sum_probs=29.3

Q ss_pred             CccccccccccccccCCCeeEeC-CCCccccHhhHHHHHhC
Q 036238           41 GISADCAVCLSKISSAEPLQVLP-TCHHGFHAHCIDAWLVL   80 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl~~   80 (106)
                      .....|.+|.+.+++. ..+..| .=.|.||..|-+..++.
T Consensus        13 ~a~l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccC-ceeeCCCccCCeeeccccHHHHHh
Confidence            4556799999999865 444444 23499999999999874

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=93.43  E-value=0.022  Score=31.43  Aligned_cols=51  Identities=18%  Similarity=0.374  Sum_probs=34.5

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----CCCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----HSTCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~~   92 (106)
                      .+...|.||..... ++..+....|.--||..|+..-...    .-.||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            44556999987743 3445555668889999998754432    234999976543

>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=93.35  E-value=0.015  Score=33.61  Aligned_cols=51  Identities=24%  Similarity=0.369  Sum_probs=34.3

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRA   89 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~   89 (106)
                      ....++..|.||...-. .+.++....|...||..|+..=+...    =.||.|+.
T Consensus        11 ~~~~~~~~C~vC~~~~~-~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~   65 (92)
T 2e6r_A           11 AQFIDSYICQVCSRGDE-DDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL   65 (92)
T ss_dssp             CCCCCCCCCSSSCCSGG-GGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHH
T ss_pred             hhccCCCCCccCCCcCC-CCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcC
Confidence            34455667999987632 23455556799999999997544332    24999965

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=93.32  E-value=0.067  Score=28.85  Aligned_cols=36  Identities=17%  Similarity=0.490  Sum_probs=25.9

Q ss_pred             CCccccccccccccccCCCeeEeC-CCCccccHhhHH
Q 036238           40 LGISADCAVCLSKISSAEPLQVLP-TCHHGFHAHCID   75 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~   75 (106)
                      ......|++|..++.+++..+... .|.--||..|+.
T Consensus         5 ~~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            5 SDPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ----CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            345667999999987766666665 688889999975

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=92.82  E-value=0.035  Score=33.07  Aligned_cols=45  Identities=29%  Similarity=0.693  Sum_probs=30.5

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~   89 (106)
                      .|.||.+.-.+++.+..-..|...||..|+..-+...    =.||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            5888876533334555666799999999987655432    25888874

>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=92.58  E-value=0.34  Score=27.76  Aligned_cols=51  Identities=16%  Similarity=0.337  Sum_probs=35.8

Q ss_pred             cccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCC
Q 036238           42 ISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVP   92 (106)
Q Consensus        42 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   92 (106)
                      ....|.||-+++..   ++..+....|+--.|..|.+-=.+. ++.||.|+.++.
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            45689999998653   2222222247777899998865544 778999999886

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*

Probab=92.06  E-value=0.15  Score=30.28  Aligned_cols=48  Identities=19%  Similarity=0.388  Sum_probs=30.9

Q ss_pred             CCccccccccccccccCCCeeEeC--CCCccccHhhHHHHHhCCC----CCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLP--TCHHGFHAHCIDAWLVLHS----TCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~--~C~H~Fh~~Ci~~wl~~~~----~CP~Cr~~~~~   93 (106)
                      ..+++.|.+|.+.    ..++.-.  .|...||..|+.  +....    .||.|+-....
T Consensus        12 ~~~~~~C~~C~~~----G~ll~CD~~~Cp~~fH~~Cl~--L~~~P~g~W~Cp~c~C~~C~   65 (107)
T 4gne_A           12 QMHEDYCFQCGDG----GELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQCDECS   65 (107)
T ss_dssp             CSSCSSCTTTCCC----SEEEECCSTTCCCEECTGGGT--CSSCCSSCCCCGGGBCTTTC
T ss_pred             CCCCCCCCcCCCC----CcEeEECCCCCCcccccccCc--CCcCCCCCEECCCCCCCcCC
Confidence            3556679999842    3344443  488899999997  54422    48877655543

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=91.96  E-value=0.084  Score=34.24  Aligned_cols=49  Identities=20%  Similarity=0.421  Sum_probs=34.4

Q ss_pred             ccccccccccccCCC---eeEeCCCCccccHhhHHHH------Hh-----CCCCCcccCCCCC
Q 036238           44 ADCAVCLSKISSAEP---LQVLPTCHHGFHAHCIDAW------LV-----LHSTCPLCRANVP   92 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~---~~~l~~C~H~Fh~~Ci~~w------l~-----~~~~CP~Cr~~~~   92 (106)
                      ..|+||...+.+++.   .+....|..=||..|..--      +.     ..-.||.|+..-.
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~   65 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHP   65 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCC
Confidence            469999999987652   5555568889999997421      11     1457999987543

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=91.77  E-value=0.03  Score=29.58  Aligned_cols=45  Identities=29%  Similarity=0.596  Sum_probs=31.1

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRAN   90 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~   90 (106)
                      ++..|.+|...    ..+.....|.-.||..|+..-+...    =.||.|+..
T Consensus         4 ~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   52 (60)
T 2puy_A            4 HEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQ   52 (60)
T ss_dssp             CCSSCTTTCCC----SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHH
T ss_pred             CCCCCcCCCCC----CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccCh
Confidence            45679999874    3455555799999999988644432    248888543

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=91.43  E-value=0.11  Score=27.76  Aligned_cols=50  Identities=22%  Similarity=0.543  Sum_probs=33.9

Q ss_pred             Cccccccccccccc-cCCCeeEeCCCCccccHhhHHHHHh-------CCCCCcccCCC
Q 036238           41 GISADCAVCLSKIS-SAEPLQVLPTCHHGFHAHCIDAWLV-------LHSTCPLCRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~-~~~~~~~l~~C~H~Fh~~Ci~~wl~-------~~~~CP~Cr~~   90 (106)
                      .++..|.||..... ++..+.....|.-.||..|+..-+.       ..=.||.|+..
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~   61 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFA   61 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHT
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCc
Confidence            45678999997643 3345666667999999999875331       12358888654

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=91.12  E-value=0.47  Score=26.60  Aligned_cols=37  Identities=11%  Similarity=0.182  Sum_probs=26.7

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      .+...|.+|...|..-..-.....||++||..|....
T Consensus        19 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           19 EDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             TTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             CCCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            4456799999998754333344469999999997653

>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=91.11  E-value=0.2  Score=27.38  Aligned_cols=34  Identities=21%  Similarity=0.322  Sum_probs=24.4

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      +..|.+|...|..-..-.....||.+||..|...
T Consensus        11 ~~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           11 SDACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             CCcccCCCCccCCccccccCCCCCEEEcccccCC
Confidence            3589999999874333334446999999999653

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=90.97  E-value=0.48  Score=29.46  Aligned_cols=46  Identities=26%  Similarity=0.509  Sum_probs=32.7

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh---------C--CCCCcccCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV---------L--HSTCPLCRA   89 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~---------~--~~~CP~Cr~   89 (106)
                      ...++.|.+|.+.    ..+.....|...||..|+..=+.         .  .=.||+|+.
T Consensus        60 Dg~~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           60 DGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TSCBCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCeecccCCC----CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            3456789999875    34555556889999999996553         1  235999974

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=90.79  E-value=0.57  Score=25.87  Aligned_cols=49  Identities=20%  Similarity=0.373  Sum_probs=31.8

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHh-----CCCCCcccCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-----LHSTCPLCRANVP   92 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-----~~~~CP~Cr~~~~   92 (106)
                      ...| ||.....+....+....|..=||..|+.--..     ..-.||.|+....
T Consensus        12 ~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~~   65 (79)
T 1wep_A           12 PVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             ccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccccC
Confidence            3346 89888754444555556887899999853221     2346999987653

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=90.77  E-value=0.057  Score=35.06  Aligned_cols=45  Identities=27%  Similarity=0.491  Sum_probs=31.2

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----CCCCcccCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----HSTCPLCRANV   91 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~   91 (106)
                      ++.|.+|.+.    ..+.....|...||..|+..=+..    .-.||.|+..-
T Consensus         2 ~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~~   50 (189)
T 2ro1_A            2 ATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   50 (189)
T ss_dssp             CCCBTTTCCC----SSCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCSC
T ss_pred             CCcCccCCCC----CceeECCCCCchhccccCCCCcccCCCCCCCCcCccCCC
Confidence            4579999855    334455568899999999764443    22499998653

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=90.48  E-value=0.6  Score=27.55  Aligned_cols=34  Identities=24%  Similarity=0.487  Sum_probs=24.4

Q ss_pred             cccccccccccc-----ccCCCeeEeCCCCccccHhhHH
Q 036238           42 ISADCAVCLSKI-----SSAEPLQVLPTCHHGFHAHCID   75 (106)
Q Consensus        42 ~~~~C~ICl~~~-----~~~~~~~~l~~C~H~Fh~~Ci~   75 (106)
                      ....|.+|+..=     ..++.++.-..|+..||..|+.
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            455799998752     2234556666799999999995

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=90.04  E-value=0.093  Score=30.97  Aligned_cols=38  Identities=29%  Similarity=0.475  Sum_probs=26.7

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV   79 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~   79 (106)
                      .+++.|.||.+.-+. +..+.-..|+..||..|+...+.
T Consensus         5 ~~~~~C~~C~~~g~~-~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            5 SSGANCAVCDSPGDL-LDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCSCBTTTCCCCCT-TTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCcCCCCCCCC-cCCeECCCCCCCcChHHhCCccc
Confidence            456789999876321 23344456999999999987654

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=89.83  E-value=0.58  Score=25.50  Aligned_cols=46  Identities=22%  Similarity=0.490  Sum_probs=28.2

Q ss_pred             CccccccccccccccCCCeeEeCC--CC-ccccHhhHHHHHhC----CCCCcccCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPT--CH-HGFHAHCIDAWLVL----HSTCPLCRANV   91 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~--C~-H~Fh~~Ci~~wl~~----~~~CP~Cr~~~   91 (106)
                      .+..-| ||..... + ..+....  |. .-||..|+.  +..    +-.||.|+..-
T Consensus        14 ~~~~~C-~C~~~~~-g-~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~   66 (71)
T 1wen_A           14 NEPTYC-LCHQVSY-G-EMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   66 (71)
T ss_dssp             TSCCCS-TTCCCSC-S-SEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCS
T ss_pred             CCCCEE-ECCCCCC-C-CEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCccc
Confidence            344457 8987632 2 3333334  55 579999998  443    23599997654

>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=89.37  E-value=0.3  Score=29.61  Aligned_cols=35  Identities=20%  Similarity=0.327  Sum_probs=25.5

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      +...|.+|...|..-..-.....||++||..|...
T Consensus        68 ~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           68 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCCCCcCcCCccccccccccCCCCCeEEChHHhCC
Confidence            34579999999875433344446999999999654

>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=89.31  E-value=0.2  Score=27.57  Aligned_cols=47  Identities=19%  Similarity=0.424  Sum_probs=30.1

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHH---------hCCCCCcccCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL---------VLHSTCPLCRANV   91 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl---------~~~~~CP~Cr~~~   91 (106)
                      ...| ||...... ...+....|..=||..|+.--.         ...-.||.|+..-
T Consensus        16 ~~~C-~C~~~~~~-~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           16 ALYC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CCCS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CCEE-ECCCccCC-CCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            4457 89887642 3444444588889999985211         2356799997643

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=89.17  E-value=0.3  Score=27.29  Aligned_cols=37  Identities=19%  Similarity=0.347  Sum_probs=26.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      .+...|.+|...|..-..-.....||.+||..|....
T Consensus        17 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   53 (82)
T 2yw8_A           17 DEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNE   53 (82)
T ss_dssp             CCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEE
T ss_pred             ccCCcccCcCCcccCccccccCCCCCCEEChHHhCCe
Confidence            3445799999998744333344469999999997643

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=89.11  E-value=0.64  Score=26.45  Aligned_cols=37  Identities=16%  Similarity=0.326  Sum_probs=26.7

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHH
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL   78 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl   78 (106)
                      +...|.+|...|..-..-.....||++||..|...+.
T Consensus        19 ~~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~~   55 (90)
T 3t7l_A           19 EAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKC   55 (90)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEEE
T ss_pred             cCCcCcCCCCcccchhhCccccCCCCEECCcccCCee
Confidence            4457999999987543334444699999999976543

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens}

Probab=89.03  E-value=0.06  Score=30.07  Aligned_cols=44  Identities=27%  Similarity=0.631  Sum_probs=28.0

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC---C--CCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---H--STCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~--~~CP~Cr~   89 (106)
                      .|.||...- +++.+..-..|...||..|+..-+..   .  =.||.|+.
T Consensus        28 ~C~vC~~~~-d~~~ll~CD~C~~~yH~~Cl~PpL~~~P~g~~W~C~~C~~   76 (77)
T 3shb_A           28 ACHLCGGRQ-DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   76 (77)
T ss_dssp             SBTTTCCCS-CGGGEEECTTTCCEEETTTSSSCCSSCCSSSCCCCTTTC-
T ss_pred             cCCccCCCC-CCcceeEeCCCCCccCcccCCCcccCCCCCCceECcCccc
Confidence            466676542 22345555568899999999865543   1  25888875

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=88.98  E-value=0.15  Score=29.05  Aligned_cols=52  Identities=19%  Similarity=0.442  Sum_probs=35.6

Q ss_pred             Ccccccccccccccc-CCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCCCCC
Q 036238           41 GISADCAVCLSKISS-AEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~   92 (106)
                      +.+..|.||...-.. +..+.....|...||..|+..-+..        .=.||.|+....
T Consensus        14 e~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~~   74 (88)
T 1wev_A           14 EMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             HHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CCCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchhh
Confidence            446679999876332 2456666679999999998865431        235999966443

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=88.70  E-value=0.48  Score=25.85  Aligned_cols=50  Identities=16%  Similarity=0.438  Sum_probs=32.7

Q ss_pred             CCcccccccccccc-ccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCC
Q 036238           40 LGISADCAVCLSKI-SSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRA   89 (106)
Q Consensus        40 ~~~~~~C~ICl~~~-~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~   89 (106)
                      ..++..|.||.+.- .+++.++....|.-.||..|+..-..-  .=.||.|+.
T Consensus        13 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           13 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            34566899998763 234466666679999999998742211  224777753

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=88.48  E-value=0.17  Score=29.41  Aligned_cols=45  Identities=16%  Similarity=0.308  Sum_probs=29.4

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRA   89 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~   89 (106)
                      ...| ||...... ...+....|.--||..|+..=...   .-.||.|+.
T Consensus        28 ~vrC-iC~~~~~~-~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           28 VTRC-ICGFTHDD-GYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             BCCC-TTSCCSCS-SCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CEEe-ECCCccCC-CcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            3457 88776543 345555568899999998653222   235999964

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=88.46  E-value=0.12  Score=28.81  Aligned_cols=44  Identities=25%  Similarity=0.569  Sum_probs=29.6

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC-----CCCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-----HSTCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~   89 (106)
                      .|.||... .++..+..-..|...||..|+..=+..     .=.||.|+.
T Consensus        28 ~C~vC~~~-~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   76 (77)
T 2e6s_A           28 SCRVCGGK-HEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT   76 (77)
T ss_dssp             SCSSSCCC-CCSTTEEECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTCC
T ss_pred             CCcCcCCc-CCCCCEEEcCCCCccccccccCCCccCCCCCCCcCCcCccC
Confidence            68888764 233456666679999999998854432     124888864

>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=88.43  E-value=0.47  Score=26.94  Aligned_cols=37  Identities=19%  Similarity=0.382  Sum_probs=26.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      .+...|.+|...|..-..-.....||++||..|....
T Consensus         7 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~   43 (88)
T 1wfk_A            7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFS   43 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEE
T ss_pred             CcCCCCcCcCCcccCccccccCCCCCCEEChhHcCCc
Confidence            3455799999998754333344469999999997653

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=88.29  E-value=0.4  Score=26.87  Aligned_cols=36  Identities=17%  Similarity=0.408  Sum_probs=25.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      .+...|.+|...|..-..--....||.+||..|...
T Consensus        12 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A           12 NNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             CCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            344579999999864433333446999999999553

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=88.16  E-value=0.78  Score=28.04  Aligned_cols=46  Identities=26%  Similarity=0.573  Sum_probs=31.1

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHH------hC-----CCCCcccCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL------VL-----HSTCPLCRA   89 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl------~~-----~~~CP~Cr~   89 (106)
                      ...++.|.||.+.    ..+..-..|...||..|+..-+      +.     .=.|++|+.
T Consensus        54 Dg~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           54 DGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             TSCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            3455679999765    3444445688999999999742      11     235999954

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=88.14  E-value=0.19  Score=25.68  Aligned_cols=44  Identities=16%  Similarity=0.262  Sum_probs=28.7

Q ss_pred             cccccccccccCCCeeEeC-CCCccccHhhHHHHH----hCCCCCcccC
Q 036238           45 DCAVCLSKISSAEPLQVLP-TCHHGFHAHCIDAWL----VLHSTCPLCR   88 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl----~~~~~CP~Cr   88 (106)
                      .|.+|..++.+++..+.-. .|.-=||..|+.--.    ..+-.||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            4788988876555555554 477779999965321    2355688885

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=87.93  E-value=0.45  Score=31.59  Aligned_cols=37  Identities=14%  Similarity=0.332  Sum_probs=27.1

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      .++..|.+|...|..-..-.....||++||..|-...
T Consensus       162 ~~~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~~  198 (226)
T 3zyq_A          162 VDAEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKY  198 (226)
T ss_dssp             CCCSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCEE
T ss_pred             ccCCCCcCcCCCCCccccccccCCCcCEeChhhcCCc
Confidence            3456899999998754333445569999999996643

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=87.82  E-value=1.1  Score=25.67  Aligned_cols=46  Identities=22%  Similarity=0.475  Sum_probs=28.0

Q ss_pred             ccccccccccccccCCCeeEeCC--CC-ccccHhhHHHHHhC----CCCCcccCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPT--CH-HGFHAHCIDAWLVL----HSTCPLCRANVP   92 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~--C~-H~Fh~~Ci~~wl~~----~~~CP~Cr~~~~   92 (106)
                      +..-| ||..... + ..+....  |. .-||..|+.  +..    +-.||.|+..-.
T Consensus        35 e~~yC-iC~~~~~-g-~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~~   87 (91)
T 1weu_A           35 EPTYC-LCHQVSY-G-EMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQESG   87 (91)
T ss_dssp             CCBCS-TTCCBCC-S-CCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCCS
T ss_pred             CCcEE-ECCCCCC-C-CEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcCC
Confidence            34447 9988643 2 2333334  54 569999987  443    235999976543

>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=87.35  E-value=0.83  Score=24.53  Aligned_cols=43  Identities=26%  Similarity=0.459  Sum_probs=30.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      .....|+-|.+.+...+.++..  -|..||..|        ..|-.|..++..
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a--~~~~~H~~C--------F~C~~C~~~L~~   51 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNS--NGELYHEQC--------FVCAQCFQQFPE   51 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEE--TTEEECTTT--------CCCTTTCCCCGG
T ss_pred             CCCCCchhcCCccCCCceEEEe--CccEecccc--------CeECCCCCCCCC
Confidence            3456799999988754554332  577899988        458888887764

>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=87.19  E-value=0.52  Score=31.03  Aligned_cols=36  Identities=14%  Similarity=0.306  Sum_probs=26.4

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      .++..|.+|...|..-..-.....||++||..|...
T Consensus       159 ~~~~~C~~C~~~F~~~~rrhhCr~CG~v~C~~Cs~~  194 (220)
T 1dvp_A          159 ADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK  194 (220)
T ss_dssp             CCCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCCCccCCCCCccCCcccccccCCcCCEEChHHhCC
Confidence            345789999999875443344456999999999654

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B

Probab=86.98  E-value=0.14  Score=27.97  Aligned_cols=44  Identities=27%  Similarity=0.631  Sum_probs=28.0

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC-----CCCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-----HSTCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~   89 (106)
                      .|.||...- ++..+..-..|...||..|+..=+..     .=.||.|+.
T Consensus        20 ~C~~C~~~~-~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   68 (70)
T 3asl_A           20 ACHLCGGRQ-DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   68 (70)
T ss_dssp             SBTTTCCCS-CGGGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSC
T ss_pred             CCcCCCCcC-CCCCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccC
Confidence            467776542 22345555568899999998854433     224888865

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=86.64  E-value=0.62  Score=27.60  Aligned_cols=34  Identities=24%  Similarity=0.470  Sum_probs=23.6

Q ss_pred             cccccccccc------ccCCCeeEeCCCCccccHhhHHHH
Q 036238           44 ADCAVCLSKI------SSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        44 ~~C~ICl~~~------~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      +.|.||+..-      .+++..+.-..|+..||..|+...
T Consensus         2 ~~C~~C~~~~~~n~k~g~~~~Li~C~~C~~~~H~~Cl~~~   41 (114)
T 2kwj_A            2 SYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFT   41 (114)
T ss_dssp             CCCSSSCCBTTBCTTTCCCCCCEECSSSCCEECTTTTTCC
T ss_pred             CcCccCCCCccccccCCCCCCCeEeCCCCCccchhhCCCh
Confidence            4688998753      123355555569999999998754

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=85.95  E-value=0.48  Score=27.79  Aligned_cols=50  Identities=20%  Similarity=0.438  Sum_probs=34.1

Q ss_pred             cccccccccccccCCCeeEeC-CCCccccHhhHHHHHh----------CCCCCcccCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLP-TCHHGFHAHCIDAWLV----------LHSTCPLCRANVP   92 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl~----------~~~~CP~Cr~~~~   92 (106)
                      ...|.||...+.+....+... .|..=||..|+.---.          .+-.||.|+..-.
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~~   63 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKE   63 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcCC
Confidence            457999999987655555554 5777899999752210          2335999976544

>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules, epigenetic regulation, trimethylaion of lysine residue, ligase-DNA binding protein; HET: M3L; 2.90A {Homo sapiens}

Probab=85.21  E-value=0.26  Score=32.98  Aligned_cols=44  Identities=27%  Similarity=0.626  Sum_probs=26.4

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhC--C---CCCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--H---STCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~---~~CP~Cr~   89 (106)
                      .|.+|...= ++..+.....|...||..|+..=+..  .   =.||.|+.
T Consensus       176 ~C~vC~~~~-~~~~lL~CD~C~~~yH~~CL~PPL~~vP~G~~W~Cp~C~~  224 (226)
T 3ask_A          176 ACHLCGGRQ-DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN  224 (226)
T ss_dssp             SCSSSCCCC-C--CCEECSSSCCEECSCC--CCCCSCCSSSCCCCGGGC-
T ss_pred             CCcCCCCCC-CCCCeEEcCCCCcceeCccCCCCcccCCCCCCCCCcCCcC
Confidence            578887642 23455566679999999999854443  1   24999965

>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=84.15  E-value=0.097  Score=31.71  Aligned_cols=48  Identities=21%  Similarity=0.463  Sum_probs=29.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      .....|..|...|..-..-.....||.+||..|........+.|-.|-
T Consensus        17 ~~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C~   64 (120)
T 1y02_A           17 GLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   64 (120)
T ss_dssp             ---CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             cccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHHH
Confidence            334579999999864332234446999999999766554455566663

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=84.04  E-value=2.3  Score=23.19  Aligned_cols=42  Identities=21%  Similarity=0.532  Sum_probs=30.6

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ......|+-|-+.+.+++.+..   -+..||.+|        ..|-.|+.+|.
T Consensus        12 ~~~~~~C~~C~~~I~~~~~v~a---~~~~wH~~C--------F~C~~C~~~L~   53 (80)
T 2dj7_A           12 IRGPSHCAGCKEEIKHGQSLLA---LDKQWHVSC--------FKCQTCSVILT   53 (80)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEEE---TTEEECTTT--------CBCSSSCCBCS
T ss_pred             CCCCCCCcCcCCeeCCCeEEEE---CCccccccc--------CCcCcCCCCcC
Confidence            3445689999999876554433   567899988        45888988876

>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=83.87  E-value=1.4  Score=24.46  Aligned_cols=42  Identities=19%  Similarity=0.518  Sum_probs=30.0

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      .....|+-|-+.+..  .. +.. -+..||..|        ..|-.|+.+|...
T Consensus        23 ~~~~~C~~C~~~I~~--~~-v~a-~~~~~H~~C--------F~C~~C~~~L~~~   64 (90)
T 2dar_A           23 KRTPMCAHCNQVIRG--PF-LVA-LGKSWHPEE--------FNCAHCKNTMAYI   64 (90)
T ss_dssp             TCCCBBSSSCCBCCS--CE-EEE-TTEEECTTT--------CBCSSSCCBCSSS
T ss_pred             CCCCCCccCCCEecc--eE-EEE-CCccccccC--------CccCCCCCCCCCC
Confidence            345679999998852  22 333 678999988        4588998888743

>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=83.77  E-value=1.5  Score=23.11  Aligned_cols=41  Identities=20%  Similarity=0.445  Sum_probs=27.4

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ...|+-|-+.+.+.+.+ +.. -+..||..|        ..|-.|..++..
T Consensus         5 ~~~C~~C~~~I~~~~~~-~~a-~~~~~H~~C--------F~C~~C~~~L~~   45 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRK-LEY-GGQTWHEHC--------FLCSGCEQPLGS   45 (72)
T ss_dssp             CCBCSSSCCBCCSSSCE-ECS-TTCCEETTT--------CBCTTTCCBTTT
T ss_pred             CCCCccCCCccccCccE-EEE-CccccCccc--------CeECCCCCcCCC
Confidence            34788888887654333 332 577888877        347788877764

>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.95  E-value=2.1  Score=22.59  Aligned_cols=42  Identities=24%  Similarity=0.479  Sum_probs=28.9

Q ss_pred             ccccccccccccc--CCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           43 SADCAVCLSKISS--AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        43 ~~~C~ICl~~~~~--~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...|+-|-+.+..  ++.+ +.. -+..||.+|+        .|-.|+.+|...
T Consensus         5 ~~~C~~C~~~I~~~~~~~~-~~a-~~~~wH~~CF--------~C~~C~~~L~~~   48 (72)
T 1x4l_A            5 SSGCAGCTNPISGLGGTKY-ISF-EERQWHNDCF--------NCKKCSLSLVGR   48 (72)
T ss_dssp             SCSBTTTTBCCCCSSSCSC-EEC-SSCEECTTTC--------BCSSSCCBCTTS
T ss_pred             CCCCcCCCccccCCCCcce-EEE-CCcccCcccC--------EeccCCCcCCCC
Confidence            4579999888875  2233 333 6788998884        588888887643

>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.60  E-value=1.6  Score=22.99  Aligned_cols=41  Identities=17%  Similarity=0.420  Sum_probs=27.8

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ..|+.|-+.+.+.+.++..  =+..||..|+        .|-.|+.++...
T Consensus         6 ~~C~~C~~~I~~~~~~~~a--~~~~~H~~CF--------~C~~C~~~L~~~   46 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEY--KGSSWHETCF--------ICHRCQQPIGTK   46 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEE--TTEEEETTTT--------CCSSSCCCCCSS
T ss_pred             CCCccCCCcccCCceEEEE--CcCeecccCC--------cccccCCccCCC
Confidence            4788898888755443332  5678888873        477888777543

>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: g.50.1.1

Probab=82.59  E-value=0.83  Score=28.04  Aligned_cols=35  Identities=14%  Similarity=0.310  Sum_probs=25.1

Q ss_pred             Cccccccccccccc-cCCCeeEeCCCCccccHhhHH
Q 036238           41 GISADCAVCLSKIS-SAEPLQVLPTCHHGFHAHCID   75 (106)
Q Consensus        41 ~~~~~C~ICl~~~~-~~~~~~~l~~C~H~Fh~~Ci~   75 (106)
                      .++..|.+|..+|. ....-.....|.|.+|..|-.
T Consensus        53 ~~~~~C~~C~~~~g~l~~~g~~C~~C~~~VC~~C~~   88 (134)
T 1zbd_B           53 DGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGV   88 (134)
T ss_dssp             CSSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEE
T ss_pred             CCCccccccCCCcccccCCCCCCCCCCcccccccCC
Confidence            35678999999984 223334555699999998854

>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.59  E-value=1.8  Score=23.17  Aligned_cols=41  Identities=20%  Similarity=0.465  Sum_probs=29.9

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...|+.|-+.+.+.+.+  .. -+..||.+|        ..|..|+.+|...
T Consensus         9 ~~~C~~C~~~I~~~~~v--~a-~~~~~H~~C--------F~C~~C~~~L~~~   49 (76)
T 2cu8_A            9 ASKCPKCDKTVYFAEKV--SS-LGKDWHKFC--------LKCERCSKTLTPG   49 (76)
T ss_dssp             CCBCTTTCCBCCTTTEE--EE-TTEEEETTT--------CBCSSSCCBCCTT
T ss_pred             CCCCcCCCCEeECCeEE--EE-CCeEeeCCC--------CCCCCCCCccCCC
Confidence            45799999988755433  33 678899988        4588898888643

>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.56  E-value=2.3  Score=22.40  Aligned_cols=40  Identities=28%  Similarity=0.585  Sum_probs=24.2

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      ...|+.|-+.+...+.. +.. =+..||..|        ..|-.|..+|.
T Consensus         5 ~~~C~~C~~~I~~~~~~-~~a-~~~~~H~~C--------F~C~~C~~~L~   44 (72)
T 1x61_A            5 SSGCGGCGEDVVGDGAG-VVA-LDRVFHVGC--------FVCSTCRAQLR   44 (72)
T ss_dssp             CCCCSSSCSCCCSSSCC-EEC-SSSEECTTT--------CBCSSSCCBCT
T ss_pred             CCCCccCCCccCCCceE-EEE-CCCeEcccC--------CcccccCCcCC
Confidence            34677787776543322 222 466777777        34777777764

>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB, RAB27B, effector, SLP homology domain, acetylation, lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}

Probab=82.52  E-value=1.4  Score=27.67  Aligned_cols=34  Identities=18%  Similarity=0.238  Sum_probs=24.4

Q ss_pred             CccccccccccccccC-CCeeEeCCCCccccHhhH
Q 036238           41 GISADCAVCLSKISSA-EPLQVLPTCHHGFHAHCI   74 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci   74 (106)
                      .++..|.+|..+|..- ..-....+|+|.+|..|-
T Consensus        66 ~~~~~C~~C~~~fg~l~~~g~~C~~C~~~VC~~C~  100 (153)
T 2zet_C           66 LNETHCARCLQPYRLLLNSRRQCLECSLFVCKSCS  100 (153)
T ss_dssp             GGGTBCTTTCCBGGGCSSCCEECTTTCCEECGGGE
T ss_pred             CCCccchhhcCccccccCCCCcCCCCCchhhcccc
Confidence            3577899999987522 223444469999999996

>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=82.03  E-value=0.53  Score=24.86  Aligned_cols=43  Identities=21%  Similarity=0.406  Sum_probs=29.6

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC   87 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C   87 (106)
                      ..|--|...+.+. .....+.|++.|+.+|=.---+.=.+||-|
T Consensus        16 ~~C~~C~~~~~~~-~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           16 RFCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CEETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CcccccCcccCCC-ccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            3599999988532 224456799999999965422334579988

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=81.97  E-value=2.9  Score=22.81  Aligned_cols=44  Identities=30%  Similarity=0.458  Sum_probs=30.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      .....|+.|-+.+...+.+.  . =+..||..|        ..|-.|+.+|....
T Consensus        13 ~~~~~C~~C~~~I~~~e~v~--a-~~~~wH~~C--------F~C~~C~~~L~~~~   56 (82)
T 2co8_A           13 GAGDLCALCGEHLYVLERLC--V-NGHFFHRSC--------FRCHTCEATLWPGG   56 (82)
T ss_dssp             CSSCBCSSSCCBCCTTTBCC--B-TTBCCBTTT--------CBCSSSCCBCCTTS
T ss_pred             CCCCCCcccCCCcccceEEE--E-CCCeeCCCc--------CEEcCCCCCcCCCc
Confidence            44568999999886554443  2 577899988        44777877776543

>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=81.91  E-value=0.33  Score=28.64  Aligned_cols=26  Identities=27%  Similarity=0.487  Sum_probs=17.2

Q ss_pred             CCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           64 TCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        64 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      .||+.|.     .-+.....||.|++..-..
T Consensus        72 ~CG~~F~-----~~~~kPsrCP~CkSe~Ie~   97 (105)
T 2gmg_A           72 KCGFVFK-----AEINIPSRCPKCKSEWIEE   97 (105)
T ss_dssp             TTCCBCC-----CCSSCCSSCSSSCCCCBCC
T ss_pred             hCcCeec-----ccCCCCCCCcCCCCCccCC
Confidence            6999991     1123356799999876543

>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=81.57  E-value=0.47  Score=22.24  Aligned_cols=16  Identities=25%  Similarity=0.513  Sum_probs=11.6

Q ss_pred             CccccccccccccccC
Q 036238           41 GISADCAVCLSKISSA   56 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~   56 (106)
                      .+...||||+..+...
T Consensus         3 ~EGFiCP~C~~~l~s~   18 (34)
T 3mjh_B            3 SEGFICPQCMKSLGSA   18 (34)
T ss_dssp             SEEEECTTTCCEESSH
T ss_pred             CcccCCcHHHHHcCCH
Confidence            3457899998887654

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=80.33  E-value=2.6  Score=22.73  Aligned_cols=40  Identities=23%  Similarity=0.371  Sum_probs=28.8

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      .....|+-|-+.+...   .+.. -+..||..|+        .|-.|+.+|.
T Consensus        13 ~~~~~C~~C~~~I~~~---~~~a-~~~~~H~~CF--------~C~~C~~~L~   52 (79)
T 1x62_A           13 QKLPMCDKCGTGIVGV---FVKL-RDRHRHPECY--------VCTDCGTNLK   52 (79)
T ss_dssp             CCCCCCSSSCCCCCSS---CEEC-SSCEECTTTT--------SCSSSCCCHH
T ss_pred             CCCCccccCCCCccCc---EEEE-CcceeCcCcC--------eeCCCCCCCC
Confidence            4456899999988742   3333 6788999884        4888887764

>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=80.04  E-value=4.2  Score=21.88  Aligned_cols=42  Identities=21%  Similarity=0.411  Sum_probs=29.9

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC   94 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   94 (106)
                      ...|+.|-+.+...+.++ .. =+..||.+|        ..|-.|+.+|...
T Consensus        15 ~~~C~~C~~~I~~~~~~~-~a-~~~~~H~~C--------F~C~~C~~~L~~~   56 (82)
T 1x63_A           15 SPKCKGCFKAIVAGDQNV-EY-KGTVWHKDC--------FTCSNCKQVIGTG   56 (82)
T ss_dssp             SCBCSSSCCBCCSSSCEE-EC-SSCEEETTT--------CCCSSSCCCCTTS
T ss_pred             CCcCccCCcccccCceEE-EE-Ccccccccc--------CchhhCCCccCCC
Confidence            357999999887655543 33 577899888        4588888887653

---

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	106
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	7e-14
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-09
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	1e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-06
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	6e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-05
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-04
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.001
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	0.002

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 58.7 bits (142), Expect = 7e-14
 Identities = 27/49 (55%), Positives = 33/49 (67%)

Query: 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91
            +CAVCL+++   E  + LP C HGFHA C+D WL  HSTCPLCR  V
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 46.5 bits (110), Expect = 5e-09
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
          ++  C +CL   S+     +   C H F   CI  W+  + TCPLC+  V 
Sbjct: 4  VAERCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.3 bits (109), Expect = 1e-08
 Identities = 16/48 (33%), Positives = 19/48 (39%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93
          C    +  +S E       C+H FH HCI  WL     CPL      F
Sbjct: 38 CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF 85

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 4e-06
 Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 2/49 (4%)

Query: 45 DCAVCLSKISSAEPLQVLPT-CHHGFHAHCIDAWLVL-HSTCPLCRANV 91
           C  C +       L+++   C H     C+D   V     CP C   +
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 39.2 bits (91), Expect = 5e-06
 Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 5/47 (10%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANV 91
          C +C            +  C H     C+ +W       CP CR  +
Sbjct: 26 CKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.6 bits (91), Expect = 6e-06
 Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 5/49 (10%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-----LHSTCPLCRA 89
            +  SK      +  L  C H FH  C+ A            CP C+ 
Sbjct: 42 SDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>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 = 36.8 bits (85), Expect = 3e-05
 Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 7/47 (14%)

Query: 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92
          C  C ++         L  C H   + C++A       CP+C+A  P
Sbjct: 9  CQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWP 48

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.1 bits (80), Expect = 1e-04
 Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 1/49 (2%)

Query: 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHST-CPLCRANVP 92
          +C +C+  +   +      TC +     C        +  CP CR   P
Sbjct: 2  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP 50

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 32.9 bits (74), Expect = 0.001
 Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 3/47 (6%)

Query: 46 CAVCLSKISSAEPLQVLPT-CHHGFHAHCIDAWL--VLHSTCPLCRA 89
          C +C  ++ +        T      H  C+  WL    ++ C +C  
Sbjct: 9  CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>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 = 33.1 bits (75), Expect = 0.002
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 7/51 (13%)

Query: 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS---TCPLCRANVP 92
          +C +CL  I       V   C H F   C+   L        CPLC+ ++ 
Sbjct: 23 ECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	106
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.86
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.75
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.74
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.73
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.69
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.68
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.67
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.62
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.61
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.6
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.59
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.52
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.48
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.45
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.44
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.38
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.04
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	96.4
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	96.13
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	96.07
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	95.77
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	95.56
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	94.01
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	93.99
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	93.03
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	92.67
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	92.43
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	91.43
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	91.41
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	91.25
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	90.99
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	90.11
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	90.02
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	89.48
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	88.38
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	87.87
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	86.66
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	85.74
d1wfka_	88	Zinc finger FYVE domain containing protein 19 {Mou	82.3
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	82.08
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	80.62
d2co8a2	36	Nedd9 interacting protein with calponin homology,	80.38

>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=99.86  E-value=1.1e-22  Score=108.54  Aligned_cols=52  Identities=52%  Similarity=1.116  Sum_probs=46.6

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP   92 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   92 (106)
                      +++.+|+||+++|.+++.+..++.|||.||..||.+|++++++||+||+++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4566899999999988888877669999999999999999999999999873

>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=99.75  E-value=3.2e-19  Score=98.75  Aligned_cols=49  Identities=37%  Similarity=0.868  Sum_probs=42.6

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      ..++|+||++.+.+  .++.++ |||.||..||.+|++++.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            45679999999863  456677 99999999999999999999999999864

>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=99.74  E-value=5.6e-19  Score=92.95  Aligned_cols=48  Identities=19%  Similarity=0.456  Sum_probs=40.4

Q ss_pred             cccccccccccCCCe-eEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCC
Q 036238           45 DCAVCLSKISSAEPL-QVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPF   93 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~-~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   93 (106)
                      +|+||+++|..++.. ..++ |||.||..|+.+|++. +.+||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            799999999866543 4456 9999999999999986 5579999999875

>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=99.73  E-value=1.7e-18  Score=100.24  Aligned_cols=51  Identities=33%  Similarity=0.753  Sum_probs=42.0

Q ss_pred             ccccccccccccccCC---------------CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238           42 ISADCAVCLSKISSAE---------------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF   93 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~---------------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   93 (106)
                      .+++|+||++.+.++.               .+..++ |||.||..||.+|++.+++||+||+++..
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            4557999998886432               245566 99999999999999999999999999864

>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=99.69  E-value=1.1e-17  Score=91.65  Aligned_cols=53  Identities=23%  Similarity=0.475  Sum_probs=41.7

Q ss_pred             ccccccccccccccC-C-CeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSA-E-PLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~-~-~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      ++.+|+||++.+..+ + ...+++ |||.||..||.+|+.. +.+||+||+++....
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            467899999986432 3 345566 9999999999999975 567999999987644

>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=99.68  E-value=2.9e-17  Score=98.92  Aligned_cols=53  Identities=26%  Similarity=0.538  Sum_probs=41.0

Q ss_pred             CccccccccccccccC---------------CCeeEeCCCCccccHhhHHHHHhCC-----CCCcccCCCCCCC
Q 036238           41 GISADCAVCLSKISSA---------------EPLQVLPTCHHGFHAHCIDAWLVLH-----STCPLCRANVPFC   94 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~---------------~~~~~l~~C~H~Fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~   94 (106)
                      ..+++|+||+++|..+               ..+..++ |||.||..||..|++.+     .+||+||+.+..+
T Consensus        23 ~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            3456899999998542               2344566 99999999999999753     4799999988654

>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=99.67  E-value=3.4e-17  Score=92.90  Aligned_cols=49  Identities=22%  Similarity=0.655  Sum_probs=41.2

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      ...|+||++.+.+   +++++ |||.||..||..|+.. +++||+||+++....
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            3469999998753   57787 9999999999999975 578999999997644

>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=99.62  E-value=4.5e-17  Score=86.74  Aligned_cols=48  Identities=10%  Similarity=0.169  Sum_probs=41.6

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS   95 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~   95 (106)
                      .|+||++.+.++   +.++.|||.||.+||.+|++++.+||+||+++....
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            599999999754   666559999999999999999999999999987643

>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=99.61  E-value=8.1e-17  Score=92.56  Aligned_cols=50  Identities=28%  Similarity=0.487  Sum_probs=42.2

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS   95 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~   95 (106)
                      ++..|+||++.+.++   ++++ |||.||..||.+|++. +.+||+||.++....
T Consensus        22 ~~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          22 KSISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (86)
T ss_dssp             HHTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             cCcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhh
Confidence            456799999998654   7787 9999999999999974 568999999987654

>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=99.60  E-value=2e-16  Score=93.71  Aligned_cols=54  Identities=30%  Similarity=0.604  Sum_probs=43.8

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC---CCCcccCCCCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH---STCPLCRANVPFCSPQRA   99 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~~~~~~~   99 (106)
                      +...|+||++.|.++   +.++ |||.||..||..|+..+   ..||+||.++.......+
T Consensus        20 ~~l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n   76 (103)
T d1jm7a_          20 KILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQES   76 (103)
T ss_dssp             HHTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCC
T ss_pred             cCcCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcC
Confidence            345799999999754   5677 99999999999999764   379999999976655444

>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=99.59  E-value=1.3e-16  Score=84.91  Aligned_cols=49  Identities=27%  Similarity=0.683  Sum_probs=40.0

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      +..+|+||++.+.++   +++| |||.||..||++|   +.+||+||++++.....
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~~   53 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADT   53 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSSC
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCCC
Confidence            345899999998754   6778 9999999999865   67899999999865443

>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=99.52  E-value=5e-15  Score=79.60  Aligned_cols=54  Identities=15%  Similarity=0.374  Sum_probs=39.5

Q ss_pred             CCccccccccccccccCCCee-EeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQ-VLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF   93 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~-~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~   93 (106)
                      .++...|.||++++.++.... ...+|+|.||..||.+|+..  +.+||+||+++..
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            355678999999986542111 11135699999999999964  5689999998864

>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=99.48  E-value=2.2e-14  Score=80.76  Aligned_cols=57  Identities=14%  Similarity=0.331  Sum_probs=46.9

Q ss_pred             CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC-CCCcccCCCCCCCCCCCC
Q 036238           39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH-STCPLCRANVPFCSPQRA   99 (106)
Q Consensus        39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~~~~~~~   99 (106)
                      +..++..|+||++.|.++   ++++ |||.|+..||.+|+..+ ..||.|+.++.......+
T Consensus         4 eiP~~l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN   61 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPN   61 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEEC
T ss_pred             CCCccCCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCcccccch
Confidence            345778999999999765   6787 99999999999999874 579999999987654433

>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=99.45  E-value=2.4e-14  Score=80.96  Aligned_cols=53  Identities=9%  Similarity=0.053  Sum_probs=44.3

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCC
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSP   96 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~   96 (106)
                      ..++..|+||++.|.++   ++++ |||.|+..||.+|+.. +.+||.||.++.....
T Consensus         4 iP~~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l   57 (80)
T d2c2la2           4 IPDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL   57 (80)
T ss_dssp             CCSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGC
T ss_pred             CCccccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCcccccccccc
Confidence            35677899999999765   6787 9999999999999975 5679999999875543

>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=99.44  E-value=1.2e-14  Score=85.06  Aligned_cols=53  Identities=17%  Similarity=0.427  Sum_probs=41.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR   98 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~   98 (106)
                      .+...|+||++.|.++  +...+ |||.||..||.+|+.  ..||.||.++.......
T Consensus        20 ~~~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l~~   72 (97)
T d1jm7b_          20 EKLLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDLKI   72 (97)
T ss_dssp             HHTTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSCCC
T ss_pred             hhcCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhhCcc
Confidence            3456899999999754  33345 999999999999985  46999999887654443

>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=99.38  E-value=3.7e-13  Score=78.76  Aligned_cols=57  Identities=14%  Similarity=0.096  Sum_probs=46.9

Q ss_pred             CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238           38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ   97 (106)
Q Consensus        38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~   97 (106)
                      .+..++..|+||++.|.++   ++++.|||.|+..||..|+..+.+||+||.++......
T Consensus        17 ~~~P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~   73 (98)
T d1wgma_          17 ADACDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSE
T ss_pred             cCCcHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccchhhc
Confidence            3455678999999999765   78873446899999999999999999999999865543

>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=99.04  E-value=3e-11  Score=69.70  Aligned_cols=48  Identities=21%  Similarity=0.528  Sum_probs=37.0

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRA   89 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~   89 (106)
                      ....+|+||++++...+.+..++ |+|.||.+|+..|++.        .-+||.|+-
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            45668999999987655555555 9999999999999963        125998654

>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=96.40  E-value=0.00079  Score=33.41  Aligned_cols=44  Identities=30%  Similarity=0.696  Sum_probs=31.1

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC----CCcccCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS----TCPLCRA   89 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~----~CP~Cr~   89 (106)
                      .|.||...-. ++..+.-..|+..||..|+..-+....    .||.||.
T Consensus         2 ~C~vC~~~~~-~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCC-CCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5888876533 345556667999999999987655422    4999975

>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=96.13  E-value=0.00063  Score=35.40  Aligned_cols=50  Identities=24%  Similarity=0.522  Sum_probs=35.2

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHh-----CCCCCcccCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-----LHSTCPLCRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-----~~~~CP~Cr~~   90 (106)
                      .....|.+|.+...+++..+.-..|+.-||..|+..-..     .+-.||.|+..
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            345689999988766555566667999999999863111     13359999754

>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=96.07  E-value=0.0033  Score=34.29  Aligned_cols=40  Identities=18%  Similarity=0.354  Sum_probs=28.0

Q ss_pred             CCCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           36 GSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        36 ~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      +.....++..|.|| +.+...+.. -..-|+-+||..|+++-
T Consensus         8 ~re~v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_           8 PREPVVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             SCCCCCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             cccCCCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            33445667789999 777655332 12248899999999986

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.0011  Score=34.16  Aligned_cols=46  Identities=28%  Similarity=0.556  Sum_probs=31.5

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----CCCCcccCCC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----HSTCPLCRAN   90 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~   90 (106)
                      ..++.|.+|.+.    ..++.-..|.-.||..|+...+..    .-.||.|+..
T Consensus         7 ~~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            344569999753    345555568899999998765543    2249999754

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.56  E-value=0.0039  Score=32.89  Aligned_cols=46  Identities=26%  Similarity=0.485  Sum_probs=31.9

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC----CCcccCCCCC
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS----TCPLCRANVP   92 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~----~CP~Cr~~~~   92 (106)
                      ...|.+|.+.    ..++.-..|...||..|+...+....    .||.|+..-.
T Consensus         7 c~~C~~C~~~----~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           7 ATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCc----CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            3457777543    34566667999999999997765432    4999976544

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.01  E-value=0.18  Score=26.59  Aligned_cols=48  Identities=21%  Similarity=0.344  Sum_probs=32.0

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHH--H-HhC--CCCCcccCCCCC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA--W-LVL--HSTCPLCRANVP   92 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~--w-l~~--~~~CP~Cr~~~~   92 (106)
                      .+.||...+..++..+....|+--||..|+..  . ...  +-.||.|+....
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~g   65 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcC
Confidence            44499987665555555667888899999842  1 122  346999987554

>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=93.99  E-value=0.13  Score=27.99  Aligned_cols=53  Identities=15%  Similarity=0.276  Sum_probs=36.6

Q ss_pred             Ccccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCC
Q 036238           41 GISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPF   93 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   93 (106)
                      .....|.||-+.+..   ++..+....|+--.|..|.+-=.+. ++.||.|+.++..
T Consensus        14 ~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             cccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            456689999998753   2222222347777899998754443 7789999988753

>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=93.03  E-value=0.051  Score=28.55  Aligned_cols=35  Identities=14%  Similarity=0.310  Sum_probs=26.2

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      ++..|.+|...|..-..-..-..||++|+..|...
T Consensus        12 ~~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          12 DGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             cCCccccCCCcccCccccccccccCCeeChhhhCC
Confidence            44579999999875444445556999999999654

>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=92.67  E-value=0.11  Score=27.22  Aligned_cols=37  Identities=16%  Similarity=0.377  Sum_probs=27.9

Q ss_pred             cccccccccccccCCCeeEeC-CCCccccHhhHHHHHhC
Q 036238           43 SADCAVCLSKISSAEPLQVLP-TCHHGFHAHCIDAWLVL   80 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl~~   80 (106)
                      ...|.+|.+.+++. ..+..| .=+|.||..|-+..++.
T Consensus         8 ~l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCC-ceEeCCCCcCCceeccccHHHHHh
Confidence            46799999999865 444444 23599999999999874

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.43  E-value=0.062  Score=28.16  Aligned_cols=42  Identities=26%  Similarity=0.595  Sum_probs=24.3

Q ss_pred             ccccccccccccCCCeeEeC--CCCc-cccHhhHHHHHhC----CCCCcccCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLP--TCHH-GFHAHCIDAWLVL----HSTCPLCRAN   90 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~--~C~H-~Fh~~Ci~~wl~~----~~~CP~Cr~~   90 (106)
                      .-| ||.+... + ..+...  .|.+ -||..|+.  +..    +-.||.|+..
T Consensus        17 ~~C-iC~~~~~-~-~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          17 TYC-LCNQVSY-G-EMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCS-TTCCCCC-S-SEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CEE-EeCCCCC-C-CEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            345 9987642 2 222332  2444 59999985  333    2259999764

>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=91.43  E-value=0.0073  Score=29.95  Aligned_cols=44  Identities=20%  Similarity=0.431  Sum_probs=27.3

Q ss_pred             cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238           45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR   88 (106)
Q Consensus        45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr   88 (106)
                      .|.+|...|..-..-..-..||.+|+..|..........|..|.
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~   45 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   45 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHh
Confidence            57888888864333334446999999999765433344566663

>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=91.41  E-value=0.041  Score=27.87  Aligned_cols=45  Identities=20%  Similarity=0.356  Sum_probs=31.2

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC   87 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C   87 (106)
                      ....|--|...+.+. .....+.|++.|+.+|=.---+.-.+||-|
T Consensus        14 ~~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCC-ceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            345799999888643 334566799999999955322334579987

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.25  E-value=0.035  Score=30.12  Aligned_cols=49  Identities=20%  Similarity=0.453  Sum_probs=32.2

Q ss_pred             cccccccccccccc-CCCeeEeCCCCccccHhhHHHHH-----hC---CCCCcccCCC
Q 036238           42 ISADCAVCLSKISS-AEPLQVLPTCHHGFHAHCIDAWL-----VL---HSTCPLCRAN   90 (106)
Q Consensus        42 ~~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~~wl-----~~---~~~CP~Cr~~   90 (106)
                      ....|.||...... ...++....|+..||..|+...+     ..   .-.||.|...
T Consensus        15 ~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~   72 (88)
T d1weva_          15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQ   72 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHH
T ss_pred             CcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCch
Confidence            34569999875443 23455566799999999976332     11   2359999653

>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=90.99  E-value=0.1  Score=26.65  Aligned_cols=36  Identities=19%  Similarity=0.322  Sum_probs=25.8

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA   76 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~   76 (106)
                      .+...|.+|-..|..-..-..-..||++|+..|...
T Consensus         6 ~~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~   41 (64)
T d1joca1           6 NEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK   41 (64)
T ss_dssp             GGCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             ccCCcCcCcCCcccCCccccchhhhCCeecccccCC
Confidence            344579999999875443344456999999999654

>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=90.11  E-value=0.26  Score=25.51  Aligned_cols=48  Identities=19%  Similarity=0.414  Sum_probs=29.9

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhhHH----H--H---HhCCCCCcccCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCID----A--W---LVLHSTCPLCRANV   91 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~----~--w---l~~~~~CP~Cr~~~   91 (106)
                      +...| ||.....+ +..+.-..|.--||..|+.    .  .   ....-.||.|+..-
T Consensus        15 ~~~~C-iC~~~~~~-~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          15 NALYC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TCCCS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CcCEE-ECCCccCC-CeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            33457 89876543 3455555688889999982    1  1   11245799996543

>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=90.02  E-value=0.14  Score=26.31  Aligned_cols=35  Identities=20%  Similarity=0.282  Sum_probs=25.1

Q ss_pred             cccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238           43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW   77 (106)
Q Consensus        43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w   77 (106)
                      ++.|.+|...|..-..-..-..||.+|+..|...+
T Consensus         5 ~~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~   39 (67)
T d1vfya_           5 SDACMICSKKFSLLNRKHHCRSCGGVFCQEHSSNS   39 (67)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECGGGSCEE
T ss_pred             CcccccCCCcccCcccccccccCCCEecccccCCc
Confidence            34799999998754333444469999999996543

>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=89.48  E-value=0.2  Score=26.39  Aligned_cols=48  Identities=23%  Similarity=0.466  Sum_probs=29.2

Q ss_pred             ccccccccccccccCCCeeEeC--CCCccccHhhHHHH---H-h-----CCCCCcccCCCC
Q 036238           42 ISADCAVCLSKISSAEPLQVLP--TCHHGFHAHCIDAW---L-V-----LHSTCPLCRANV   91 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~--~C~H~Fh~~Ci~~w---l-~-----~~~~CP~Cr~~~   91 (106)
                      +...| ||.+....+ ..+...  .|..=||..|+.--   + .     ..-.||.|+..-
T Consensus        15 ~~~~C-~C~~~~~~~-~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T d1wewa_          15 IKVRC-VCGNSLETD-SMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCCC-SSCCCCCCS-CEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             CccEe-ECCCccCCC-cEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcC
Confidence            34467 899876543 333442  38888999998420   0 0     124599997544

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

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: Chicken (Gallus gallus) [TaxId: 9031]

Probab=88.38  E-value=0.32  Score=22.84  Aligned_cols=31  Identities=26%  Similarity=0.503  Sum_probs=22.3

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhH
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCI   74 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci   74 (106)
                      ...+.|+.|-...-.-+++..   =|+.||..|+
T Consensus        13 g~~~kC~~C~k~VY~~E~~~~---~g~~~Hk~CF   43 (43)
T d1b8ta3          13 GGSDGCPRCGQAVYAAEKVIG---AGKSWHKSCF   43 (43)
T ss_dssp             CCCEECTTTSCEECSSSCEEE---TTEEECTTTC
T ss_pred             CCCCcCccCCCEeeHHHHhhc---CCCccccCCC
Confidence            445789999887655555432   6899999883

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {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 At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=87.87  E-value=0.27  Score=25.33  Aligned_cols=46  Identities=24%  Similarity=0.366  Sum_probs=30.2

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhHHHHHh----CCCCCcccCCC
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV----LHSTCPLCRAN   90 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~----~~~~CP~Cr~~   90 (106)
                      ..| ||.....+++..+.-..|..-||..|+..-..    ..-.||.|+..
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~   66 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCc
Confidence            457 78776655555566667889999999754212    13358888654

>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=86.66  E-value=0.23  Score=28.47  Aligned_cols=34  Identities=15%  Similarity=0.354  Sum_probs=24.4

Q ss_pred             Ccccccccccccccc-CCCeeEeCCCCccccHhhH
Q 036238           41 GISADCAVCLSKISS-AEPLQVLPTCHHGFHAHCI   74 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci   74 (106)
                      .+...|.+|...|.. ...-.....||+.||..|-
T Consensus        46 ~~~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~   80 (124)
T d1zbdb_          46 DGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCG   80 (124)
T ss_dssp             CSSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSE
T ss_pred             cCCCcCcccCCcccCCCCCCCcCccCCcccccCCC
Confidence            335579999999863 2333445579999999994

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.74  E-value=0.23  Score=21.69  Aligned_cols=29  Identities=21%  Similarity=0.494  Sum_probs=21.9

Q ss_pred             ccccccccccccCCCeeEeCCCCccccHhhH
Q 036238           44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCI   74 (106)
Q Consensus        44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci   74 (106)
                      ..|+-|...+...|-++..  =+++||..|+
T Consensus         3 g~Ca~C~~~I~~~e~VmRA--~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRA--QGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEE--TTEEECGGGC
T ss_pred             cccccccCcCChhHhheec--ccceeeeccC
Confidence            4699999998876655443  5789999984

>d1wfka_ g.50.1.1 (A:) Zinc finger FYVE domain containing protein 19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Zinc finger FYVE domain containing protein 19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.30  E-value=0.67  Score=24.95  Aligned_cols=48  Identities=19%  Similarity=0.469  Sum_probs=33.4

Q ss_pred             CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-------CCCCcccC
Q 036238           41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-------HSTCPLCR   88 (106)
Q Consensus        41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-------~~~CP~Cr   88 (106)
                      ..+..|.+|...|..-..-.....||-+||..|....+..       .+.|..|-
T Consensus         7 ~~~s~C~~C~~~Fs~~~rrhhCr~CG~vfC~~Cs~~~~~lp~~~~~~~RVC~~C~   61 (88)
T d1wfka_           7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCH   61 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEEEEETTTTSEEEEECHHHH
T ss_pred             cccCcCcccCchhccccccccccccChhhChHHhCCccccCCCCCCCCeECHHHH
Confidence            4455799999999755454555579999999998755431       12487783

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.08  E-value=0.74  Score=20.32  Aligned_cols=30  Identities=27%  Similarity=0.484  Sum_probs=23.2

Q ss_pred             ccccccccccccccCCCeeEeCCCCccccHhh
Q 036238           42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHC   73 (106)
Q Consensus        42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~C   73 (106)
                      ....|.-|.+.|.+.++++-.  =|-.+|..|
T Consensus         6 ~~~~C~RC~~gF~p~EkiVNS--nGEl~H~qC   35 (35)
T d1g47a1           6 ASATCERCKGGFAPAEKIVNS--NGELYHEQC   35 (35)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEE--TTEEECTTT
T ss_pred             HHHHHHHHccCCCchHHhhcC--CCccccccC
Confidence            345799999999988887654  577788776

>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: PhnA zinc-binding domain
domain: Hypothetical protein PA0128, N-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=80.62  E-value=0.4  Score=21.86  Aligned_cols=26  Identities=31%  Similarity=0.657  Sum_probs=16.3

Q ss_pred             cccccccccccc-CCCeeEeCCCCccc
Q 036238           44 ADCAVCLSKISS-AEPLQVLPTCHHGF   69 (106)
Q Consensus        44 ~~C~ICl~~~~~-~~~~~~l~~C~H~F   69 (106)
                      ..|+-|-.+|.- +....+.|.|+|-+
T Consensus         4 P~CP~C~seytYedg~l~vCPeC~hEW   30 (38)
T d2akla2           4 PPCPQCNSEYTYEDGALLVCPECAHEW   30 (38)
T ss_dssp             CCCTTTCCCCCEECSSSEEETTTTEEE
T ss_pred             CcCCCCCCcceEcCCCEEECCcccCcC
Confidence            358888887652 23445566677754

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.38  E-value=0.6  Score=21.01  Aligned_cols=32  Identities=31%  Similarity=0.527  Sum_probs=21.0

Q ss_pred             CCccccccccccccccCCCeeEeCCCCccccHhhH
Q 036238           40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCI   74 (106)
Q Consensus        40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci   74 (106)
                      ....+.|.+|-...-.-+.+  . .=|+.||..|+
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl--~-a~g~~yHk~CF   36 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERL--C-VNGHFFHRSCF   36 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBC--C-BTTBCCBTTTC
T ss_pred             CCCCCcccccCCEEeeeeEE--E-ecCcEeccccC
Confidence            34567899998775433333  2 25788999883