Citrus Sinensis ID: 029826

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------
Protein Sequence
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHGGA
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEHcccccccEcccccHHHHHHHHHHHHccccccccccccHHccEEEcccccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccccHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
megppcgdvcsvchgnfnvpcqancshwfcgnCIMLVWdhgstlqacrcplcrrritllipnddslrqrhdpavgDILQKVEsynrifggpttanglfQRIQDLPFLLRRLVRELvdphrslplVIRARVYIAMIFSAVyifspidiiPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHGGA
Flexible Loop (DISEMBL)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLlipnddslrqrhDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELvdphrslplvIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHGGA
Low Complexity Region (SEG)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEallgivgllddlliallCFLHVAALYRAVLYNRHGGA
Disordered region (IsUnstruct)
*****CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYN*****
Disordered Region (DISOPRED)
**GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP*****************QKVESYNRIFGG*TT**GLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNR****
Disordered Region (DISEMBL)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHGGA
Disordered Region (DISPRO)
******GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRH***
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHGGA
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	187	2.2.26 [Sep-21-2011]
F1MK05	259	E3 ubiquitin-protein liga	yes	no	0.903	0.652	0.373	1e-28
Q28DS3	257	E3 ubiquitin-protein liga	yes	no	0.903	0.657	0.371	5e-28
Q8CBG9	286	E3 ubiquitin-protein liga	yes	no	0.903	0.590	0.373	2e-27
Q96K19	258	E3 ubiquitin-protein liga	yes	no	0.903	0.655	0.367	5e-27
Q7SZN2	266	E3 ubiquitin-protein liga	yes	no	0.930	0.654	0.357	9e-27
Q5PPX5	257	E3 ubiquitin-protein liga	N/A	no	0.903	0.657	0.394	2e-23

>sp|F1MK05|RN170_BOVIN E3 ubiquitin-protein ligase RNF170 OS=Bos taurus GN=RNF170 PE=3 SV=2

 Score =  125 bits (315), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/174 (37%), Positives = 97/174 (55%), Gaps = 5/174 (2%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
           C +C    ++P + NC H FCG CI+  W +GS L A  CP+CR+ +TLL+P      Q 
Sbjct: 88  CPICLHQASLPVETNCGHLFCGTCIVAYWRYGSWLGAISCPICRQTVTLLLPVFGENDQS 147

Query: 70  HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
            D  V  + Q +  YNR F G      + +RI DLP LLR   RE+      L  + R R
Sbjct: 148 QD--VVSLHQDISDYNRRFSG--QPRSIMERIMDLPTLLRHAFREMFSVG-GLFWMFRIR 202

Query: 130 VYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNR 183
           + + ++ +  Y+ SP+D +PEAL GI+G LDD  +  L  ++++ +YR V+  R
Sbjct: 203 IILCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 256

E3 ubiquitin-protein ligase. Plays an essential role in stimulus-induced inositol 1,4,5-trisphosphate receptor type 1 (ITPR1) ubiquitination and degradation via the endoplasmic reticulum-associated degradation (ERAD) pathway. Also involved in ITPR1 turnover in resting cells.
Bos taurus (taxid: 9913)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q28DS3|RN170_XENTR E3 ubiquitin-protein ligase RNF170 OS=Xenopus tropicalis GN=rnf170 PE=2 SV=1

 Score =  124 bits (310), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 65/175 (37%), Positives = 96/175 (54%), Gaps = 6/175 (3%)

Query: 9   VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQ 68
            C VC      P + NC H FCG+CI+  W +GS L A  CP+CR+ +TL+ P   +  Q
Sbjct: 86  TCPVCLQQATFPVETNCGHLFCGSCIIAYWRYGSWLGAINCPICRQTVTLIFPLFQATEQ 145

Query: 69  RHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRA 128
                  +IL++   YNR F G      L  RI DLP LLR   RE+      L  + R 
Sbjct: 146 EDS---QNILREAIGYNRRFSG--QPRSLMDRIMDLPTLLRHAFREMFSVG-GLFWMFRI 199

Query: 129 RVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNR 183
           R+ + ++ +  Y+ SP+DIIPEA+ G++G LDD  +  L  ++++ +YR V+  R
Sbjct: 200 RIVLCLLGALFYLVSPLDIIPEAVFGLLGFLDDFFVLFLLLIYISIMYREVVTQR 254

Xenopus tropicalis (taxid: 8364)

>sp|Q8CBG9|RN170_MOUSE E3 ubiquitin-protein ligase RNF170 OS=Mus musculus GN=Rnf170 PE=1 SV=1

 Score =  122 bits (305), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 65/174 (37%), Positives = 96/174 (55%), Gaps = 5/174 (2%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
           C +C    + P + NC H FCG+CI+  W +GS L A  CP+CR+ +TLL+       Q 
Sbjct: 115 CPICLHQASFPVETNCGHLFCGSCIIAYWRYGSWLGAISCPICRQTVTLLLTVFGEDDQS 174

Query: 70  HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
            D  V  + Q V  YNR F G      + +RI DLP LLR   RE+      L  + R R
Sbjct: 175 QD--VIRLRQDVNDYNRRFSG--QPRSIMERIMDLPTLLRHAFREVFSVG-GLFWMFRIR 229

Query: 130 VYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNR 183
           + + ++ +  Y+ SP+D +PEAL GI+G LDD  +  L  ++++ +YR V+  R
Sbjct: 230 IMLCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 283

Mus musculus (taxid: 10090)

>sp|Q96K19|RN170_HUMAN E3 ubiquitin-protein ligase RNF170 OS=Homo sapiens GN=RNF170 PE=1 SV=2

 Score =  120 bits (301), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 64/174 (36%), Positives = 95/174 (54%), Gaps = 5/174 (2%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
           C +C    + P + NC H FCG CI+  W +GS L A  CP+CR+ +TLL+       Q 
Sbjct: 87  CPICLHQASFPVETNCGHLFCGACIIAYWRYGSWLGAISCPICRQTVTLLLTVFGEDDQS 146

Query: 70  HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
            D  V  + Q +  YNR F G      + +RI DLP LLR   RE+      L  + R R
Sbjct: 147 QD--VLRLHQDINDYNRRFSG--QPRSIMERIMDLPTLLRHAFREMFSVG-GLFWMFRIR 201

Query: 130 VYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNR 183
           + + ++ +  Y+ SP+D +PEAL GI+G LDD  +  L  ++++ +YR V+  R
Sbjct: 202 IILCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 255

Homo sapiens (taxid: 9606)

>sp|Q7SZN2|RN170_DANRE E3 ubiquitin-protein ligase RNF170 OS=Danio rerio GN=rnf170 PE=2 SV=1

 Score =  119 bits (299), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 65/182 (35%), Positives = 99/182 (54%), Gaps = 8/182 (4%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP----NDDS 65
           C VC     +P + NC H FCG+CI+  W +G+ L A  CP+CR+ +TLL P    ++ S
Sbjct: 88  CPVCLQQAVLPVETNCGHLFCGSCIIAYWRYGTWLGAISCPICRQMVTLLFPLFQDSEQS 147

Query: 66  LRQRHDPAVGD-ILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPL 124
                 P     IL  +  YNR F G      L  R++D+P LLR   RE+      L  
Sbjct: 148 AVAADSPVEPTLILTDISDYNRRFSG--QPRSLLDRLRDVPTLLRHAFREMFSVG-GLFW 204

Query: 125 VIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRH 184
           + R R+ + +  +  Y+ SP+D +PE +LG++G LDD  + LL F++++ +YR V+  R 
Sbjct: 205 MFRVRILLCVCGALAYLVSPLDFLPEGVLGLLGFLDDFFVILLLFIYISIMYREVVTQRL 264

Query: 185 GG 186
            G
Sbjct: 265 AG 266

Danio rerio (taxid: 7955)

>sp|Q5PPX5|RN170_XENLA E3 ubiquitin-protein ligase RNF170 OS=Xenopus laevis GN=rnf170 PE=2 SV=1

 Score =  108 bits (270), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 69/175 (39%), Positives = 98/175 (56%), Gaps = 6/175 (3%)

Query: 9   VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQ 68
            C VC      P + NC H FCG+CI+  W +G+ L A  CP+CR+ +TLL P   +  Q
Sbjct: 86  TCPVCLQQATFPVETNCGHLFCGSCIIAYWRYGTWLGAINCPICRQTVTLLFPLFGATDQ 145

Query: 69  RHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRA 128
                  +ILQ+   YNR F G      L  RI DLP LLR   RE+      L  + R 
Sbjct: 146 ED---AQNILQEATGYNRRFSG--QPRSLMDRIMDLPTLLRHAFREMFSVG-GLFWMFRI 199

Query: 129 RVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNR 183
           R+ + ++ + +Y+ SP+DIIPEAL GI+G LDDL +  L  ++++ +YR V+  R
Sbjct: 200 RIVLCLLGALLYLVSPLDIIPEALFGILGFLDDLFVLFLLLIYISIMYREVVTQR 254

Xenopus laevis (taxid: 8355)

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	187
351727639	186	uncharacterized protein LOC100306204 [Gl	0.978	0.983	0.695	5e-73
224146326	185	predicted protein [Populus trichocarpa]	0.989	1.0	0.711	4e-67
388493190	188	unknown [Lotus japonicus]	0.983	0.978	0.689	8e-67
449441207	185	PREDICTED: E3 ubiquitin-protein ligase R	0.989	1.0	0.684	8e-67
224135683	185	predicted protein [Populus trichocarpa]	0.989	1.0	0.705	3e-66
18410010	185	C3HC4-type RING finger protein [Arabidop	0.989	1.0	0.705	2e-65
357455561	192	RING finger protein [Medicago truncatula	0.973	0.947	0.617	4e-62
225460374	186	PREDICTED: RING finger protein 170 [Viti	0.978	0.983	0.681	7e-61
21554064	185	unknown [Arabidopsis thaliana]	0.989	1.0	0.700	9e-61
18395127	185	C3HC4-type RING finger protein [Arabidop	0.989	1.0	0.695	2e-60

>gi|351727639|ref|NP_001235376.1| uncharacterized protein LOC100306204 [Glycine max] gi|255627857|gb|ACU14273.1| unknown [Glycine max]

 Score =  278 bits (712), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 130/187 (69%), Positives = 157/187 (83%), Gaps = 4/187 (2%)

Query: 2   EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP 61
            GPP  D+CSVCHGNF++PCQANCSHWFCGNCIMLVW HGS   +C+CPLCRR I+LL+P
Sbjct: 3   SGPPANDLCSVCHGNFHIPCQANCSHWFCGNCIMLVWQHGSVGCSCKCPLCRRAISLLVP 62

Query: 62  NDDSLRQRHDPAVGDILQKVESYNRIFGG-PTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
            ++SLRQ+ DP V  IL K+ +YNR FGG PTT   L+QR++DLPFLL RL+RE + PHR
Sbjct: 63  TEESLRQQQDPEVSQILSKIHAYNRFFGGQPTT---LYQRLRDLPFLLHRLLREFLHPHR 119

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           SLPL+IRARV++ MI S +Y+FSPIDIIPE +LG+VG LDDLLI L+CFLHVAALYR+VL
Sbjct: 120 SLPLLIRARVFVVMIASVIYLFSPIDIIPEGILGVVGFLDDLLIVLICFLHVAALYRSVL 179

Query: 181 YNRHGGA 187
           Y RHGG+
Sbjct: 180 YLRHGGS 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146326|ref|XP_002325966.1| predicted protein [Populus trichocarpa] gi|222862841|gb|EEF00348.1| predicted protein [Populus trichocarpa]

 Score =  259 bits (661), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 133/187 (71%), Positives = 162/187 (86%), Gaps = 2/187 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M+GPP  D CS+CHG+FN+ CQANCSHWFCG+CIMLVW HGS LQ C+CPLCRR+ITLL+
Sbjct: 1   MDGPPVNDFCSICHGHFNIACQANCSHWFCGDCIMLVWHHGSVLQPCKCPLCRRQITLLV 60

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P + SLR+R DP V ++L K+E YN +FGG T+  GL QR+QDLPFLLRRL+RE++DP R
Sbjct: 61  PGEASLRERSDPDVAEVLGKIERYNHLFGGNTS--GLIQRMQDLPFLLRRLLREIMDPQR 118

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           SLPLVIRARVYIA++ SA+Y+ SPIDIIPE +LGIVGLLDDLL+ L+CFLHVAA+YRAVL
Sbjct: 119 SLPLVIRARVYIAVVLSAIYVISPIDIIPEGILGIVGLLDDLLVVLICFLHVAAIYRAVL 178

Query: 181 YNRHGGA 187
           + RHGG+
Sbjct: 179 HYRHGGS 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493190|gb|AFK34661.1| unknown [Lotus japonicus]

 Score =  258 bits (659), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 129/187 (68%), Positives = 154/187 (82%), Gaps = 3/187 (1%)

Query: 2   EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP 61
           EGPP  D+CSVCHGNF++PCQANCSHWFC NCIMLVW+HGS +Q C+CPLCRR ITLL+P
Sbjct: 4   EGPPLNDLCSVCHGNFHIPCQANCSHWFCANCIMLVWNHGSAIQPCKCPLCRRPITLLVP 63

Query: 62  ND-DSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
            + DS   R +P V  +L ++++YNR FG    ++G  QR+ DLPFLLRRL RE +DP R
Sbjct: 64  TEQDSASHRQEPEVAHVLSQIQTYNRFFGA--RSSGPLQRMLDLPFLLRRLAREFLDPQR 121

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           SLPLVIRARVYIAMI SA+Y+FSPIDIIPE + G+VGLLDDLLI L+ FLHVAALYR+VL
Sbjct: 122 SLPLVIRARVYIAMIISAIYVFSPIDIIPEGIWGVVGLLDDLLIMLIFFLHVAALYRSVL 181

Query: 181 YNRHGGA 187
           Y RHGG+
Sbjct: 182 YRRHGGS 188

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441207|ref|XP_004138374.1| PREDICTED: E3 ubiquitin-protein ligase RNF170-like [Cucumis sativus]

 Score =  258 bits (659), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 128/187 (68%), Positives = 154/187 (82%), Gaps = 2/187 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M+GPP GD+CS+CHG FN+PCQANCSHWFCG CIMLVWDHGS L  C+CPLCRR ITLL+
Sbjct: 1   MDGPPVGDICSICHGRFNIPCQANCSHWFCGKCIMLVWDHGSPLHPCKCPLCRRSITLLV 60

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P++ S  Q+ DP V  +L  + +YNR FGG +T   L QR+QDLPFLLRRL+REL +P R
Sbjct: 61  PSEVSPIQQSDPEVARVLNNIRTYNRHFGGNST--DLSQRLQDLPFLLRRLLRELHNPQR 118

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           SLPLVIR RVYIAM+ S +Y  SPIDIIPEALLG+ GL+DD+LI L+CFL++AA+YR+VL
Sbjct: 119 SLPLVIRTRVYIAMVLSVIYTVSPIDIIPEALLGLFGLMDDILILLICFLYIAAMYRSVL 178

Query: 181 YNRHGGA 187
           YNRHGG 
Sbjct: 179 YNRHGGT 185

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135683|ref|XP_002327279.1| predicted protein [Populus trichocarpa] gi|222835649|gb|EEE74084.1| predicted protein [Populus trichocarpa]

 Score =  256 bits (654), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 132/187 (70%), Positives = 163/187 (87%), Gaps = 2/187 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M+GPP  D C++CHG+FN+ CQANCSHWFCG+CIMLVW HGS LQ C+CPLCRR+ITLL+
Sbjct: 1   MDGPPGNDCCAICHGHFNIACQANCSHWFCGDCIMLVWHHGSVLQPCKCPLCRRQITLLV 60

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P + SLR+R+DP V ++L K+E YN +FGG T++  L QR+QDLPFLLRRL+RE++DP R
Sbjct: 61  PGEASLRERNDPHVAEVLGKIERYNHLFGGNTSS--LVQRMQDLPFLLRRLLREIMDPQR 118

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           SLP+VI+ARVYIAM+ SAVYI SP+DIIPE +LGIVGLLDDLLI L+CFLHVAA+YR+VL
Sbjct: 119 SLPVVIKARVYIAMVLSAVYIISPVDIIPEGILGIVGLLDDLLIVLICFLHVAAIYRSVL 178

Query: 181 YNRHGGA 187
           Y RHGG+
Sbjct: 179 YYRHGGS 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18410010|ref|NP_565037.1| C3HC4-type RING finger protein [Arabidopsis thaliana] gi|13878189|gb|AAK44172.1|AF370357_1 unknown protein [Arabidopsis thaliana] gi|16323398|gb|AAL15193.1| unknown protein [Arabidopsis thaliana] gi|21536916|gb|AAM61248.1| unknown [Arabidopsis thaliana] gi|332197164|gb|AEE35285.1| C3HC4-type RING finger protein [Arabidopsis thaliana]

 Score =  253 bits (646), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 132/187 (70%), Positives = 161/187 (86%), Gaps = 2/187 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M  PP  D+CS+CH +F  PCQANCSHWFCGNCIMLVW HGSTLQ C+CPLCRR I+LL+
Sbjct: 1   MNSPPENDLCSICHSHFTAPCQANCSHWFCGNCIMLVWRHGSTLQPCKCPLCRRHISLLV 60

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P++D++R R+D  V ++L  +E+YNR+FGG +++  L QR+QDLPFLLRRL+RE++DP R
Sbjct: 61  PSEDTIRDRNDATVKEVLGNLETYNRLFGGRSSS--LVQRMQDLPFLLRRLLREMMDPQR 118

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           +LPLVIRARVYIAMI SAVYI SPIDIIPE +LG+VGLLDDLLIAL+CFLHVAALYR+VL
Sbjct: 119 TLPLVIRARVYIAMILSAVYIISPIDIIPEGVLGVVGLLDDLLIALICFLHVAALYRSVL 178

Query: 181 YNRHGGA 187
           Y RH G+
Sbjct: 179 YFRHAGS 185

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357455561|ref|XP_003598061.1| RING finger protein [Medicago truncatula] gi|355487109|gb|AES68312.1| RING finger protein [Medicago truncatula]

 Score =  242 bits (618), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 116/188 (61%), Positives = 145/188 (77%), Gaps = 6/188 (3%)

Query: 2   EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP 61
           EGPP  D+CS+CHGNF +PCQANCSHWFC NCI+ VW + S LQ C+CPLCRR I LL+P
Sbjct: 9   EGPPTNDLCSICHGNFQLPCQANCSHWFCANCIIQVWQYSSPLQPCKCPLCRRPINLLVP 68

Query: 62  ND--DSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPH 119
            D  D      D      L  ++ YNR+FG  + A+ + QR++DLPFLL+RL ++ V+P+
Sbjct: 69  TDVVDDANSEQDRLN---LADIQRYNRVFGQQSNAS-IVQRLRDLPFLLKRLFKDFVNPN 124

Query: 120 RSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAV 179
            SLPLVIRARV+I M+ S +YIFSPIDIIPE +LGI+GLLDD+LIAL+ FLHVAALYR+V
Sbjct: 125 TSLPLVIRARVFITMLLSIIYIFSPIDIIPEGMLGIIGLLDDVLIALIFFLHVAALYRSV 184

Query: 180 LYNRHGGA 187
           LY RHGG+
Sbjct: 185 LYLRHGGS 192

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460374|ref|XP_002264470.1| PREDICTED: RING finger protein 170 [Vitis vinifera] gi|296089528|emb|CBI39347.3| unnamed protein product [Vitis vinifera]

 Score =  238 bits (608), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 126/185 (68%), Positives = 153/185 (82%), Gaps = 2/185 (1%)

Query: 2   EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP 61
           EGPP  DVCSVCHG FN+P QANCSHWFCGNCI+LVW HGS LQ C+CPLCRR+ITLL+P
Sbjct: 3   EGPPANDVCSVCHGGFNIPFQANCSHWFCGNCILLVWQHGSALQPCKCPLCRRQITLLVP 62

Query: 62  NDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRS 121
              S RQ +DP V  I+ +VE YNR+FG     + LFQR++DLPFLLRRL+REL+DP RS
Sbjct: 63  AGASQRQCNDPEVSAIVGRVERYNRLFG--RCDSSLFQRMRDLPFLLRRLLRELMDPQRS 120

Query: 122 LPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLY 181
           LPL+IRARVY AM+ S +YI SP+DIIPE ++GI+GLLDD +IA +CFLH+AA+YR+VL 
Sbjct: 121 LPLLIRARVYFAMLTSIIYIVSPVDIIPEGVVGILGLLDDFIIAFICFLHIAAIYRSVLV 180

Query: 182 NRHGG 186
           +RHGG
Sbjct: 181 HRHGG 185

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21554064|gb|AAM63145.1| unknown [Arabidopsis thaliana]

 Score =  238 bits (607), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 131/187 (70%), Positives = 165/187 (88%), Gaps = 2/187 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M  PP  +VCS+CHG+FN PCQ+NCSHWFCGNCIMLVW HGSTL+ C+CPLCRR I+LL+
Sbjct: 1   MNAPPENEVCSICHGHFNAPCQSNCSHWFCGNCIMLVWRHGSTLRPCKCPLCRRPISLLV 60

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P+++++R R+D  V ++L  VE+YNR+FGG   ++GL QR+QDLPFLLRRL+RE++DP R
Sbjct: 61  PSEETVRSRNDATVSEVLHDVETYNRVFGG--QSSGLIQRMQDLPFLLRRLLREMMDPQR 118

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           +LPLVIRARVYIA+I SA+YI SPIDIIPE +LG++GLLDDLLIAL+CFLHVAALYR+VL
Sbjct: 119 TLPLVIRARVYIALILSAIYIISPIDIIPEGVLGVIGLLDDLLIALICFLHVAALYRSVL 178

Query: 181 YNRHGGA 187
           Y+RHGG+
Sbjct: 179 YSRHGGS 185

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18395127|ref|NP_564172.1| C3HC4-type RING finger protein [Arabidopsis thaliana] gi|110740529|dbj|BAE98370.1| hypothetical protein [Arabidopsis thaliana] gi|332192128|gb|AEE30249.1| C3HC4-type RING finger protein [Arabidopsis thaliana]

 Score =  236 bits (603), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 130/187 (69%), Positives = 165/187 (88%), Gaps = 2/187 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M  PP  ++CS+CHG+FN PCQ+NCSHWFCGNCIMLVW HGSTL+ C+CPLCRR I+LL+
Sbjct: 1   MNAPPENELCSICHGHFNAPCQSNCSHWFCGNCIMLVWRHGSTLRPCKCPLCRRPISLLV 60

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P+++++R R+D  V ++L  VE+YNR+FGG   ++GL QR+QDLPFLLRRL+RE++DP R
Sbjct: 61  PSEETVRSRNDATVSEVLHDVETYNRVFGG--QSSGLIQRMQDLPFLLRRLLREMMDPQR 118

Query: 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVL 180
           +LPLVIRARVYIA+I SA+YI SPIDIIPE +LG++GLLDDLLIAL+CFLHVAALYR+VL
Sbjct: 119 TLPLVIRARVYIALILSAIYIISPIDIIPEGVLGVIGLLDDLLIALICFLHVAALYRSVL 178

Query: 181 YNRHGGA 187
           Y+RHGG+
Sbjct: 179 YSRHGGS 185

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	187
TAIR|locus:505006218	185	AT1G72175 [Arabidopsis thalian	0.989	1.0	0.636	6.7e-65
TAIR|locus:2118919	262	AT4G33940 [Arabidopsis thalian	0.919	0.656	0.357	5.4e-31
UNIPROTKB|F1NKI3	287	RNF170 "Uncharacterized protei	0.893	0.581	0.327	1.1e-23
UNIPROTKB|F1MK05	259	RNF170 "E3 ubiquitin-protein l	0.903	0.652	0.321	3.8e-23
MGI|MGI:1924983	286	Rnf170 "ring finger protein 17	0.903	0.590	0.321	7e-22
ZFIN|ZDB-GENE-040426-2572	266	rnf170 "ring finger protein 17	0.930	0.654	0.313	9e-22
UNIPROTKB|Q96K19	258	RNF170 "E3 ubiquitin-protein l	0.903	0.655	0.316	1.9e-21
UNIPROTKB|E2RGZ9	639	RNF170 "Uncharacterized protei	0.903	0.264	0.316	2.9e-21
UNIPROTKB|F1NCS0	138	F1NCS0 "Uncharacterized protei	0.422	0.572	0.358	5.6e-13
WB|WBGene00012606	283	Y38F1A.2 [Caenorhabditis elega	0.732	0.484	0.255	2.7e-11

TAIR|locus:505006218 AT1G72175 [Arabidopsis thaliana (taxid:3702)]

 Score = 661 (237.7 bits), Expect = 6.7e-65, P = 6.7e-65
 Identities = 119/187 (63%), Positives = 145/187 (77%)

Query:     1 MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
             M  PP  D+CS+CH +F  PCQANCSHWFCGNCIMLVW HGSTLQ C+CPLCRR I+LL+
Sbjct:     1 MNSPPENDLCSICHSHFTAPCQANCSHWFCGNCIMLVWRHGSTLQPCKCPLCRRHISLLV 60

Query:    61 PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
             P++D++R R+D  V ++L  +E+YNR+FGG +++  L QR+QDLPFLLRRL+RE++DP R
Sbjct:    61 PSEDTIRDRNDATVKEVLGNLETYNRLFGGRSSS--LVQRMQDLPFLLRRLLREMMDPQR 118

Query:   121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVL 180
             +LPLVIRARVYIAMI SAVYI SPIDIIPE                 CFLHVAALYR+VL
Sbjct:   119 TLPLVIRARVYIAMILSAVYIISPIDIIPEGVLGVVGLLDDLLIALICFLHVAALYRSVL 178

Query:   181 YNRHGGA 187
             Y RH G+
Sbjct:   179 YFRHAGS 185

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2118919 AT4G33940 [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 5.4e-31, P = 5.4e-31
 Identities = 63/176 (35%), Positives = 97/176 (55%)

Query:     2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP 61
             E PP  DVC +C G+F VPC+ NC HW+CGNCI+  W++ +  + C+CP+C R IT L P
Sbjct:    66 ESPPEDDVCPICFGSFTVPCRGNCGHWYCGNCILQYWNYAAISRPCKCPMCVRHITKLSP 125

Query:    62 NDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRS 121
              + SL++R +  V ++L KV  YNR+F G  T  G  Q++ +LPFL++R+V  ++D   +
Sbjct:   126 -EPSLQERQEQEVKEVLDKVRRYNRLFVGGLT--GFVQKVHELPFLVKRMVWHMMDTDVN 182

Query:   122 LPLVIRARVYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYR 177
                    R++ AM  S +Y  +  + IP                    L +  +YR
Sbjct:   183 NLYFHEVRIF-AMFMSTLYTAAEFNFIPTGGFRIVTVFDYAAIAMILILRLVGIYR 237

GO:0005634 "nucleus" evidence=ISM

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

GO:0010200 "response to chitin" evidence=IEP;RCA

GO:0000303 "response to superoxide" evidence=RCA

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0009733 "response to auxin stimulus" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

GO:0009743 "response to carbohydrate stimulus" evidence=RCA

GO:0009873 "ethylene mediated signaling pathway" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

UNIPROTKB|F1NKI3 RNF170 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 272 (100.8 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 57/174 (32%), Positives = 86/174 (49%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
             C VC      P + NC H FCG+CI+  W +GS L A RCP+CR+ +TL +P    L   
Sbjct:   118 CPVCLQQATFPIETNCGHLFCGSCIIAYWRYGSWLGAIRCPICRQTVTLFLP----LFSE 173

Query:    70 HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
                    +LQ V  YNR F G   +  + +RI DLP LLR   RE+      L  + R R
Sbjct:   174 DQQGATQVLQDVNDYNRRFSGQPRS--IMERIMDLPTLLRHAFREMFSVG-GLFWMFRIR 230

Query:   130 VYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVLYNR 183
             +++ +  + +Y+ SP+D +PE                   ++++ +YR V+  R
Sbjct:   231 IFLCLFGAFLYLASPLDFLPEALFGILGFLDDFFVIFLLLIYISIMYREVVTQR 284

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1MK05 RNF170 "E3 ubiquitin-protein ligase RNF170" [Bos taurus (taxid:9913)]

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 56/174 (32%), Positives = 87/174 (50%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
             C +C    ++P + NC H FCG CI+  W +GS L A  CP+CR+ +TLL+P      Q 
Sbjct:    88 CPICLHQASLPVETNCGHLFCGTCIVAYWRYGSWLGAISCPICRQTVTLLLPVFGENDQS 147

Query:    70 HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
              D  V  + Q +  YNR F G   +  + +RI DLP LLR   RE+      L  + R R
Sbjct:   148 QD--VVSLHQDISDYNRRFSGQPRS--IMERIMDLPTLLRHAFREMFSVG-GLFWMFRIR 202

Query:   130 VYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVLYNR 183
             + + ++ +  Y+ SP+D +PE                   ++++ +YR V+  R
Sbjct:   203 IILCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 256

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1924983 Rnf170 "ring finger protein 170" [Mus musculus (taxid:10090)]

 Score = 255 (94.8 bits), Expect = 7.0e-22, P = 7.0e-22
 Identities = 56/174 (32%), Positives = 86/174 (49%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
             C +C    + P + NC H FCG+CI+  W +GS L A  CP+CR+ +TLL+       Q 
Sbjct:   115 CPICLHQASFPVETNCGHLFCGSCIIAYWRYGSWLGAISCPICRQTVTLLLTVFGEDDQS 174

Query:    70 HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
              D  V  + Q V  YNR F G   +  + +RI DLP LLR   RE+      L  + R R
Sbjct:   175 QD--VIRLRQDVNDYNRRFSGQPRS--IMERIMDLPTLLRHAFREVFSVG-GLFWMFRIR 229

Query:   130 VYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVLYNR 183
             + + ++ +  Y+ SP+D +PE                   ++++ +YR V+  R
Sbjct:   230 IMLCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 283

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

ZFIN|ZDB-GENE-040426-2572 rnf170 "ring finger protein 170" [Danio rerio (taxid:7955)]

 Score = 254 (94.5 bits), Expect = 9.0e-22, P = 9.0e-22
 Identities = 57/182 (31%), Positives = 88/182 (48%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP----NDDS 65
             C VC     +P + NC H FCG+CI+  W +G+ L A  CP+CR+ +TLL P    ++ S
Sbjct:    88 CPVCLQQAVLPVETNCGHLFCGSCIIAYWRYGTWLGAISCPICRQMVTLLFPLFQDSEQS 147

Query:    66 LRQRHDPAVGD-ILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPL 124
                   P     IL  +  YNR F G   +  L  R++D+P LLR   RE+      L  
Sbjct:   148 AVAADSPVEPTLILTDISDYNRRFSGQPRS--LLDRLRDVPTLLRHAFREMFSVG-GLFW 204

Query:   125 VIRARVYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVLYNRH 184
             + R R+ + +  +  Y+ SP+D +PE                  F++++ +YR V+  R 
Sbjct:   205 MFRVRILLCVCGALAYLVSPLDFLPEGVLGLLGFLDDFFVILLLFIYISIMYREVVTQRL 264

Query:   185 GG 186
              G
Sbjct:   265 AG 266

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009790 "embryo development" evidence=IMP

GO:0016874 "ligase activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

UNIPROTKB|Q96K19 RNF170 "E3 ubiquitin-protein ligase RNF170" [Homo sapiens (taxid:9606)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 55/174 (31%), Positives = 85/174 (48%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
             C +C    + P + NC H FCG CI+  W +GS L A  CP+CR+ +TLL+       Q 
Sbjct:    87 CPICLHQASFPVETNCGHLFCGACIIAYWRYGSWLGAISCPICRQTVTLLLTVFGEDDQS 146

Query:    70 HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
              D  V  + Q +  YNR F G   +  + +RI DLP LLR   RE+      L  + R R
Sbjct:   147 QD--VLRLHQDINDYNRRFSGQPRS--IMERIMDLPTLLRHAFREMFSVG-GLFWMFRIR 201

Query:   130 VYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVLYNR 183
             + + ++ +  Y+ SP+D +PE                   ++++ +YR V+  R
Sbjct:   202 IILCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 255

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB|E2RGZ9 RNF170 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 258 (95.9 bits), Expect = 2.9e-21, P = 2.9e-21
 Identities = 55/174 (31%), Positives = 85/174 (48%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
             C +C    + P + NC H FCG CI+  W +GS L A  CP+CR+ +TLL+       Q 
Sbjct:   469 CPICLHQASFPVETNCGHLFCGTCIIAYWRYGSWLGAISCPICRQTVTLLLTVFGENDQS 528

Query:    70 HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
              D  V  + Q +  YNR F G   +  + +RI DLP LLR   RE+      L  + R R
Sbjct:   529 QD--VVSLRQDINDYNRRFSGQPRS--IMERIMDLPTLLRHAFREMFSVG-GLFWMFRIR 583

Query:   130 VYIAMIFSAVYIFSPIDIIPEXXXXXXXXXXXXXXXXXCFLHVAALYRAVLYNR 183
             + + ++ +  Y+ SP+D +PE                   ++++ +YR V+  R
Sbjct:   584 IILCLMGAFFYLISPLDFVPEALFGILGFLDDFFVIFLLLIYISIMYREVITQR 637

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1NCS0 F1NCS0 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 29/81 (35%), Positives = 45/81 (55%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
             C +C     +P + NC H FCG+C++  W H   L A  CPLCR+++ +L  ++ S  + 
Sbjct:    19 CPICLQTVTLPVETNCGHLFCGSCLITYWKHSPWLGAIICPLCRQKVVVL--DNISCEKL 76

Query:    70 HDPAVGDILQKVESYNRIFGG 90
             HD     I+  + +YNR F G
Sbjct:    77 HDKPSKQIVHDIRAYNRRFSG 97

GO:0008270 "zinc ion binding" evidence=IEA

WB|WBGene00012606 Y38F1A.2 [Caenorhabditis elegans (taxid:6239)]

 Score = 158 (60.7 bits), Expect = 2.7e-11, P = 2.7e-11
 Identities = 37/145 (25%), Positives = 63/145 (43%)

Query:    10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQA-CRCPLCRRRITLLIP---NDDS 65
             C +C  N + P   +C H FC  CI+  W     +   C C +CR    +L+P       
Sbjct:   105 CPICLANASFPVLTDCGHIFCCECIIQYWQQSKAIVTPCDCAMCRSTFYMLLPVHWPTMG 164

Query:    66 LRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLV 125
               +  D  + +   +++ YNR F   +    +   I+D+P L+  L+R   + +    LV
Sbjct:   165 TSEETDDHIQENNIRIDDYNRRF---SINRPVLDYIRDIPILIPYLIRNFFN-NDIFTLV 220

Query:   126 IRARVYIAMIFSAVYIFSPIDIIPE 150
              + R+    I    Y   P D++PE
Sbjct:   221 YQVRIGFVFICVITYFLLPSDMVPE 245

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016021 "integral to membrane" 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: estExt_Genewise1_v1.C_LG_XIX1941 hypothetical protein (186 aa) (Populus trichocarpa)

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	187
pfam06803	40	pfam06803, DUF1232, Protein of unknown function (D	3e-06
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-06
COG3339	116	COG3339, COG3339, Uncharacterized conserved protei	2e-05
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	3e-05
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	7e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	9e-05
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	3e-04
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	8e-04

>gnl|CDD|203520 pfam06803, DUF1232, Protein of unknown function (DUF1232)

 Score = 42.0 bits (100), Expect = 3e-06
 Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 129 RVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLC 168
           +  + ++ + +Y  SPID+IP+  + ++G LDD  +  L 
Sbjct: 2   KAKLLILAALLYFVSPIDLIPD-FIPVLGYLDDAAVLALA 40

This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function. Length = 40

>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 = 42.0 bits (99), Expect = 3e-06
 Identities = 17/48 (35%), Positives = 19/48 (39%), Gaps = 5/48 (10%)

Query: 10 CSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56
          C +C   F  P     C H FC +CI      G       CPLCR  I
Sbjct: 2  CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKN----TCPLCRTPI 45

Length = 45

>gnl|CDD|225876 COG3339, COG3339, Uncharacterized conserved protein [Function unknown]

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 6/72 (8%)

Query: 95  NGLFQRIQD-LPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALL 153
              ++R +  +PFL   L           P        + ++ +  Y  SPIDIIP+ L 
Sbjct: 17  RKKYRRAKRYIPFLFDLLAAWYAARDPETPK----YAKLIILAALGYFVSPIDIIPDFLP 72

Query: 154 GIVGLLDDLLIA 165
            I G +DD+ + 
Sbjct: 73  VI-GFIDDIAVL 83

Length = 116

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

 Score = 43.2 bits (101), Expect = 3e-05
 Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 8  DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53
            C +C    ++PC+  C H FC  CI     H  T     CP+CR
Sbjct: 26 LRCRICDCRISIPCETTCGHTFCSLCIR---RHLGTQP--FCPVCR 66

Length = 391

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

 Score = 41.8 bits (98), Expect = 7e-05
 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55
           C +C     VP    C H FC +C+++ W          CPLCR +
Sbjct: 218 CFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYE---FCPLCRAK 260

Length = 271

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

 Score = 41.5 bits (97), Expect = 9e-05
 Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 12/70 (17%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
          C +C   F+VP   +CSH FC  CI       S     +CPLCR         D   + R
Sbjct: 29 CHICKDFFDVPVLTSCSHTFCSLCIR---RCLSN--QPKCPLCR-------AEDQESKLR 76

Query: 70 HDPAVGDILQ 79
           +  V +I++
Sbjct: 77 SNWLVSEIVE 86

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

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

 Score = 36.6 bits (85), Expect = 3e-04
 Identities = 14/51 (27%), Positives = 17/51 (33%), Gaps = 8/51 (15%)

Query: 8  DVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55
          D C +C   F          C H F   C+       +T     CPLCR  
Sbjct: 1  DECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNT-----CPLCRAP 46

Length = 46

>gnl|CDD|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

 Score = 38.5 bits (89), Expect = 8e-04
 Identities = 11/46 (23%), Positives = 17/46 (36%)

Query: 2   EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQAC 47
            G     +C +C  ++  P    C H FC  C +  +  G     C
Sbjct: 191 PGEKIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVC 236

Length = 259

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	187
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	99.86
COG3339	116	Uncharacterized conserved protein [Function unknow	99.64
PF06803	40	DUF1232: Protein of unknown function (DUF1232); In	99.6
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.56
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.38
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.29
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.29
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.26
PHA02929	238	N1R/p28-like protein; Provisional	99.24
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.23
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.23
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	99.22
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.2
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.17
PHA02926	242	zinc finger-like protein; Provisional	99.17
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.16
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.16
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.12
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.11
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.98
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.96
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.94
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.92
PF14634	44	zf-RING_5: zinc-RING finger domain	98.92
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.84
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.8
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.74
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.67
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.56
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.46
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.44
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.41
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.39
KOG2660	331	consensus Locus-specific chromosome binding protei	98.38
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.32
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.32
COG5152	259	Uncharacterized conserved protein, contains RING a	98.3
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.3
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.26
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.22
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.21
KOG1002	791	consensus Nucleotide excision repair protein RAD16	98.18
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
COG5222	427	Uncharacterized conserved protein, contains RING Z	98.0
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.96
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.95
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.79
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	97.52
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.49
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.38
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.38
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.35
KOG4367	699	consensus Predicted Zn-finger protein [Function un	97.31
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.1
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	97.02
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	96.99
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	96.95
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	96.8
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.8
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.73
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.68
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	96.67
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.63
KOG1001	674	consensus Helicase-like transcription factor HLTF/	96.63
PHA03096	284	p28-like protein; Provisional	96.58
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	96.53
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.44
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.2
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.18
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.09
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	95.8
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.8
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	95.56
KOG4739	233	consensus Uncharacterized protein involved in syna	95.54
KOG3039	303	consensus Uncharacterized conserved protein [Funct	95.44
PF04641	260	Rtf2: Rtf2 RING-finger	95.29
KOG3002	299	consensus Zn finger protein [General function pred	95.19
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	95.04
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	94.54
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	94.5
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	94.44
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.15
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.65
PHA02825	162	LAP/PHD finger-like protein; Provisional	93.35
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.1
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	92.14
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.1
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	91.81
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	91.76
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	91.67
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	91.19
COG5109	396	Uncharacterized conserved protein, contains RING Z	90.93
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	90.79
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	90.73
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.25
KOG3899	381	consensus Uncharacterized conserved protein [Funct	90.24
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	88.96
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	88.57
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	88.28
PHA02862	156	5L protein; Provisional	87.45
KOG4445	368	consensus Uncharacterized conserved protein, conta	85.71
KOG3053	293	consensus Uncharacterized conserved protein [Funct	85.39
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	84.61
KOG0825	1134	consensus PHD Zn-finger protein [General function	84.13
KOG1940	276	consensus Zn-finger protein [General function pred	83.69
KOG4604	91	consensus Uncharacterized conserved protein [Funct	81.24
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	80.22
PLN02189	1040	cellulose synthase	80.09

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

Probab=99.86  E-value=3.6e-22  Score=166.45  Aligned_cols=174  Identities=27%  Similarity=0.504  Sum_probs=146.5

Q ss_pred             CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc--ccCCCcccccCCCcchhhHHHhH---
Q 029826            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPNDDSLRQRHDPAVGDILQKV---   81 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~--~~~~~~~~~~~~~~~~~~v~~~i---   81 (187)
                      +..||||++....|+.++|||.||..||.++|..+...+...||+||..++.  +.|..+....+.++  .+...+.   
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke~--l~~~~~~ng~  263 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKEE--LKLHQDPNGI  263 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccHH--HHHHhcccCC
Confidence            7899999999999999999999999999999999877788899999999987  77877644422222  2222222   


Q ss_pred             HHhhhhhCCCCCCCccchhhcchhHHHHHHHHhhcCCCCchhHHHHHHHHHHHHHHHHhhhcccccCcchhhhHHHHHHH
Q 029826           82 ESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDD  161 (187)
Q Consensus        82 ~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD  161 (187)
                      ..|++.|++.. ++.+.+++.+++.+++.+++.++.. ..+..+...+.....++..+|+..|.+.+|+.+.|.+|++||
T Consensus       264 ~~~~r~F~~d~-~r~~p~fl~dl~~~a~~~i~~~~~~-~~l~i~~~~~i~~v~i~~~~~~~~~~~~~~q~~~~~is~lde  341 (513)
T KOG2164|consen  264 PDYNRRFSGDP-ARFVPDFLMDLPTYARINIRNMFNN-HILTIVDQVCIAAVFICQYLSFLLPRRMVPQAIKGRISFLDE  341 (513)
T ss_pred             CccccceecCc-ccccHHHHHhHHHHHHHHHHHhhcc-cceeehhhHhHHHHHHHHHhcccchhhhcchhhcCccCchhh
Confidence            27889998875 4788999999999999999997764 366777778888899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhh
Q 029826          162 LLIALLCFLHVAALYRAVLYNRH  184 (187)
Q Consensus       162 ~~v~~~~~~~~~~~~~~~~~~r~  184 (187)
                      ..+-..++...++.+++|...|-
T Consensus       342 ~~~~~l~ls~~s~~dne~n~s~~  364 (513)
T KOG2164|consen  342 CTNDQLILSEMSRIDNEYNASRG  364 (513)
T ss_pred             hcchhhhhhhhhhhhhhhhhhhc
Confidence            99999999999999998776653

>COG3339 Uncharacterized conserved protein [Function unknown]

Probab=99.64  E-value=6e-16  Score=106.80  Aligned_cols=47  Identities=28%  Similarity=0.552  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHHhhhcccccCcchhhhHHHHHHHHHHHHHHHHHHHH
Q 029826          127 RARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAA  174 (187)
Q Consensus       127 ~~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD~~v~~~~~~~~~~  174 (187)
                      +++.+..+.++++|++||+|+|||+ +|++||+||++|+++++..+++
T Consensus        46 p~~~~l~i~aal~Y~V~PiDiIPD~-lp~iG~iDDi~V~~~~v~~i~~   92 (116)
T COG3339          46 PKYAKLIILAALGYFVSPIDIIPDF-LPVIGFIDDIAVLTLAVTAISK   92 (116)
T ss_pred             hHHHHHHHHHHHHHHHchhhhchhh-hhccchHHHHHHHHHHHHHHHH
Confidence            4888999999999999999999995 8899999999999999999998

>PF06803 DUF1232: Protein of unknown function (DUF1232); InterPro: IPR010652 This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function

Probab=99.60  E-value=3.2e-16  Score=88.70  Aligned_cols=40  Identities=28%  Similarity=0.605  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHhhhcccccCcchhhhHHHHHHHHHHHHHH
Q 029826          128 ARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLC  168 (187)
Q Consensus       128 ~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD~~v~~~~  168 (187)
                      |+.++.++++++|++||+|+|||+ +|++|++||++++.++
T Consensus         1 w~~~~~~~~al~Y~isP~D~iPD~-~p~~G~lDD~~v~~~v   40 (40)
T PF06803_consen    1 WKAKLLILAALAYFISPIDLIPDF-IPVIGYLDDAAVLAFV   40 (40)
T ss_pred             ChHHHHHHHHHHHHhchhhhCCCc-cccccHHHHHHHHHhC
Confidence            567899999999999999999995 8999999999998764

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

Probab=99.56  E-value=2.9e-15  Score=86.32  Aligned_cols=42  Identities=33%  Similarity=0.928  Sum_probs=33.1

Q ss_pred             cccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826           10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus        10 C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      ||||++++.+|++++|||+||.+|+.++|+..... ...||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~-~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGS-GFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSS-T---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCc-CCCCcCC
Confidence            89999999999999999999999999999876532 2689987

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.38  E-value=4.1e-13  Score=100.81  Aligned_cols=55  Identities=22%  Similarity=0.528  Sum_probs=46.0

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC-----------CCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-----------TLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~-----------~~~~~~Cp~Cr~~~~~   58 (187)
                      ..++++|+||.+.+++|+.++|||.||..|+.+|+...+           ..+...||.||.+++.
T Consensus        15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            356799999999999999999999999999999986432           1234599999999974

>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=99.29  E-value=2.2e-12  Score=77.28  Aligned_cols=48  Identities=27%  Similarity=0.709  Sum_probs=40.9

Q ss_pred             CCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      |+..|+||++...+++.++|||. ||..|+.++++...     .||.||++++.
T Consensus         1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~-----~CP~Cr~~i~~   49 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKK-----KCPICRQPIES   49 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTS-----BBTTTTBB-SE
T ss_pred             CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCC-----CCCcCChhhcC
Confidence            46799999999999999999999 99999999998554     99999998853

...

>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=99.29  E-value=2.4e-12  Score=73.09  Aligned_cols=38  Identities=32%  Similarity=0.986  Sum_probs=32.6

Q ss_pred             cccccccccCc-EEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826           10 CSVCHGNFNVP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus        10 C~iC~~~~~~p-v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      |+||.+.+.+| +.++|||+||.+|+.+|++.+.     +||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~-----~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNP-----KCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTS-----B-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcC-----CCcCC
Confidence            89999999999 5789999999999999998843     99987

>smart00504 Ubox Modified RING finger domain

Probab=99.26  E-value=1e-11  Score=77.79  Aligned_cols=46  Identities=11%  Similarity=0.087  Sum_probs=41.7

Q ss_pred             CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++.||||.+.+.+|+.++|||+||.+|+.+|++...     .||.|+++++
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~-----~cP~~~~~~~   46 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHG-----TDPVTGQPLT   46 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCC-----CCCCCcCCCC
Confidence            468999999999999999999999999999998743     8999998873

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

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.24  E-value=5.2e-12  Score=98.58  Aligned_cols=55  Identities=25%  Similarity=0.580  Sum_probs=45.1

Q ss_pred             CCCcccccccccccCc--------EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCc
Q 029826            5 PCGDVCSVCHGNFNVP--------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDD   64 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~p--------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~   64 (187)
                      .++.+|+||++.+.++        +.++|+|.||..|+.+|.+...     +||+||.++..+.+++.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-----tCPlCR~~~~~v~~~r~  234 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-----TCPVCRTPFISVIKSRF  234 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-----CCCCCCCEeeEEeeeee
Confidence            4568999999976543        5668999999999999987655     99999999987766653

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

Probab=99.23  E-value=7.1e-12  Score=95.85  Aligned_cols=53  Identities=21%  Similarity=0.549  Sum_probs=47.7

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +...+.|.||++..++||+|.|||-||..||.+|.+....++  .||.|+..++.
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~--~cPVCK~~Vs~   96 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSK--ECPVCKAEVSI   96 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCe--eCCcccccccc
Confidence            456789999999999999999999999999999999887555  89999999974

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.23  E-value=1e-11  Score=103.36  Aligned_cols=51  Identities=33%  Similarity=0.734  Sum_probs=45.8

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..++.+.|+||.+.+.+|+.++|||+||..|+..|+....     .||.|+..+.
T Consensus        21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~-----~CP~Cr~~~~   71 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP-----KCPLCRAEDQ   71 (397)
T ss_pred             cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC-----CCCCCCCccc
Confidence            45678899999999999999999999999999999997644     8999999874

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

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

Probab=99.22  E-value=3.2e-12  Score=102.36  Aligned_cols=67  Identities=31%  Similarity=0.588  Sum_probs=53.7

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCcccccCCCcchhhHHHhH-
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKV-   81 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~i-   81 (187)
                      ..++-++|.||.++|..|+.++|+|+||.-||+.++..+.     .||.|+.++.           ..+...+.++++| 
T Consensus        19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p-----~CP~C~~~~~-----------Es~Lr~n~il~Eiv   82 (442)
T KOG0287|consen   19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP-----QCPTCCVTVT-----------ESDLRNNRILDEIV   82 (442)
T ss_pred             hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC-----CCCceecccc-----------hhhhhhhhHHHHHH
Confidence            4466789999999999999999999999999999999887     9999988772           2334445566665 


Q ss_pred             HHhh
Q 029826           82 ESYN   85 (187)
Q Consensus        82 ~~y~   85 (187)
                      +.|+
T Consensus        83 ~S~~   86 (442)
T KOG0287|consen   83 KSLN   86 (442)
T ss_pred             HHHH
Confidence            4443

>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=99.20  E-value=9.4e-12  Score=72.48  Aligned_cols=40  Identities=30%  Similarity=0.790  Sum_probs=34.6

Q ss_pred             cccccccccc---CcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826            9 VCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR   53 (187)
Q Consensus         9 ~C~iC~~~~~---~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr   53 (187)
                      +|+||++.+.   ..+.++|||.||.+|+.+|++.+.     +||.||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~-----~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNN-----SCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSS-----B-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCC-----cCCccC
Confidence            7999999884   567889999999999999999865     999997

...

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

Probab=99.17  E-value=1.4e-11  Score=90.51  Aligned_cols=50  Identities=32%  Similarity=0.820  Sum_probs=42.8

Q ss_pred             CCCCccccccccccc--CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFN--VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~--~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ++....||||++.+.  .|+.+.|||.||+.||+...+.+.     .||+|++.++.
T Consensus       128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~-----~CP~C~kkIt~  179 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN-----KCPTCRKKITH  179 (187)
T ss_pred             cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC-----CCCCcccccch
Confidence            456689999999775  467789999999999999998877     99999987753

>PHA02926 zinc finger-like protein; Provisional

Probab=99.17  E-value=2.2e-11  Score=92.66  Aligned_cols=61  Identities=21%  Similarity=0.444  Sum_probs=47.4

Q ss_pred             CCCCcccccccccccC---------cEEccCCCcccHHHHHHHHHhCCC-CCCCCCcccccccccccCCCc
Q 029826            4 PPCGDVCSVCHGNFNV---------PCQANCSHWFCGNCIMLVWDHGST-LQACRCPLCRRRITLLIPNDD   64 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~---------pv~~~C~H~fC~~Ci~~~~~~~~~-~~~~~Cp~Cr~~~~~~~~~~~   64 (187)
                      ..++.+|+||++...+         ++..+|+|+||..||.+|.+.+.. ....+||+||..+....|++.
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf  237 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKF  237 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccc
Confidence            3567899999997532         456689999999999999876432 123479999999988888764

>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=99.16  E-value=3.2e-11  Score=69.07  Aligned_cols=40  Identities=33%  Similarity=0.958  Sum_probs=35.6

Q ss_pred             cccccccccCcE-EccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826           10 CSVCHGNFNVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus        10 C~iC~~~~~~pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      |+||.+.+.+|+ .++|||.||..|+.+|++..   +...||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~---~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS---GSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT---SSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhc---CCccCCcC
Confidence            899999999999 88999999999999999962   23589987

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

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

Probab=99.16  E-value=1.7e-11  Score=96.49  Aligned_cols=49  Identities=35%  Similarity=0.839  Sum_probs=44.9

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++.+..|.+|++...+|.-|+|||.||.+||.+|...+.     .||.||+.+.
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-----eCPlCR~~~~  284 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-----ECPLCREKFQ  284 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-----CCCcccccCC
Confidence            466789999999999999999999999999999998877     7999999874

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

Probab=99.12  E-value=8.8e-11  Score=75.88  Aligned_cols=49  Identities=14%  Similarity=0.225  Sum_probs=39.7

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++.+.|||+.+++.+||.+++||+|++.||++|++...    ..||.|+++++
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~----~~~P~t~~~l~   50 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNG----GTDPFTRQPLS   50 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTS----SB-TTT-SB-S
T ss_pred             CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCC----CCCCCCCCcCC
Confidence            57899999999999999999999999999999998833    29999999884

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 ....

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

Probab=99.11  E-value=5.3e-11  Score=68.54  Aligned_cols=39  Identities=28%  Similarity=0.878  Sum_probs=24.2

Q ss_pred             cccccccccC----cEEccCCCcccHHHHHHHHHhCCCCCCCCCc
Q 029826           10 CSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCP   50 (187)
Q Consensus        10 C~iC~~~~~~----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp   50 (187)
                      ||||.+ +.+    |+.++|||+||.+|++++++.+. .+.++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~-~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD-RNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S--S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC-CCeeeCc
Confidence            899999 777    99999999999999999998754 3456887

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

Probab=98.98  E-value=5.5e-10  Score=64.53  Aligned_cols=43  Identities=37%  Similarity=0.884  Sum_probs=36.6

Q ss_pred             ccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826            9 VCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (187)
Q Consensus         9 ~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~   55 (187)
                      .|+||.+.+.+++.+. |||.||..|+.+|++...    ..||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~----~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGK----NTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCc----CCCCCCCCc
Confidence            5999999997887776 999999999999988733    289999875

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.96  E-value=5.8e-10  Score=89.66  Aligned_cols=105  Identities=18%  Similarity=0.347  Sum_probs=64.8

Q ss_pred             CCccccccccc-ccCcE---Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCcccccCCCcchhhHHHh
Q 029826            6 CGDVCSVCHGN-FNVPC---QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQK   80 (187)
Q Consensus         6 ~~~~C~iC~~~-~~~pv---~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~   80 (187)
                      ++..||+|... ..+|.   .+ +|||.||.+|+...|...+    ..||.|+.++..--...+.-....-+....+++.
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~----~~CP~C~~~lrk~~fr~q~F~D~~vekEV~iRkr   77 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGS----GSCPECDTPLRKNNFRVQLFEDPTVEKEVDIRKR   77 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCC----CCCCCCCCccchhhccccccccHHHHHHHHHHHH
Confidence            35689999983 34443   33 5999999999999986544    3899999988642111100011111222344455


Q ss_pred             H-HHhhhhhCCCCCCCccchhhcchhHHHHHHHHh
Q 029826           81 V-ESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRE  114 (187)
Q Consensus        81 i-~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~  114 (187)
                      + .-||+.-.+-...+.+.+||...-+++..|...
T Consensus        78 v~~i~Nk~e~dF~~l~~yNdYLE~vEdii~nL~~~  112 (309)
T TIGR00570        78 VLKIYNKREEDFPSLREYNDYLEEVEDIVYNLTNN  112 (309)
T ss_pred             HHHHHccchhccCCHHHHHHHHHHHHHHHHHhhcC
Confidence            4 556665544433377778888887777766653

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=98.94  E-value=1.4e-10  Score=71.36  Aligned_cols=45  Identities=31%  Similarity=0.712  Sum_probs=25.0

Q ss_pred             CCCcccccccccccCcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ++.+.|++|.+.+++|+. ..|.|.||+.|+...+.  +     .||.|+.|.
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~-----~CPvC~~Pa   50 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--S-----ECPVCHTPA   50 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--T-----B-SSS--B-
T ss_pred             HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--C-----CCCCcCChH
Confidence            466899999999999986 56999999999976332  2     799998876

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

Probab=98.92  E-value=3.9e-10  Score=88.84  Aligned_cols=50  Identities=30%  Similarity=0.767  Sum_probs=45.2

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +.+..+.|-||.+.+..|+.|+|||+||.-||++++..+.     .||.||.+..
T Consensus        21 ~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp-----~CP~Cr~~~~   70 (391)
T COG5432          21 GLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP-----FCPVCREDPC   70 (391)
T ss_pred             cchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCC-----CCccccccHH
Confidence            3456789999999999999999999999999999998877     8999998774

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.92  E-value=7.7e-10  Score=64.33  Aligned_cols=41  Identities=29%  Similarity=1.003  Sum_probs=33.7

Q ss_pred             ccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826            9 VCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (187)
Q Consensus         9 ~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~   54 (187)
                      +|++|.+.+   ..|..++|||+||..|+.+...     ....||.||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~-----~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG-----KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC-----CCCCCcCCCC
Confidence            589999988   3578899999999999998771     2249999985

>smart00184 RING Ring finger

Probab=98.84  E-value=3.2e-09  Score=59.19  Aligned_cols=39  Identities=33%  Similarity=0.931  Sum_probs=34.1

Q ss_pred             cccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826           10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus        10 C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      |+||.+....++.++|||.||..|+.+|++...    ..||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~----~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGN----NTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCc----CCCCCC
Confidence            799999999999999999999999999988332    379987

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)

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

Probab=98.80  E-value=2.7e-09  Score=83.15  Aligned_cols=50  Identities=32%  Similarity=0.856  Sum_probs=42.5

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      |+.+..|+||++....|..++|||.||..|+...|..++.   -.||.||+..
T Consensus       212 p~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~---~~CplCRak~  261 (271)
T COG5574         212 PLADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKY---EFCPLCRAKV  261 (271)
T ss_pred             cccccceeeeecccCCcccccccchhhHHHHHHHHHhhcc---ccCchhhhhc
Confidence            4678999999999999999999999999999996555431   2699999876

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

Probab=98.74  E-value=2.9e-09  Score=85.61  Aligned_cols=47  Identities=30%  Similarity=0.786  Sum_probs=41.9

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~   54 (187)
                      ..++.+.|+||++.+.+|..++|||+||..|+..+|.     ....||.||.
T Consensus         9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-----~~~~Cp~cr~   55 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-----GPLSCPVCRP   55 (386)
T ss_pred             hccccccChhhHHHhhcCccccccchHhHHHHHHhcC-----CCcCCcccCC
Confidence            4578899999999999998899999999999999998     2359999994

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

Probab=98.67  E-value=1.9e-08  Score=64.90  Aligned_cols=41  Identities=34%  Similarity=0.822  Sum_probs=32.4

Q ss_pred             cccccccccccC------------cE-EccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826            8 DVCSVCHGNFNV------------PC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLCR   53 (187)
Q Consensus         8 ~~C~iC~~~~~~------------pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr   53 (187)
                      ..|+||++.+.+            ++ ..+|||.|...||.+|++.+.     .||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-----~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-----TCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-----B-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-----cCCCCC
Confidence            359999998832            23 346999999999999998876     999997

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 ....

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

Probab=98.56  E-value=1.5e-08  Score=82.02  Aligned_cols=49  Identities=27%  Similarity=0.764  Sum_probs=43.7

Q ss_pred             CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++.|+||+++++...++. |+|.||.+||...++.+.+    .||.||+.+.
T Consensus        41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~----ecptcRk~l~   90 (381)
T KOG0311|consen   41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNN----ECPTCRKKLV   90 (381)
T ss_pred             hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCC----CCchHHhhcc
Confidence            45789999999999998887 9999999999988887765    9999999874

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

Probab=98.49  E-value=6.5e-08  Score=76.81  Aligned_cols=54  Identities=28%  Similarity=0.530  Sum_probs=46.4

Q ss_pred             CCCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            1 MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         1 ~~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      |.+..-.-+|+||+....-|+.+.|+|.||..||+.......    ..|++||.++.+
T Consensus         1 ~ap~~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk----~~CavCR~pids   54 (324)
T KOG0824|consen    1 MAPRTKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDK----KTCAVCRFPIDS   54 (324)
T ss_pred             CCCcccCCcceeeeccCCcCccccccchhhhhhhcchhhcCC----CCCceecCCCCc
Confidence            455666789999999999999999999999999988766554    279999999985

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

Probab=98.46  E-value=1.8e-07  Score=61.33  Aligned_cols=49  Identities=35%  Similarity=0.731  Sum_probs=38.1

Q ss_pred             CCcccccccccccC------------cEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            6 CGDVCSVCHGNFNV------------PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         6 ~~~~C~iC~~~~~~------------pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ++..|+||...|..            |+.. .|+|.|...||.+|+++++..+  .||+||++.
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~--~CPmCR~~w   81 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKG--QCPMCRQPW   81 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCC--CCCCcCCee
Confidence            46788888876641            4333 5999999999999999864334  999999976

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

Probab=98.44  E-value=5e-08  Score=85.96  Aligned_cols=48  Identities=25%  Similarity=0.674  Sum_probs=43.4

Q ss_pred             CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .-+.||+|....++.+.+.|||.||..|+++......+    +||.|...|.
T Consensus       642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqR----KCP~Cn~aFg  689 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQR----KCPKCNAAFG  689 (698)
T ss_pred             hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcC----CCCCCCCCCC
Confidence            45789999999999999999999999999999888775    9999998883

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

Probab=98.41  E-value=1.2e-07  Score=79.35  Aligned_cols=49  Identities=31%  Similarity=0.714  Sum_probs=44.3

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .+++.|.||...+..|+.++|||+||..|+.+.+.+..     .||.||..+..
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~-----~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQET-----ECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCC-----CCccccccccc
Confidence            56899999999999999999999999999999777655     99999998854

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

Probab=98.39  E-value=1.4e-07  Score=82.74  Aligned_cols=46  Identities=24%  Similarity=0.759  Sum_probs=42.0

Q ss_pred             CCcccccccccccC-----cEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            6 CGDVCSVCHGNFNV-----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         6 ~~~~C~iC~~~~~~-----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .+..|+||.+.+..     |..++|+|.|+..|+.+|+++.+     .||+||..+
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-----tCP~CR~~~  340 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-----TCPTCRTVL  340 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-----cCCcchhhh
Confidence            47899999999988     89999999999999999999977     999999944

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

Probab=98.38  E-value=2e-07  Score=74.99  Aligned_cols=53  Identities=26%  Similarity=0.551  Sum_probs=45.4

Q ss_pred             CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826            5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~   62 (187)
                      .....|.+|.+++.++.++. |-|+||++||.+++....     .||.|...+.+..|.
T Consensus        13 n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~-----~CP~C~i~ih~t~pl   66 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESK-----YCPTCDIVIHKTHPL   66 (331)
T ss_pred             ccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhc-----cCCccceeccCcccc
Confidence            45679999999999998876 999999999999999855     999998887654433

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

Probab=98.32  E-value=5.4e-07  Score=73.82  Aligned_cols=48  Identities=33%  Similarity=0.656  Sum_probs=40.4

Q ss_pred             cccccccccccCc---EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            8 DVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         8 ~~C~iC~~~~~~p---v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      ..|.||+|.+...   +.+||+|.|-..||..|+.+...    .||.|++.+..-
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~----~CPvCK~di~~~  280 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRT----FCPVCKRDIRTD  280 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCc----cCCCCCCcCCCC
Confidence            4999999988754   46899999999999999988642    799999988653

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

Probab=98.32  E-value=4.1e-07  Score=74.25  Aligned_cols=48  Identities=23%  Similarity=0.696  Sum_probs=41.7

Q ss_pred             CCCcccccccccc-c------------CcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNF-N------------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~-~------------~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+|..|.||.+.+ .            .|..++|||.+-.+|++.|++++.     .||.||.++-
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-----TCPICr~p~i  345 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-----TCPICRRPVI  345 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-----CCCcccCccc
Confidence            5678999999974 2            357899999999999999999987     9999999954

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

Probab=98.30  E-value=2e-07  Score=69.93  Aligned_cols=46  Identities=24%  Similarity=0.805  Sum_probs=41.0

Q ss_pred             CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+.|.||...+..||.+.|||+||..|..+-++...     .|-.|.+...
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~-----~C~~Cgk~t~  241 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGD-----ECGVCGKATY  241 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccCC-----cceecchhhc
Confidence            468999999999999999999999999988777766     8999987664

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

Probab=98.30  E-value=7.6e-07  Score=73.18  Aligned_cols=61  Identities=26%  Similarity=0.552  Sum_probs=46.9

Q ss_pred             CCCcccccccccccCcE-----E---ccCCCcccHHHHHHHHHhCC--CCCCCCCcccccccccccCCCcc
Q 029826            5 PCGDVCSVCHGNFNVPC-----Q---ANCSHWFCGNCIMLVWDHGS--TLQACRCPLCRRRITLLIPNDDS   65 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv-----~---~~C~H~fC~~Ci~~~~~~~~--~~~~~~Cp~Cr~~~~~~~~~~~~   65 (187)
                      .++..|.||++...+..     .   .+|.|.||..|+..|.....  ..-...||.||.+.+...+...+
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~W  229 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFW  229 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccccee
Confidence            56789999999776655     3   57999999999999884433  11134999999999988888633

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

Probab=98.26  E-value=2.5e-07  Score=54.88  Aligned_cols=50  Identities=24%  Similarity=0.508  Sum_probs=42.3

Q ss_pred             CCCcccccccccccCcEEccCCC-cccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H-~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +.+.+|.||.+-..+.|.-.||| -.|..|-.+.|+....    .||.||+++..
T Consensus         5 ~~~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g----~CPiCRapi~d   55 (62)
T KOG4172|consen    5 QWSDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHG----CCPICRAPIKD   55 (62)
T ss_pred             ccccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCC----cCcchhhHHHH
Confidence            45689999999999999999999 4799999998886443    99999998853

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

Probab=98.22  E-value=1e-06  Score=53.91  Aligned_cols=47  Identities=26%  Similarity=0.507  Sum_probs=31.7

Q ss_pred             CCCCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPL   51 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~   51 (187)
                      ++-.-++.|||.+..+.+|+.. .|||+|.++.|.++++.   .+...||.
T Consensus         6 ~~~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~---~~~~~CPv   53 (57)
T PF11789_consen    6 EGGTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQR---NGSKRCPV   53 (57)
T ss_dssp             -SSB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTT---TS-EE-SC
T ss_pred             eccEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHh---cCCCCCCC
Confidence            3445678999999999999986 69999999999999943   23458998

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

Probab=98.21  E-value=1e-06  Score=71.72  Aligned_cols=55  Identities=24%  Similarity=0.575  Sum_probs=45.8

Q ss_pred             CCCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCcccccccccccCCCc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDD   64 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~   64 (187)
                      ++..+|-||+...++-+.+||.|. .|..|.+...-+.+     .||+||+++..++....
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n-----~CPICRqpi~~ll~i~~  343 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN-----NCPICRQPIEELLEIYV  343 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc-----CCCccccchHhhheecc
Confidence            457899999999999999999994 69999988765544     89999999977665543

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

Probab=98.18  E-value=4.4e-07  Score=77.12  Aligned_cols=55  Identities=22%  Similarity=0.480  Sum_probs=47.6

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      .++..|.+|-+...+++.+.|.|.||+.|+.+|...-..+...+||.|...++.-
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            4568999999999999999999999999999998876655558999998877643

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

Probab=98.12  E-value=7.7e-07  Score=70.63  Aligned_cols=46  Identities=26%  Similarity=0.780  Sum_probs=41.1

Q ss_pred             cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +.|-||...+.+||++.|+|.||..|....++.+.     .|+.|.+.+..
T Consensus       242 f~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~-----~c~vC~~~t~g  287 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE-----KCYVCSQQTHG  287 (313)
T ss_pred             ccccccccccccchhhcCCceeehhhhccccccCC-----cceeccccccc
Confidence            56999999999999999999999999988777665     99999988754

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

Probab=98.00  E-value=5.1e-06  Score=66.16  Aligned_cols=49  Identities=31%  Similarity=0.748  Sum_probs=41.0

Q ss_pred             CCCCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~   54 (187)
                      -.+.-.+.||.|..++.+|+.++ |+|.||.+||...+-.+.    +.||.|..
T Consensus       269 ~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsD----f~CpnC~r  318 (427)
T COG5222         269 QPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSD----FKCPNCSR  318 (427)
T ss_pred             CCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhhhcc----ccCCCccc
Confidence            34555699999999999999997 999999999987766543    49999965

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

Probab=97.96  E-value=5.7e-06  Score=65.11  Aligned_cols=50  Identities=26%  Similarity=0.656  Sum_probs=42.0

Q ss_pred             CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .++.+||+|.+..+.|-+.. |||.||.-|+........   .+.||.|..+..
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a---sf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA---SFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh---hcccCccCCCCc
Confidence            57789999999999998887 999999999988665432   359999988774

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

Probab=97.95  E-value=3.7e-06  Score=70.91  Aligned_cols=49  Identities=29%  Similarity=0.831  Sum_probs=43.9

Q ss_pred             CCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .++++.|++|...+.+|+.+ .|||.||..|+..|.....     .||.|+.+..
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~-----~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQ-----KCPVCRQELT   67 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCc-----CCcccccccc
Confidence            47889999999999999995 8999999999999888744     9999988775

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

Probab=97.79  E-value=8e-06  Score=68.31  Aligned_cols=47  Identities=30%  Similarity=0.694  Sum_probs=38.6

Q ss_pred             CCCCcccccccccccCcE----EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPC----QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv----~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +.|-.+||||++.+..-+    .+.|.|+|-..|+..||..       +||.||---+
T Consensus       172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~-------scpvcR~~q~  222 (493)
T KOG0804|consen  172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS-------SCPVCRYCQS  222 (493)
T ss_pred             cccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC-------cChhhhhhcC
Confidence            456789999999887654    4569999999999999986       8999986443

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

Probab=97.52  E-value=2.7e-05  Score=49.56  Aligned_cols=46  Identities=28%  Similarity=0.738  Sum_probs=36.0

Q ss_pred             ccccccccccC------------cEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            9 VCSVCHGNFNV------------PCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         9 ~C~iC~~~~~~------------pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .|.||.-.|..            |.+.. |.|.|-..||.+|...+++.+  .||+||+..
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~--~CPmcRq~~   80 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQG--QCPMCRQTW   80 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccc--cCCcchhee
Confidence            78888766532            44444 999999999999998876545  999999976

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

Probab=97.49  E-value=7.5e-05  Score=60.92  Aligned_cols=49  Identities=24%  Similarity=0.504  Sum_probs=43.6

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .|+..||||..-..+++..||+|.-|..||.+.+...+     .|-+|+..+..
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k-----~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK-----RCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccchhhccCCCCchHHHHHHHHHhcCC-----eeeEecceeee
Confidence            57889999999999999999999999999999888766     89999887753

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

Probab=97.38  E-value=5.1e-05  Score=59.72  Aligned_cols=49  Identities=31%  Similarity=0.677  Sum_probs=38.7

Q ss_pred             CCCcccccccccccCc----------EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            5 PCGDVCSVCHGNFNVP----------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~p----------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .++..|.+|.+.+...          ..++|+|.|-.-||+.|---++ ++  .||+|++.+
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK-kq--tCPYCKekV  280 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK-KQ--TCPYCKEKV  280 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC-CC--CCchHHHHh
Confidence            4678899999866433          4679999999999999976544 23  999998766

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

Probab=97.38  E-value=4.9e-05  Score=48.49  Aligned_cols=51  Identities=20%  Similarity=0.358  Sum_probs=24.7

Q ss_pred             Cccccccccccc-C---cEE----ccCCCcccHHHHHHHHHhCCCCC----C--CCCcccccccc
Q 029826            7 GDVCSVCHGNFN-V---PCQ----ANCSHWFCGNCIMLVWDHGSTLQ----A--CRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~-~---pv~----~~C~H~fC~~Ci~~~~~~~~~~~----~--~~Cp~Cr~~~~   57 (187)
                      +.+|+||..... +   |..    ..|++.|-..|+.+|+......+    .  -.||.|+++++
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            578999998654 2   322    15899999999999997633211    1  17999999884

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

Probab=97.35  E-value=8.3e-05  Score=61.59  Aligned_cols=49  Identities=29%  Similarity=0.635  Sum_probs=39.2

Q ss_pred             cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      ..|-||-+.-++-..-+|||-.|..|+..|-.... .+  .||.||..+...
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~-gq--~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDE-GQ--TCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCC-CC--CCCceeeEeccc
Confidence            36999999877777778999999999988664432 22  999999999753

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

Probab=97.31  E-value=0.00012  Score=61.25  Aligned_cols=38  Identities=24%  Similarity=0.466  Sum_probs=34.2

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS   42 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~   42 (187)
                      +|++.|+||...+.+|+.++|+|+.|..|......++.
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~tp   39 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQTP   39 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhcccCC
Confidence            68899999999999999999999999999987665544

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

Probab=97.10  E-value=0.00054  Score=44.06  Aligned_cols=28  Identities=36%  Similarity=0.657  Sum_probs=25.6

Q ss_pred             cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826           24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus        24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      -|.|.|-..||.+|+..+.     .||++|++.
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~-----~CPld~q~w   80 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKG-----VCPLDRQTW   80 (88)
T ss_pred             ecchHHHHHHHHHHHhhCC-----CCCCCCcee
Confidence            3999999999999999866     999999977

>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=97.02  E-value=0.00079  Score=49.12  Aligned_cols=58  Identities=22%  Similarity=0.481  Sum_probs=40.0

Q ss_pred             CCcccccccccccCcEEccCC-C------ccc------HHHHHHHHHhCCCC--------------------------CC
Q 029826            6 CGDVCSVCHGNFNVPCQANCS-H------WFC------GNCIMLVWDHGSTL--------------------------QA   46 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~-H------~fC------~~Ci~~~~~~~~~~--------------------------~~   46 (187)
                      |+..||||++...++|.+-|. |      -.|      ..|+.++-+.....                          ..
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            578999999999999998554 1      122      46887765432210                          14


Q ss_pred             CCCcccccccccccCCC
Q 029826           47 CRCPLCRRRITLLIPND   63 (187)
Q Consensus        47 ~~Cp~Cr~~~~~~~~~~   63 (187)
                      ..||+||..+..+....
T Consensus        81 L~CPLCRG~V~GWtvve   97 (162)
T PF07800_consen   81 LACPLCRGEVKGWTVVE   97 (162)
T ss_pred             ccCccccCceeceEEch
Confidence            68999999998765554

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

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

Probab=96.99  E-value=0.00051  Score=57.12  Aligned_cols=50  Identities=28%  Similarity=0.777  Sum_probs=39.3

Q ss_pred             CCCcccccccccccCc-----EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVP-----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~p-----v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +....||||++....|     +.+.|||.|-.+|+++|+-+   +....||.|.....
T Consensus         2 d~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k---~~~~~cp~c~~kat   56 (463)
T KOG1645|consen    2 DCGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGK---KTKMQCPLCSGKAT   56 (463)
T ss_pred             CccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhh---hhhhhCcccCChhH
Confidence            4567999999977665     34579999999999999953   23569999976654

>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=96.95  E-value=0.00066  Score=54.11  Aligned_cols=98  Identities=17%  Similarity=0.406  Sum_probs=53.7

Q ss_pred             ccccccc-cccCcE---Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCcccccCCCcchhhHHHhH-H
Q 029826            9 VCSVCHG-NFNVPC---QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKV-E   82 (187)
Q Consensus         9 ~C~iC~~-~~~~pv---~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~i-~   82 (187)
                      .||+|.. .+.+|-   .. +|+|..|.+|..+.+..+..    .||-|...+.+.--..+.-+...-+...++++.+ .
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~----~CpeC~~iLRk~nfr~q~fED~~vekEv~iRrri~~   77 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPA----QCPECMVILRKNNFRVQTFEDPTVEKEVDIRRRILR   77 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCC----CCCcccchhhhcccchhhcchhHHHHHHHHHHHHHH
Confidence            5999987 334442   12 69999999999999887664    9999976553211111111111112223445555 5


Q ss_pred             Hhhhh---hCCCCCCCccchhhcchhHHHHHHH
Q 029826           83 SYNRI---FGGPTTANGLFQRIQDLPFLLRRLV  112 (187)
Q Consensus        83 ~y~~~---~s~~~~~~~~~~~l~~~p~ll~~l~  112 (187)
                      .||+.   |.+..  ....+++...-+++..+.
T Consensus        78 ~~nk~~eeF~~~L--aeyndylEe~Ediv~nl~  108 (300)
T KOG3800|consen   78 IFNKKEEEFTGSL--AEYNDYLEEVEDIVFNLG  108 (300)
T ss_pred             HhccchhhhhhhH--HHHhcccHHHHHHHHHhh
Confidence            55553   33333  445555555555444443

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=96.80  E-value=0.00036  Score=41.43  Aligned_cols=48  Identities=17%  Similarity=0.535  Sum_probs=23.9

Q ss_pred             CcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826            7 GDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~   55 (187)
                      .+.||+....+..|+... |.|.-|.+= +.+++.....+...||.|.++
T Consensus         2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            368999999999999875 999987652 233333222334699999764

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.

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

Probab=96.80  E-value=0.00028  Score=62.97  Aligned_cols=52  Identities=19%  Similarity=0.435  Sum_probs=39.8

Q ss_pred             CcccccccccccCcE---EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCC
Q 029826            7 GDVCSVCHGNFNVPC---QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPND   63 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv---~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~   63 (187)
                      ...||+|+..+.+..   ...|+|.||..|+..|-+...     .||.||..+....+..
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq-----TCPiDR~EF~~v~V~e  177 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ-----TCPVDRGEFGEVKVLE  177 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc-----cCchhhhhhheeeeec
Confidence            356888887665443   236999999999999888776     9999999998655443

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.73  E-value=0.00064  Score=40.74  Aligned_cols=44  Identities=23%  Similarity=0.484  Sum_probs=34.5

Q ss_pred             CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ...|-.|...-...+.++|||..|..|....-.  +     .||.|..++.
T Consensus         7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY--n-----gCPfC~~~~~   50 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGERY--N-----GCPFCGTPFE   50 (55)
T ss_pred             ceeEEEccccccccccccccceeeccccChhhc--c-----CCCCCCCccc
Confidence            456777777778889999999999999864222  2     8999998884

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

Probab=96.68  E-value=0.0011  Score=54.98  Aligned_cols=48  Identities=19%  Similarity=0.589  Sum_probs=35.5

Q ss_pred             CcccccccccccCcEE---c-cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            7 GDVCSVCHGNFNVPCQ---A-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~---~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .-.|.||.+...+-..   + .|||+|--.|+.+|+....++.  .||.|+-.+
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R--~cpic~ik~   55 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNR--GCPICQIKL   55 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccC--CCCceeecc
Confidence            3479999765543222   2 4999999999999999887543  899998333

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

Probab=96.67  E-value=0.0024  Score=37.73  Aligned_cols=42  Identities=19%  Similarity=0.675  Sum_probs=33.0

Q ss_pred             ccccccc--cccCcEEccCC-----CcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826            9 VCSVCHG--NFNVPCQANCS-----HWFCGNCIMLVWDHGSTLQACRCPLCR   53 (187)
Q Consensus         9 ~C~iC~~--~~~~pv~~~C~-----H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr   53 (187)
                      .|-||++  .-.++...||.     |.+-..|+.+|+..+..   ..||.|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~---~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGN---KTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCC---CcCCCCC
Confidence            4889997  44677888885     77889999999987652   3899984

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

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

Probab=96.63  E-value=0.0012  Score=53.66  Aligned_cols=46  Identities=26%  Similarity=0.774  Sum_probs=37.9

Q ss_pred             Cccccccccccc------CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            7 GDVCSVCHGNFN------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         7 ~~~C~iC~~~~~------~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ...|-||.+.+.      .|..+.|||++|..|+........    ..||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~----i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSR----ILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCce----eeccCCCCcc
Confidence            357999998764      578888999999999998777654    3889999985

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

Probab=96.63  E-value=0.00078  Score=60.51  Aligned_cols=47  Identities=26%  Similarity=0.686  Sum_probs=41.2

Q ss_pred             cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ..|++|.+ ...++.+.|||.||.+|+...++.... .  .||.||..+..
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~-~--~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSEN-A--PCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccC-C--CCcHHHHHHHH
Confidence            68999999 888899999999999999999988663 2  89999988863

>PHA03096 p28-like protein; Provisional

Probab=96.58  E-value=0.00097  Score=53.83  Aligned_cols=49  Identities=22%  Similarity=0.283  Sum_probs=34.4

Q ss_pred             ccccccccccc--------CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            8 DVCSVCHGNFN--------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         8 ~~C~iC~~~~~--------~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      -.|.||++...        ......|.|.||..|+..|...+...  -.||.||...+.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~--e~~~~c~~~~~~  235 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYK--ETEPENRRLNTV  235 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhc--ccCccccchhhH
Confidence            47999998543        22344699999999999988776533  367666665443

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

Probab=96.53  E-value=0.0013  Score=51.11  Aligned_cols=101  Identities=19%  Similarity=0.453  Sum_probs=57.8

Q ss_pred             CCcccccccc-cccCc-EE--c-c-CCCcccHHHHHHHHHhCCCCCCCCCc--cccccccccc-CCCcccccCCCcchhh
Q 029826            6 CGDVCSVCHG-NFNVP-CQ--A-N-CSHWFCGNCIMLVWDHGSTLQACRCP--LCRRRITLLI-PNDDSLRQRHDPAVGD   76 (187)
Q Consensus         6 ~~~~C~iC~~-~~~~p-v~--~-~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp--~Cr~~~~~~~-~~~~~~~~~~~~~~~~   76 (187)
                      ++..||+|.. .+-+| +.  + | |-|..|.+|..+.+..+..    .||  -|..-+.+.- ....... -+-+..-.
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpA----qCP~~gC~kILRK~kf~~qtFeD-~~vEkEvd   83 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPA----QCPYKGCGKILRKIKFIKQTFED-ITVEKEVD   83 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCC----CCCCccHHHHHHHhcccccccch-hhhhhhhh
Confidence            4568999997 33344 21  2 3 9999999999999987664    999  5765443211 1111111 11111122


Q ss_pred             HHHhH-HHhh---hhhCCCCCCCccchhhcchhHHHHHHHH
Q 029826           77 ILQKV-ESYN---RIFGGPTTANGLFQRIQDLPFLLRRLVR  113 (187)
Q Consensus        77 v~~~i-~~y~---~~~s~~~~~~~~~~~l~~~p~ll~~l~~  113 (187)
                      ++..+ +.||   ..|+|..  ..+.+|+...-+++..+..
T Consensus        84 vRkr~~r~Fnk~~~eF~gdl--~~YNdYLEevE~l~f~l~~  122 (314)
T COG5220          84 VRKRLLRAFNKEEEEFGGDL--AKYNDYLEEVEELVFELLE  122 (314)
T ss_pred             HHHHHHHHhccchhhhCccH--HHHHHHHHHHHHHHHHHHH
Confidence            33333 3333   4566655  6677778777777665553

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

Probab=96.44  E-value=0.0023  Score=37.46  Aligned_cols=43  Identities=23%  Similarity=0.633  Sum_probs=20.4

Q ss_pred             ccccccccc--CcEEc--cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826           10 CSVCHGNFN--VPCQA--NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus        10 C~iC~~~~~--~pv~~--~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ||+|.+.+.  +-...  +||+..|..|+....+...  +  .||-||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~--g--~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEG--G--RCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS---S--B-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccC--C--CCCCCCCCC
Confidence            788888763  22233  5999999999988776333  2  999999875

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

Probab=96.20  E-value=0.0044  Score=50.76  Aligned_cols=53  Identities=23%  Similarity=0.515  Sum_probs=41.1

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .-+++..|-||-+-.+....+||+|..|.-|..+...--.   ...||.||.....
T Consensus        57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~---~K~C~~CrTE~e~  109 (493)
T COG5236          57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM---QKGCPLCRTETEA  109 (493)
T ss_pred             cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh---ccCCCccccccce
Confidence            3477889999999999999999999999999865432211   1289999987653

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

Probab=96.18  E-value=0.0044  Score=43.93  Aligned_cols=50  Identities=18%  Similarity=0.487  Sum_probs=42.4

Q ss_pred             CCcccccccccccCcEEcc----CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQAN----CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~----C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .-.+|.||.|...+...+.    ||-..|..|....|++.+  -...||.|+.++.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~--~ypvCPvCkTSFK  132 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN--LYPVCPVCKTSFK  132 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc--cCCCCCccccccc
Confidence            4578999999998888763    999999999999999876  3459999988774

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

Probab=96.09  E-value=0.0042  Score=50.42  Aligned_cols=48  Identities=27%  Similarity=0.515  Sum_probs=39.7

Q ss_pred             CCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      +.+...||+|.....+|..+. -|-.||..|+-.++...+     .||.=..+.
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~-----~CPVT~~p~  345 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG-----HCPVTGYPA  345 (357)
T ss_pred             CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC-----CCCccCCcc
Confidence            466789999999999998877 599999999999998655     898754444

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

Probab=95.80  E-value=0.0035  Score=55.08  Aligned_cols=38  Identities=32%  Similarity=0.893  Sum_probs=31.3

Q ss_pred             CCcccccccccc----cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCc
Q 029826            6 CGDVCSVCHGNF----NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCP   50 (187)
Q Consensus         6 ~~~~C~iC~~~~----~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp   50 (187)
                      +-+.|+||...+    ..|+.+.|||+.|+.|++...+.       +||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~-------scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA-------SCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc-------cCC
Confidence            346799998866    36899999999999999876654       788

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

Probab=95.80  E-value=0.012  Score=49.32  Aligned_cols=49  Identities=20%  Similarity=0.362  Sum_probs=36.2

Q ss_pred             CCcccccccccccC---cEEccCCCcccHHHHHHHHHhCCC---CCCCCCccccc
Q 029826            6 CGDVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWDHGST---LQACRCPLCRR   54 (187)
Q Consensus         6 ~~~~C~iC~~~~~~---pv~~~C~H~fC~~Ci~~~~~~~~~---~~~~~Cp~Cr~   54 (187)
                      ..+.|.||.+....   =+.++|+|.||..|+..|+.....   .+.++||-+..
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            45789999997654   246799999999999999865432   23457777644

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

Probab=95.56  E-value=0.01  Score=49.38  Aligned_cols=46  Identities=26%  Similarity=0.522  Sum_probs=35.8

Q ss_pred             CCcccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826            6 CGDVCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR   53 (187)
Q Consensus         6 ~~~~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr   53 (187)
                      +-+.|||=.+.-   +.|.++.|||..|.+-+.+..+.+.  ..++||+|-
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~--~sfKCPYCP  381 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGS--QSFKCPYCP  381 (394)
T ss_pred             ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCC--eeeeCCCCC
Confidence            457899866533   5689999999999999988766544  357999993

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

Probab=95.54  E-value=0.0028  Score=49.42  Aligned_cols=44  Identities=30%  Similarity=0.729  Sum_probs=29.9

Q ss_pred             cccccccccc-cCcE-EccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            8 DVCSVCHGNF-NVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         8 ~~C~iC~~~~-~~pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ..|-.|.... .+|- .|+|+|.||..|....  . .    -.||.|++++..
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~-~----~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--S-P----DVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccC--C-c----cccccccceeee
Confidence            4566666533 3333 5679999999997531  1 1    189999998753

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.44  E-value=0.011  Score=46.21  Aligned_cols=48  Identities=10%  Similarity=0.214  Sum_probs=40.3

Q ss_pred             CCCcccccccccccCcE----EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPC----QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv----~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..+.||+|.+.+.+.+    .-+|||.+|.+|.++.+....     .||.|-.+++
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-----v~pv~d~plk  270 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-----VDPVTDKPLK  270 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-----cccCCCCcCc
Confidence            45678999999988743    447999999999999888765     9999988885

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.29  E-value=0.023  Score=45.44  Aligned_cols=49  Identities=20%  Similarity=0.424  Sum_probs=37.6

Q ss_pred             CCCCcccccccccccCc----EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVP----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~p----v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ....+.|||....+..-    ..-+|||.|+..++.+.- ...     .||.|-.++..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~-----~Cp~c~~~f~~  162 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSK-----KCPVCGKPFTE  162 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccc-----cccccCCcccc
Confidence            35678999999888532    234899999999999873 122     89999999873

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

Probab=95.19  E-value=0.012  Score=47.84  Aligned_cols=45  Identities=29%  Similarity=0.580  Sum_probs=35.9

Q ss_pred             CCcccccccccccCcE-EccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            6 CGDVCSVCHGNFNVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +-+.||||.+.+..|+ +-+=||.-|..|-.+   ...     .||.||.++..
T Consensus        47 ~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~-----~CP~Cr~~~g~   92 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSN-----KCPTCRLPIGN   92 (299)
T ss_pred             hhccCchhhccCcccceecCCCcEehhhhhhh---hcc-----cCCcccccccc
Confidence            4579999999999886 345689999999753   222     99999999973

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

Probab=95.04  E-value=0.016  Score=39.24  Aligned_cols=28  Identities=29%  Similarity=0.507  Sum_probs=24.8

Q ss_pred             cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826           24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus        24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .|.|.|-.-||.+|+++..     .||+|.++-
T Consensus        80 ~CNHaFH~hCisrWlktr~-----vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRN-----VCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhcC-----cCCCcCcce
Confidence            4999999999999999877     999997653

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

Probab=94.54  E-value=0.02  Score=45.74  Aligned_cols=47  Identities=23%  Similarity=0.490  Sum_probs=39.2

Q ss_pred             CCCcccccccccccCcEEccC----CCcccHHHHHHHHHhCCCCCCCCCcc
Q 029826            5 PCGDVCSVCHGNFNVPCQANC----SHWFCGNCIMLVWDHGSTLQACRCPL   51 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C----~H~fC~~Ci~~~~~~~~~~~~~~Cp~   51 (187)
                      ...+.|.+|.+.+.+-....|    .|.||..|-++.++.+..++..-||.
T Consensus       266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS  316 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS  316 (352)
T ss_pred             CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence            455899999999988877766    59999999999999888777776665

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

Probab=94.50  E-value=0.011  Score=47.65  Aligned_cols=42  Identities=31%  Similarity=0.630  Sum_probs=29.6

Q ss_pred             ccccccc-cccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            9 VCSVCHG-NFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         9 ~C~iC~~-~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .|.-|.- +.....+++|.|.||.+|...  ...     ..||.|-.++.
T Consensus        92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~d-----K~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMIPCKHVFCLECARS--DSD-----KICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcceeeecccccchhhhhhhhhc--Ccc-----ccCcCcccHHH
Confidence            3555654 334567889999999999864  222     28999987775

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

Probab=94.44  E-value=0.0089  Score=53.29  Aligned_cols=50  Identities=22%  Similarity=0.549  Sum_probs=42.1

Q ss_pred             CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++|+||.....+|+.+.|.|.||..|+...+.....  ...||+|+....
T Consensus        20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~--~~~~~lc~~~~e   69 (684)
T KOG4362|consen   20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKG--PKQCALCKSDIE   69 (684)
T ss_pred             hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCc--cccchhhhhhhh
Confidence            46799999999999999999999999999877766553  459999986664

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

Probab=94.15  E-value=0.022  Score=47.47  Aligned_cols=49  Identities=22%  Similarity=0.537  Sum_probs=36.7

Q ss_pred             CCccccccccccc-Cc---EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFN-VP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~-~p---v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      -++-|..|.+.+- .|   --++|.|.|-..|+.+++.+..   +-+||.||+-.+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~---~rsCP~CrklrS  416 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG---TRSCPNCRKLRS  416 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC---CCCCccHHHHHh
Confidence            3577999998652 12   2468999999999999997644   459999995444

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

Probab=93.65  E-value=0.051  Score=45.31  Aligned_cols=34  Identities=24%  Similarity=0.739  Sum_probs=25.5

Q ss_pred             CCCcccHHHHHHHHHhCCC--------CCCCCCccccccccc
Q 029826           25 CSHWFCGNCIMLVWDHGST--------LQACRCPLCRRRITL   58 (187)
Q Consensus        25 C~H~fC~~Ci~~~~~~~~~--------~~~~~Cp~Cr~~~~~   58 (187)
                      |....|.+|+-+|+..+..        ++...||+||+.+-.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            4445588999999977652        357799999998743

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

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=93.35  E-value=0.11  Score=38.07  Aligned_cols=53  Identities=15%  Similarity=0.423  Sum_probs=37.8

Q ss_pred             CCC-CCCCcccccccccccCcEEccCCC--c---ccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            1 MEG-PPCGDVCSVCHGNFNVPCQANCSH--W---FCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         1 ~~~-~~~~~~C~iC~~~~~~pv~~~C~H--~---fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ||+ ...+..|-||.+.-. +-..+|..  +   --.+|+++|...++   ...|+.|+++.+
T Consensus         1 ~~~~s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~---~~~CeiC~~~Y~   59 (162)
T PHA02825          1 MEDVSLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSK---NKSCKICNGPYN   59 (162)
T ss_pred             CCCcCCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCC---CCcccccCCeEE
Confidence            453 466788999998754 33445543  2   26899999998754   459999998884

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

Probab=93.10  E-value=0.03  Score=53.05  Aligned_cols=46  Identities=30%  Similarity=0.554  Sum_probs=38.7

Q ss_pred             CCccccccccccc-CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            6 CGDVCSVCHGNFN-VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         6 ~~~~C~iC~~~~~-~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ....|+||.+.+. ..-...|||.+|..|...|..++.     .||.|....
T Consensus      1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s-----~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS-----RCPICKSIK 1198 (1394)
T ss_pred             cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc-----cCcchhhhh
Confidence            4458999999998 556778999999999999998877     999997433

>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=92.14  E-value=0.19  Score=28.68  Aligned_cols=40  Identities=23%  Similarity=0.635  Sum_probs=24.3

Q ss_pred             cccccccccCcEEcc---CCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826           10 CSVCHGNFNVPCQAN---CSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus        10 C~iC~~~~~~pv~~~---C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      |.+|.++....+.=+   |+-.+-..|+..+|+..+.   ..||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~---~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSN---PKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS----B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCC---CCCcCC
Confidence            678888887777654   8888889999999988663   169987

; PDB: 3NW0_A 2CT0_A.

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.10  E-value=0.12  Score=40.70  Aligned_cols=38  Identities=16%  Similarity=0.028  Sum_probs=33.2

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS   42 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~   42 (187)
                      .+...|+.|+.-..+|+.++=||.||++||.+++-.+.
T Consensus        41 K~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaqK   78 (303)
T KOG3039|consen   41 KPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQK   78 (303)
T ss_pred             CCcceeeeecccccCCccCCCCeeeeHHHHHHHHHHHH
Confidence            45567899999999999999999999999999986544

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

Probab=91.81  E-value=0.16  Score=49.18  Aligned_cols=53  Identities=28%  Similarity=0.622  Sum_probs=40.6

Q ss_pred             CCCcccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCC------CCCCccccccccc
Q 029826            5 PCGDVCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQ------ACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~------~~~Cp~Cr~~~~~   58 (187)
                      +.+..|-||+...   ...+++.|+|.|-..|.++.++..- +|      -++||.|..++++
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW-~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRW-LGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcc-cCCeeEEeeeecccccchhhh
Confidence            4567899998733   3457899999999999988777643 44      3499999999865

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

Probab=91.76  E-value=0.11  Score=44.06  Aligned_cols=46  Identities=22%  Similarity=0.512  Sum_probs=31.5

Q ss_pred             CCcccccccccccCc----EEccCCCcccHHHHHHHHHhCCCC-CCCCCcc
Q 029826            6 CGDVCSVCHGNFNVP----CQANCSHWFCGNCIMLVWDHGSTL-QACRCPL   51 (187)
Q Consensus         6 ~~~~C~iC~~~~~~p----v~~~C~H~fC~~Ci~~~~~~~~~~-~~~~Cp~   51 (187)
                      ...+|.||......+    ....|+|.||..|+.+++..+... ..+.||-
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~  195 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH  195 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence            356899999433222    245699999999999999865322 2456754

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

Probab=91.67  E-value=0.13  Score=44.39  Aligned_cols=52  Identities=19%  Similarity=0.457  Sum_probs=38.4

Q ss_pred             CCCcccccccccccC-cEEccCCCcccHHHHHHHHHhCCCCCC---CCCcc--ccccc
Q 029826            5 PCGDVCSVCHGNFNV-PCQANCSHWFCGNCIMLVWDHGSTLQA---CRCPL--CRRRI   56 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~-pv~~~C~H~fC~~Ci~~~~~~~~~~~~---~~Cp~--Cr~~~   56 (187)
                      ....+|.||.+.... .+...|||.||..|+..++..+-..+.   ++||.  |++.+
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v  125 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALV  125 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccC
Confidence            455899999998875 667789999999999999987653221   45654  65544

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=91.19  E-value=0.12  Score=36.92  Aligned_cols=36  Identities=17%  Similarity=0.442  Sum_probs=26.7

Q ss_pred             CCCcccccccccccC--cE-EccCC------CcccHHHHHHHHHh
Q 029826            5 PCGDVCSVCHGNFNV--PC-QANCS------HWFCGNCIMLVWDH   40 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~--pv-~~~C~------H~fC~~Ci~~~~~~   40 (187)
                      +...+|.||.+...+  .+ .++||      |.||.+|+++|-+.
T Consensus        24 ~~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   24 RCTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             ccCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence            347899999997766  44 34455      67999999998543

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.

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

Probab=90.93  E-value=0.18  Score=41.08  Aligned_cols=47  Identities=21%  Similarity=0.497  Sum_probs=35.6

Q ss_pred             CCcccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826            6 CGDVCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (187)
Q Consensus         6 ~~~~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~   54 (187)
                      .-+.||+=.+.-   +.|+++.|||..-.+-+.+.-+.+.  ..++||+|-.
T Consensus       335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~--~~FKCPYCP~  384 (396)
T COG5109         335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGV--LSFKCPYCPE  384 (396)
T ss_pred             ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCc--EEeeCCCCCc
Confidence            346788866643   5689999999999998887665544  3679999943

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

Probab=90.79  E-value=0.23  Score=37.16  Aligned_cols=56  Identities=23%  Similarity=0.383  Sum_probs=34.6

Q ss_pred             CCCcccccccccccC---c--E--EccCCCcccHHHHHHHHHhCCC-CCCC-----CCccccccccccc
Q 029826            5 PCGDVCSVCHGNFNV---P--C--QANCSHWFCGNCIMLVWDHGST-LQAC-----RCPLCRRRITLLI   60 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~---p--v--~~~C~H~fC~~Ci~~~~~~~~~-~~~~-----~Cp~Cr~~~~~~~   60 (187)
                      ++...|.||...--+   |  +  ...||..|-.-|+..|++.-.. .+.+     .||+|..++...+
T Consensus       163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm  231 (234)
T KOG3268|consen  163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM  231 (234)
T ss_pred             hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence            444556666553211   1  1  2369999999999999865221 1111     8999998886433

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

Probab=90.73  E-value=0.65  Score=36.13  Aligned_cols=53  Identities=19%  Similarity=0.433  Sum_probs=39.7

Q ss_pred             CCCCccccccccccc--CcEEccCCCcccHHHHHHHHHhCCCC---CCCCCccccccc
Q 029826            4 PPCGDVCSVCHGNFN--VPCQANCSHWFCGNCIMLVWDHGSTL---QACRCPLCRRRI   56 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~--~pv~~~C~H~fC~~Ci~~~~~~~~~~---~~~~Cp~Cr~~~   56 (187)
                      .+-+-.|..|...+.  +.+.+.|-|.|-..|+.++-.+-..+   ....||.|.+++
T Consensus        47 sDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   47 SDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             cCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            345567889988664  56788999999999999876553322   235999998877

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.25  E-value=0.2  Score=41.24  Aligned_cols=50  Identities=24%  Similarity=0.507  Sum_probs=34.2

Q ss_pred             CCCccccccccccc--CcE--EccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFN--VPC--QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~--~pv--~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +|+.-||.|.+.+.  +--  --+||-..|.-|+....+.-  +|  .||.||+....
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l--ng--rcpacrr~y~d   65 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL--NG--RCPACRRKYDD   65 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc--cC--CChHhhhhccc
Confidence            34445999999653  222  23688888999987654443  24  99999987753

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.24  E-value=0.19  Score=40.51  Aligned_cols=34  Identities=21%  Similarity=0.759  Sum_probs=25.1

Q ss_pred             CCCcccHHHHHHHHHhCCC--------CCCCCCccccccccc
Q 029826           25 CSHWFCGNCIMLVWDHGST--------LQACRCPLCRRRITL   58 (187)
Q Consensus        25 C~H~fC~~Ci~~~~~~~~~--------~~~~~Cp~Cr~~~~~   58 (187)
                      |....|.+|+.+|+.....        .+...||+||+.+..
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            5556788999999865542        246699999998853

>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=88.96  E-value=0.18  Score=29.24  Aligned_cols=32  Identities=34%  Similarity=0.994  Sum_probs=22.0

Q ss_pred             EEccCC-CcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826           21 CQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus        21 v~~~C~-H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      -.+.|. |-.|..|+...+..+.     .||.|..++.
T Consensus        14 ~Li~C~dHYLCl~CLt~ml~~s~-----~C~iC~~~LP   46 (50)
T PF03854_consen   14 GLIKCSDHYLCLNCLTLMLSRSD-----RCPICGKPLP   46 (50)
T ss_dssp             SEEE-SS-EEEHHHHHHT-SSSS-----EETTTTEE--
T ss_pred             CeeeecchhHHHHHHHHHhcccc-----CCCcccCcCc
Confidence            355676 8889999998777665     9999998874

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.

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

Probab=88.57  E-value=0.11  Score=47.47  Aligned_cols=41  Identities=29%  Similarity=0.822  Sum_probs=33.1

Q ss_pred             cccccccccccCcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            8 DVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         8 ~~C~iC~~~~~~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      -.|..|...+.-|.+ -.|||+|-..|+.   +..     ..||.|+...
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~-----~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKE-----DKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhc---cCc-----ccCCccchhh
Confidence            589999999998864 5799999999998   222     2999998744

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

Probab=88.28  E-value=0.021  Score=36.07  Aligned_cols=46  Identities=20%  Similarity=0.540  Sum_probs=25.4

Q ss_pred             CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~   62 (187)
                      +..||.|...+.-   .+ +|.+|..|-..+....      .||.|.+++..+...
T Consensus         1 e~~CP~C~~~L~~---~~-~~~~C~~C~~~~~~~a------~CPdC~~~Le~LkAC   46 (70)
T PF07191_consen    1 ENTCPKCQQELEW---QG-GHYHCEACQKDYKKEA------FCPDCGQPLEVLKAC   46 (70)
T ss_dssp             --B-SSS-SBEEE---ET-TEEEETTT--EEEEEE------E-TTT-SB-EEEEET
T ss_pred             CCcCCCCCCccEE---eC-CEEECccccccceecc------cCCCcccHHHHHHHh
Confidence            3689999987532   11 7889999987644432      899999998755443

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

>PHA02862 5L protein; Provisional

Probab=87.45  E-value=0.69  Score=33.49  Aligned_cols=46  Identities=20%  Similarity=0.509  Sum_probs=32.8

Q ss_pred             cccccccccccCcEEccCCC-----cccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            8 DVCSVCHGNFNVPCQANCSH-----WFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         8 ~~C~iC~~~~~~pv~~~C~H-----~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..|=||.+.-.+. ..||..     .--.+|+++|.+.+.   ...|+.|+.+..
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~---k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSK---KKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCC---CcCccCCCCeEE
Confidence            4788999875444 355543     235799999997643   459999998874

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

Probab=85.71  E-value=0.4  Score=38.84  Aligned_cols=54  Identities=24%  Similarity=0.580  Sum_probs=37.2

Q ss_pred             CCCccccccccccc-Cc--EEccCCCcccHHHHHHHHHh------------------CCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFN-VP--CQANCSHWFCGNCIMLVWDH------------------GSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~-~p--v~~~C~H~fC~~Ci~~~~~~------------------~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ..+-.|.||+-=|. .|  +.|+|-|-|-..|+.+|+..                  ......-.||.||.++..
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            34568999998554 34  56789999999999877632                  110011269999999863

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.39  E-value=0.56  Score=37.17  Aligned_cols=61  Identities=20%  Similarity=0.497  Sum_probs=43.4

Q ss_pred             CCCCcccccccccccCcEE----ccC-----CCcccHHHHHHHHHhCCC---CCCCCCcccccccccccCCCc
Q 029826            4 PPCGDVCSVCHGNFNVPCQ----ANC-----SHWFCGNCIMLVWDHGST---LQACRCPLCRRRITLLIPNDD   64 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~----~~C-----~H~fC~~Ci~~~~~~~~~---~~~~~Cp~Cr~~~~~~~~~~~   64 (187)
                      -+.+..|=||+..=.+-..    -||     .|+--.+|+.+|+..+..   .++..||.|+......+|.-.
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~   89 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLG   89 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccC
Confidence            4567788999985443222    233     256678999999988764   557799999998877777653

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

Probab=84.61  E-value=0.6  Score=42.86  Aligned_cols=50  Identities=26%  Similarity=0.526  Sum_probs=37.4

Q ss_pred             CCCcccccccccccC--cEE--ccCCCcccHHHHHHHHHhCCCC--CCCCCccccc
Q 029826            5 PCGDVCSVCHGNFNV--PCQ--ANCSHWFCGNCIMLVWDHGSTL--QACRCPLCRR   54 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~--pv~--~~C~H~fC~~Ci~~~~~~~~~~--~~~~Cp~Cr~   54 (187)
                      .+..+|.||.+.+..  |+-  .+|-|.|-..||.+|-++....  ..+.||.|+.
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            456899999997753  332  2588999999999998774322  3679999973

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

Probab=84.13  E-value=0.61  Score=42.58  Aligned_cols=60  Identities=13%  Similarity=0.169  Sum_probs=42.4

Q ss_pred             CCCCcccccccccccCcE-------EccCCCcccHHHHHHHHHhCC-CCCCCCCcccccccccccCCC
Q 029826            4 PPCGDVCSVCHGNFNVPC-------QANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRITLLIPND   63 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv-------~~~C~H~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr~~~~~~~~~~   63 (187)
                      +.+...|++|.-.+.+|+       .-+|+|.+|..||..|.++-- ...++.|++|...+..+..+.
T Consensus        93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a  160 (1134)
T KOG0825|consen   93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA  160 (1134)
T ss_pred             cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc
Confidence            455678888887766633       224999999999999887643 234568899988886554443

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

Probab=83.69  E-value=0.74  Score=37.08  Aligned_cols=42  Identities=21%  Similarity=0.668  Sum_probs=32.9

Q ss_pred             cccccccccc----cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826            8 DVCSVCHGNF----NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (187)
Q Consensus         8 ~~C~iC~~~~----~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~   54 (187)
                      ..||||.+.+    ..|..++|||..-..|.+++....     ..||.|..
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-----y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-----YTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-----CCCCcccc
Confidence            4499999855    356678899998888888766654     49999987

>KOG4604 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.24  E-value=1.2  Score=29.40  Aligned_cols=79  Identities=22%  Similarity=0.180  Sum_probs=48.7

Q ss_pred             CCCcchhhHHHhHHHhhhhhCCCCCCCccchhhcchhHHHHHHHHhhcCCCCchhHHHHHHHHHHHHHHHHhhhcccccC
Q 029826           69 RHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDII  148 (187)
Q Consensus        69 ~~~~~~~~v~~~i~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~P~D~i  148 (187)
                      +.++......-+...++..+.+.+  .....-+-.++++.++.+=.+.+.  +...-+.+. ---......|+++|+|++
T Consensus        11 ~~~e~~~~~~~d~clad~l~kg~s--g~~ig~v~s~~ffr~~~wpiw~gt--gvglGvay~-~cq~~l~a~y~i~~~~~~   85 (91)
T KOG4604|consen   11 RNSESELGRKWDRCLADSLVKGGS--GLGIGIVVSLLFFRRREWPIWLGT--GVGLGVAYS-NCQARLNAVYIIHGIDII   85 (91)
T ss_pred             CCcHhhhhhhhhHHHHHHHhccCc--ceeeehhhhhhhhcceeeeeecCc--ccccchhhH-HHHHHhccceeecCCCCC
Confidence            334444444445577888888877  666666767777777766555553  322222221 123445567999999999


Q ss_pred             cchh
Q 029826          149 PEAL  152 (187)
Q Consensus       149 Pd~~  152 (187)
                      |+..
T Consensus        86 ~~~~   89 (91)
T KOG4604|consen   86 PEGV   89 (91)
T ss_pred             cccc
Confidence            9863

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

Probab=80.22  E-value=2.8  Score=27.01  Aligned_cols=49  Identities=22%  Similarity=0.636  Sum_probs=19.4

Q ss_pred             CCccccccccccc----CcEEc---cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            6 CGDVCSVCHGNFN----VPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         6 ~~~~C~iC~~~~~----~pv~~---~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ....|.||.+..-    .-+..   .|+-..|+.|.+--.+....    .||.|+.+...
T Consensus         8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q----~CpqCkt~ykr   63 (80)
T PF14569_consen    8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQ----VCPQCKTRYKR   63 (80)
T ss_dssp             SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-S----B-TTT--B---
T ss_pred             CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcc----cccccCCCccc
Confidence            3457999998552    11222   48888899999755554432    99999977753

>PLN02189 cellulose synthase

Probab=80.09  E-value=2  Score=40.65  Aligned_cols=47  Identities=26%  Similarity=0.651  Sum_probs=32.2

Q ss_pred             ccccccccccc-----Cc-EEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            8 DVCSVCHGNFN-----VP-CQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         8 ~~C~iC~~~~~-----~p-v~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ..|.||.+.+-     ++ |--+ |+-.-|..|.+--.+..+    -.||.|+.+...
T Consensus        35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~----q~CpqCkt~Y~r   88 (1040)
T PLN02189         35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGT----QNCPQCKTRYKR   88 (1040)
T ss_pred             ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCC----ccCcccCCchhh
Confidence            48999999753     12 2223 777899999954333333    299999998873

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	187
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	6e-11
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-10
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	2e-09
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	7e-09
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-08
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	3e-08
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-07
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	2e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	2e-07
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-07
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	3e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	5e-07
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	6e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	6e-07
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-06
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	2e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-06
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-06
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	4e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	4e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	5e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	5e-06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-06
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-05
2ect_A	78	Ring finger protein 126; metal binding protein, st	6e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	6e-05
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-04
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	6e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	8e-04

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

 Score = 57.0 bits (137), Expect = 6e-11
 Identities = 15/53 (28%), Positives = 20/53 (37%), Gaps = 5/53 (9%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN 62
           C +C   F      NC+H FC  CI              CP+CR+ I     +
Sbjct: 67  CIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIE-----CPICRKDIKSKTYS 114

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 53.8 bits (129), Expect = 5e-10
 Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 4/48 (8%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C  C      P    C H  C +C+   +      Q   CP CR  + 
Sbjct: 55 CICCQELVFRPITTVCQHNVCKDCLDRSFRA----QVFSCPACRYDLG 98

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 53.9 bits (129), Expect = 1e-09
 Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 7/56 (12%)

Query: 10  CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT---LLIPN 62
           C  C      P    C H  C +C+   +      Q   CP CR  +    ++IPN
Sbjct: 81  CVCCQELVYQPVTTECFHNVCKDCLQRSFKA----QVFSCPACRHDLGQNYIMIPN 132

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

 Score = 51.4 bits (123), Expect = 2e-09
 Identities = 16/55 (29%), Positives = 20/55 (36%), Gaps = 7/55 (12%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT--LLIPN 62
          C++C      P    C H FC  C+      G      RC LCR+ I    L   
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGK-----RCALCRQEIPEDFLDSG 67

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 50.7 bits (121), Expect = 7e-09
 Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 4/71 (5%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQR 69
          C +C      P    C+H  C  C     +  S      CP CRRR++            
Sbjct: 18 CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASL----CCPFCRRRVSSWTRYHTRRNSL 73

Query: 70 HDPAVGDILQK 80
           +  +  I+QK
Sbjct: 74 VNVELWTIIQK 84

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

 Score = 48.9 bits (117), Expect = 2e-08
 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 1/47 (2%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQA-CRCPLCRRR 55
          C +C      P  A+C+H FC  CI L ++          CP+CR  
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68

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

 Score = 47.9 bits (114), Expect = 2e-08
 Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C  CH     P Q  C H FC +C+  +    S     +C  C+  I 
Sbjct: 18 CEKCHLVLCSPKQTECGHRFCESCMAALLSSSS----PKCTACQESIV 61

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112

 Score = 48.6 bits (116), Expect = 3e-08
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPN 62
          C +C      P    C H FC  C++ + +        +CPLC+  IT   L  +
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGP--SQCPLCKNDITKRSLQES 76

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

 Score = 46.4 bits (110), Expect = 1e-07
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 12/55 (21%)

Query: 10 CSVCHGNFNVPCQAN-------CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C +C   ++   Q         C H FC  C+     + +T     CP CR++I 
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-----CPTCRKKIN 67

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

 Score = 45.7 bits (109), Expect = 2e-07
 Identities = 14/56 (25%), Positives = 20/56 (35%), Gaps = 3/56 (5%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQA-CRCPLCRRRITL--LIPN 62
          C +C      P   +C H FC  C+          +    CP+CR       + PN
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPN 77

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

 Score = 45.4 bits (108), Expect = 2e-07
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 2/48 (4%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C +C      P   +C H FC  CI  + +        +CPLC+  + 
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGF--FKCPLCKTSVR 68

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

 Score = 45.1 bits (107), Expect = 2e-07
 Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 6/60 (10%)

Query: 7  GDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDS 65
           + C +C  + +    A  C H FC  CI   W      Q   CPLC+  +  ++   +S
Sbjct: 5  AERCPICLEDPSNYSMALPCLHAFCYVCI-TRW----IRQNPTCPLCKVPVESVVHTIES 59

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

 Score = 45.3 bits (108), Expect = 3e-07
 Identities = 14/57 (24%), Positives = 19/57 (33%), Gaps = 4/57 (7%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQ--ACRCPLCRRRITL--LIPN 62
          C +C      P   +C H  C  CI +      T       CP+C    +   L  N
Sbjct: 15 CPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQAN 71

>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 = 46.0 bits (109), Expect = 4e-07
 Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 9/73 (12%)

Query: 10 CSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQ 68
          C +C G F        C H FC  CI+   +         CP+C  ++    P    L  
Sbjct: 18 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKY-----CPICDVQVHKTRPL---LNI 69

Query: 69 RHDPAVGDILQKV 81
          R D  + DI+ K+
Sbjct: 70 RSDKTLQDIVYKL 82

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

 Score = 45.6 bits (108), Expect = 5e-07
 Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 6/62 (9%)

Query: 9  VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPNDDSL 66
           C +C        Q  C H FC  CI+            +CP+    +    L P++ + 
Sbjct: 20 ECPICLMALREAVQTPCGHRFCKACIIKSIRDAG----HKCPVDNEILLENQLFPDNFAK 75

Query: 67 RQ 68
          R+
Sbjct: 76 RE 77

>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 = 44.4 bits (105), Expect = 6e-07
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 12/55 (21%)

Query: 10 CSVCHGNFNVPCQA-------NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C +C   ++   Q         C H FC  C+     + +T     CP CR++I 
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-----CPTCRKKIN 62

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

 Score = 44.4 bits (105), Expect = 6e-07
 Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 5/45 (11%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54
          C +C   F  P    C H+FC +C +  +         RC +C +
Sbjct: 18 CFICRQAFQNPVVTKCRHYFCESCALEHFRATP-----RCYICDQ 57

>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 = 44.1 bits (104), Expect = 1e-06
 Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 7/56 (12%)

Query: 10 CSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPN 62
          C +C           +CS   C +CI   W    T Q  +CP CR  + L  L+  
Sbjct: 25 CFICMEKLRDARLCPHCSKLCCFSCIR-RWL---TEQRAQCPHCRAPLQLRELVNC 76

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

 Score = 44.5 bits (105), Expect = 1e-06
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C +C      P + +C H FC  CI+        +    CP CR    
Sbjct: 26 CQICEHILADPVETSCKHLFCRICILRCLK----VMGSYCPSCRYPCF 69

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

 Score = 44.3 bits (104), Expect = 2e-06
 Identities = 14/65 (21%), Positives = 18/65 (27%), Gaps = 4/65 (6%)

Query: 9  VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQ 68
          +CS C      P QA C H +C  C+  +   G       C  C                
Sbjct: 33 LCSACRNVLRRPFQAQCGHRYCSFCLASILSSGP----QNCAACVHEGIYEEGISILESS 88

Query: 69 RHDPA 73
             P 
Sbjct: 89 SAFPD 93

>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 = 45.9 bits (108), Expect = 2e-06
 Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 4/50 (8%)

Query: 8   DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
            +C +C  N        C H  C +C+   W      +   CP CR  I 
Sbjct: 333 QLCKICAENDKDVKIEPCGHLMCTSCLTS-WQES---EGQGCPFCRCEIK 378

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

 Score = 42.8 bits (101), Expect = 2e-06
 Identities = 9/50 (18%), Positives = 13/50 (26%), Gaps = 4/50 (8%)

Query: 10 CSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58
          C +C            C + +C  CI              CP C +    
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECIRTALLES---DEHTCPTCHQNDVS 64

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

 Score = 42.8 bits (101), Expect = 3e-06
 Identities = 14/60 (23%), Positives = 19/60 (31%), Gaps = 13/60 (21%)

Query: 10 CSVCHGNFN----VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL---LIPN 62
          C +C         +PC   C + +C  CI              CP C +       LI N
Sbjct: 16 CLICKDIMTDAVVIPC---CGNSYCDECIRTALLESDE---HTCPTCHQNDVSPDALIAN 69

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

 Score = 42.4 bits (100), Expect = 3e-06
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 6/51 (11%)

Query: 7  GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
           + C +C           C+H FC  CI    D         CP+CR ++T
Sbjct: 15 EEECCICMDGRA-DLILPCAHSFCQKCIDKWSDRHRN-----CPICRLQMT 59

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

 Score = 41.6 bits (98), Expect = 4e-06
 Identities = 13/50 (26%), Positives = 17/50 (34%), Gaps = 8/50 (16%)

Query: 9  VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58
           C  C      P    C H  C  C+       S +Q   CP+C+    L
Sbjct: 8  RCQQCQAEAKCPKLLPCLHTLCSGCL-----EASGMQ---CPICQAPWPL 49

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

 Score = 41.5 bits (98), Expect = 4e-06
 Identities = 15/43 (34%), Positives = 17/43 (39%), Gaps = 2/43 (4%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC 52
          CSVC      P    C H FC  CI   W+         CP+C
Sbjct: 18 CSVCLEYLKEPVIIECGHNFCKACITRWWEDLER--DFPCPVC 58

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

 Score = 43.4 bits (102), Expect = 4e-06
 Identities = 16/56 (28%), Positives = 19/56 (33%), Gaps = 10/56 (17%)

Query: 10 CSVCHGNFNVP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPN 62
          CS C      P C   C H FC NC+              CP+C     +  L  N
Sbjct: 25 CSRCTNILREPVCLGGCEHIFCSNCVSDCIG-------TGCPVCYTPAWIQDLKIN 73

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

 Score = 41.7 bits (98), Expect = 5e-06
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 8/59 (13%)

Query: 10 CSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI--TLLIPNDDS 65
          CS+C G          C H FC +CI+  + + +      CP C   +  T  +    S
Sbjct: 18 CSICKGYLIDATTITECLHTFCKSCIVRHFYYSNR-----CPKCNIVVHQTQPLSGPSS 71

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

 Score = 41.6 bits (98), Expect = 5e-06
 Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 2/43 (4%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC 52
          C +C      P   +C H FC  CI  + +        +CPLC
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGF--FKCPLC 63

>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 = 6e-06
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 12/55 (21%)

Query: 10 CSVCHGNFNVPCQA-------NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C +C   ++   Q         C H FC  C+     + +T     CP CR++I 
Sbjct: 6  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-----CPTCRKKIN 55

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

 Score = 42.4 bits (99), Expect = 2e-05
 Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 4/49 (8%)

Query: 9  VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
           C +C        Q  C H FC  CI+            +CP+    + 
Sbjct: 20 ECPICLMALREAVQTPCGHRFCKACIIKSIRDAG----HKCPVDNEILL 64

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

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 8/56 (14%)

Query: 10 CSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPN 62
          C +C   FN+      CSH +C  CI     + +     +CP C   +T   L  N
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT-----QCPTCCVTVTEPDLKNN 75

>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 = 38.9 bits (91), Expect = 6e-05
 Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 12/61 (19%)

Query: 2  EGPPCGDVCSVCHGNFNVPCQAN---CSHWFCGNCIMLVW--DHGSTLQACRCPLCRRRI 56
          E    G  C VC  ++ +        C+H F  +CI+  W   H S      CP+CR+ +
Sbjct: 10 EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVP-WLEQHDS------CPVCRKSL 62

Query: 57 T 57
          T
Sbjct: 63 T 63

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 40.7 bits (95), Expect = 6e-05
 Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 11/73 (15%)

Query: 10  CSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQ 68
           C +C            C H FC +CI+     G+      CP CR+++     +  SL  
Sbjct: 57  CPICLDMLKNTMTTKECLHRFCADCIITALRSGN----KECPTCRKKLV----SKRSL-- 106

Query: 69  RHDPAVGDILQKV 81
           R DP    ++ K+
Sbjct: 107 RPDPNFDALISKI 119

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae} Length = 267

 Score = 40.3 bits (93), Expect = 2e-04
 Identities = 13/72 (18%), Positives = 26/72 (36%), Gaps = 5/72 (6%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL- 58
           +EG      C +    +  P  +  C+H F  + I       +T   C    C + +++ 
Sbjct: 175 IEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRD-CPQAACSQVVSMR 233

Query: 59  -LIPNDDSLRQR 69
             +  D  +  R
Sbjct: 234 DFVR-DPIMELR 244

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

 Score = 40.6 bits (94), Expect = 2e-04
 Identities = 32/208 (15%), Positives = 55/208 (26%), Gaps = 75/208 (36%)

Query: 32  NC-IML--VWDHGSTLQA----CRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESY 84
           NC ++L  V +      A    C+         LL      +       +        S 
Sbjct: 245 NCLLVLLNVQN-AKAWNAFNLSCK--------ILLTTRFKQVTD----FLSAATTTHISL 291

Query: 85  NRIFGGPTTAN--GLF-----QRIQDL--------PFLLRRLVRELVD-PHR-------- 120
           +      T      L       R QDL        P  L  +   + D            
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351

Query: 121 ----------SL----PLVIRARVYIAMIFSAVYIFSPIDI-IPEALLGIV--GLLDDLL 163
                     SL    P   R        F  + +F P    IP  LL ++   ++   +
Sbjct: 352 CDKLTTIIESSLNVLEPAEYRKM------FDRLSVF-PPSAHIPTILLSLIWFDVIKSDV 404

Query: 164 IALLCFLHVAAL-------YRAVLYNRH 184
           + ++  LH  +L           + + +
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIY 432

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

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 13/61 (21%), Positives = 20/61 (32%), Gaps = 12/61 (19%)

Query: 1  MEGPPCGDVCSVCHGNFNVPCQAN---CSHWFCGNCIMLVW--DHGSTLQACRCPLCRRR 55
                   C +C   +     A    C H+F   C+  +W    G+      CP+CR  
Sbjct: 34 HGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCV-SIWLQKSGT------CPVCRCM 86

Query: 56 I 56
           
Sbjct: 87 F 87

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

 Score = 36.2 bits (84), Expect = 6e-04
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 8/54 (14%)

Query: 10 CSVCHGNFNVPCQA----NCSHWFCGNCI-MLVWDHGSTLQACRCPLCRRRITL 58
          C +C  +F          +C H  C  C+  L+    + +   RCP C +   +
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGV---RCPFCSKITRI 68

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

 Score = 37.1 bits (85), Expect = 8e-04
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 7/53 (13%)

Query: 10 CSVCHGNFN-------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55
          C +C   ++       +     C H FC  C+     + +T   CR  +  +R
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	187
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.62
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.59
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.57
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.55
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.55
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.54
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.53
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.53
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.53
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.51
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.51
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.51
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.5
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.49
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.48
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.48
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.48
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.47
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.46
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.46
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.46
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.46
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.45
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.44
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.43
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.42
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.42
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.42
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.42
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.42
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.42
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.41
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.4
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.4
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.39
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.39
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.38
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.38
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.37
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.36
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.36
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.35
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.35
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.35
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.34
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.34
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.33
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.3
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.29
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.28
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.27
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.23
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.22
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.21
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.18
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.16
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.14
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.14
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.05
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.04
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.0
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.93
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.82
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.72
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.45
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.37
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.13
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.09
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.35
3nw0_A	238	Non-structural maintenance of chromosomes element	96.58
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.03
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	95.64
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	91.46
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	91.32
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	90.56
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	88.92
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	84.25
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	83.62
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	83.2

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

Probab=99.62  E-value=6.8e-16  Score=100.12  Aligned_cols=53  Identities=15%  Similarity=0.179  Sum_probs=47.2

Q ss_pred             CCCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            1 MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         1 ~~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++..++++.|+||++.+.+|+.++|||+||..|+.+|+..+.    ..||.||+++.
T Consensus         2 ~~~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~----~~CP~C~~~~~   54 (78)
T 1t1h_A            2 SPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGH----KTCPKSQETLL   54 (78)
T ss_dssp             CCCCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTC----CBCTTTCCBCS
T ss_pred             CcCCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCc----CCCCCCcCCCC
Confidence            456789999999999999999999999999999999997633    39999999884

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

Probab=99.59  E-value=3.6e-15  Score=99.69  Aligned_cols=52  Identities=19%  Similarity=0.521  Sum_probs=45.9

Q ss_pred             CCCCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      +..++++.|+||++.+.+|+.++ |||+||..|+.+|+....   ...||.||+++
T Consensus         8 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~---~~~CP~Cr~~~   60 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESD---EHTCPTCHQND   60 (92)
T ss_dssp             CCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCT---TCCCTTTCCSS
T ss_pred             ccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcC---CCcCcCCCCcC
Confidence            35678899999999999999999 999999999999998643   24999999986

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

Probab=99.57  E-value=4.8e-15  Score=97.79  Aligned_cols=51  Identities=12%  Similarity=0.049  Sum_probs=46.3

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.||||++.+.+||+++|||+||..||.+||....     .||.||+++.
T Consensus         9 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~-----~cP~~~~~l~   59 (85)
T 2kr4_A            9 SDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSP-----TDPFNRQMLT   59 (85)
T ss_dssp             TTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCS-----BCTTTCCBCC
T ss_pred             hcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCC-----CCCCCcCCCC
Confidence            35678999999999999999999999999999999998643     9999999884

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

Probab=99.55  E-value=6.6e-15  Score=94.03  Aligned_cols=52  Identities=27%  Similarity=0.588  Sum_probs=46.8

Q ss_pred             CCCCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +..++++.|+||++.+.+|+.+ +|||+||..|+.+|++...     .||.||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~~   62 (72)
T 2djb_A           10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSN-----RCPKCNIVVHQ   62 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCS-----SCTTTCCCCCS
T ss_pred             hhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCC-----cCCCcCcccCc
Confidence            4567889999999999999997 8999999999999998754     99999999864

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

Probab=99.55  E-value=3.2e-15  Score=93.90  Aligned_cols=52  Identities=27%  Similarity=0.618  Sum_probs=45.7

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.|+||++.+.+|+.++|||+||..|+.+|++...    ..||.||+++.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~   61 (66)
T 2ecy_A           10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSS----PKCTACQESIV   61 (66)
T ss_dssp             CSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSS----CCCTTTCCCCC
T ss_pred             hcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCc----CCCCCCCcCCC
Confidence            46688899999999999999999999999999999996332    38999999874

>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=99.54  E-value=1e-14  Score=99.01  Aligned_cols=50  Identities=12%  Similarity=0.064  Sum_probs=45.2

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++++.||||++.+.+||.++|||+||..||.+||....     .||.||++++
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~-----~cP~~~~~l~   74 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSP-----TDPFNRQTLT   74 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCS-----BCSSSCCBCC
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCC-----CCCCCCCCCC
Confidence            4578899999999999999999999999999999998533     9999999884

>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=5.9e-15  Score=104.02  Aligned_cols=49  Identities=22%  Similarity=0.518  Sum_probs=43.6

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||++.+.+|+.++|||+||..|+.+|+....    ..||.||+++.
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~   98 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQV----FSCPACRYDLG   98 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTC----CBCTTTCCBCC
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCc----CCCCCCCccCC
Confidence            45688999999999999999999999999999998543    39999999884

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

Probab=99.53  E-value=5.1e-15  Score=95.10  Aligned_cols=52  Identities=19%  Similarity=0.521  Sum_probs=46.0

Q ss_pred             CCCCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      +..++++.|+||++.+.+|+.++ |||+||..|+.+|++...   ...||.||+++
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~---~~~CP~Cr~~~   62 (74)
T 2yur_A           10 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESD---EHTCPTCHQND   62 (74)
T ss_dssp             CCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSS---SSCCSSSCCSS
T ss_pred             ccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcC---CCcCCCCCCcC
Confidence            45678899999999999999999 999999999999998753   23899999975

>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=99.53  E-value=1.8e-14  Score=97.47  Aligned_cols=50  Identities=12%  Similarity=-0.081  Sum_probs=45.5

Q ss_pred             CCCCCcccccccccccCcEEccCC-CcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~-H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++++.||||++++.+||.++|| |+||..||.+||....     .||.||+++.
T Consensus        18 ~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~-----~cP~~~~~l~   68 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQ-----TDPFNRSPLT   68 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSC-----BCTTTCSBCC
T ss_pred             cCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCC-----CCCCCCCCCC
Confidence            457889999999999999999999 9999999999998643     9999999884

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

Probab=99.51  E-value=1.2e-14  Score=92.91  Aligned_cols=54  Identities=24%  Similarity=0.670  Sum_probs=46.0

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.|+||++.+.+|+.++|||.||..|+.+|++...  +...||.||+++.
T Consensus        15 ~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC--GFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSC--SCCCCSSSCCCCC
T ss_pred             HhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCC--CCCCCCCCCCcCC
Confidence            35578899999999999999999999999999999987422  2349999999884

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

Probab=99.51  E-value=1.5e-14  Score=94.46  Aligned_cols=50  Identities=24%  Similarity=0.674  Sum_probs=45.0

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++.+.|+||++.+.+|+.++|||+||..|+.+|++...     .||.||+++.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~   60 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATP-----RCYICDQPTG   60 (81)
T ss_dssp             CCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCS-----BCSSSCCBCC
T ss_pred             cCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCC-----cCCCcCcccc
Confidence            3456789999999999999999999999999999998754     9999999884

>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=99.51  E-value=1.2e-14  Score=98.73  Aligned_cols=49  Identities=22%  Similarity=0.484  Sum_probs=44.4

Q ss_pred             CCCcccccccccccCcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||++.+.+|+. ++|||+||..||.+|+....    ..||.||.++.
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~----~~CP~Cr~~~~   69 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR----AQCPHCRAPLQ   69 (100)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTC----SBCTTTCCBCC
T ss_pred             CCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCc----CCCCCCCCcCC
Confidence            467899999999999999 99999999999999999863    29999999884

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

Probab=99.50  E-value=4.7e-15  Score=106.50  Aligned_cols=48  Identities=31%  Similarity=0.704  Sum_probs=43.5

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||.+.+.+|+.++|||+||..|+.+|+....     .||.||+++.
T Consensus        51 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   98 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKI-----ECPICRKDIK   98 (138)
T ss_dssp             HHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCS-----BCTTTCCBCC
T ss_pred             cccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCC-----cCCCCCCcCC
Confidence            35678999999999999999999999999999998755     8999999884

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

Probab=99.49  E-value=3.8e-14  Score=88.05  Aligned_cols=49  Identities=27%  Similarity=0.703  Sum_probs=42.2

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      +..++++.|+||++.+.+|+.++|||+||..|+.+|++...  +...||.|
T Consensus        15 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSC--GFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCS--SCCCCSCC
T ss_pred             HhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCC--CCCcCcCC
Confidence            35578899999999999999999999999999999998632  23489998

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

Probab=99.48  E-value=1.5e-14  Score=92.04  Aligned_cols=51  Identities=29%  Similarity=0.570  Sum_probs=45.2

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ...++..|+||++.+.+|+.++|||.||..|+.+|+....     .||+||+++..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~~   61 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGK-----RCALCRQEIPE   61 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSS-----BCSSSCCBCCH
T ss_pred             cCCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCC-----cCcCcCchhCH
Confidence            3467789999999999999999999999999999887654     99999998853

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

Probab=99.48  E-value=3.7e-14  Score=92.97  Aligned_cols=56  Identities=30%  Similarity=0.650  Sum_probs=47.3

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC-CCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.|+||++.+.+|+.++|||+||..|+.+|+.... ..+...||.||+++.
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP   70 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCC
T ss_pred             HhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCC
Confidence            34578899999999999999999999999999999998842 112359999999885

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

Probab=99.48  E-value=5.8e-15  Score=95.75  Aligned_cols=56  Identities=20%  Similarity=0.489  Sum_probs=47.3

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC--CCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS--TLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~--~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.|+||++.+.+|+.++|||+||..|+.+|++...  ..+...||.||+++.
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~   64 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYS   64 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCC
T ss_pred             hhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCC
Confidence            45678899999999999999999999999999999987631  112459999999885

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

Probab=99.47  E-value=2.1e-14  Score=91.16  Aligned_cols=50  Identities=26%  Similarity=0.783  Sum_probs=45.3

Q ss_pred             CCCCCcccccccccccCc-------EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~p-------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .++++..|+||++.+.+|       +.++|||.||..|+.+|++.+.     .||.||+++.
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   62 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-----TCPTCRKKIN   62 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCS-----BCTTTCCBCC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCC-----CCCCCCCccC
Confidence            467889999999999888       8899999999999999998765     9999999885

>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=4.4e-14  Score=102.80  Aligned_cols=49  Identities=22%  Similarity=0.617  Sum_probs=43.8

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||++.+.+|+.++|||+||..|+.+|+....    ..||.||.++.
T Consensus        76 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~  124 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQV----FSCPACRHDLG  124 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTC----CBCTTTCCBCC
T ss_pred             ccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCC----CcCCCCCccCC
Confidence            35689999999999999999999999999999998643    38999999884

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

Probab=99.46  E-value=3.6e-14  Score=89.51  Aligned_cols=50  Identities=26%  Similarity=0.783  Sum_probs=44.6

Q ss_pred             CCCCCcccccccccccCc-------EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~p-------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..+++..|+||++.+.+|       +.++|||.||..|+.+|+....     .||+||++++
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   67 (69)
T 2ea6_A           11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-----TCPTCRKKIN   67 (69)
T ss_dssp             CTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCS-----SCTTTCCCCC
T ss_pred             CCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCC-----CCCCCCCccC
Confidence            457789999999999887       8899999999999999998855     9999999874

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

Probab=99.46  E-value=4.4e-14  Score=92.61  Aligned_cols=56  Identities=21%  Similarity=0.539  Sum_probs=46.8

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC-CCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.|+||.+.+.+|+.++|||+||..|+.+|+..+. ..+...||.||+.+.
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQ   70 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSC
T ss_pred             HHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccC
Confidence            45578899999999999999999999999999999998721 012349999999886

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

Probab=99.46  E-value=6.4e-14  Score=92.58  Aligned_cols=54  Identities=22%  Similarity=0.591  Sum_probs=46.7

Q ss_pred             CCCCCCcccccccccccC----cEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..++.+.|+||++.+.+    |+.++|||+||..|+.+|++...  +...||.||+++.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI--NGVRCPFCSKITR   67 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCS--SCBCCTTTCCCBC
T ss_pred             hhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCC--CCcCCCCCCCccc
Confidence            456788999999999998    99999999999999999998762  2349999999874

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

Probab=99.45  E-value=8.6e-14  Score=87.65  Aligned_cols=53  Identities=23%  Similarity=0.563  Sum_probs=45.7

Q ss_pred             CCCcccccccccccCc-EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826            5 PCGDVCSVCHGNFNVP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~p-v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~   62 (187)
                      +++..|+||++.+.+| +.++|||.||..|+.+|++.+.     .||.||+++......
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~~~~~   56 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-----TCPLCKVPVESVVHT   56 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSC-----STTTTCCCCCCEECC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcC-----cCcCCChhhHhhhhc
Confidence            5677999999999997 7889999999999999998765     999999999765443

>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=99.44  E-value=5.4e-14  Score=96.73  Aligned_cols=50  Identities=26%  Similarity=0.642  Sum_probs=45.1

Q ss_pred             CCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .++++.|+||.+.+.+|+.+ +|||+||..|+.+|+..+.     .||.||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~~   62 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSK-----YCPICDVQVHK   62 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCS-----BCTTTCCBSCS
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCC-----cCcCCCccccc
Confidence            36789999999999999998 9999999999999998754     99999998854

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

Probab=99.43  E-value=8.2e-14  Score=94.30  Aligned_cols=48  Identities=29%  Similarity=0.647  Sum_probs=43.1

Q ss_pred             CCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||.+.+.+|+.+ +|||+||..|+.+|+..+.     .||.||+++.
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~   68 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT-----QCPTCCVTVT   68 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCC-----BCTTTCCBCC
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCC-----CCCCCCCcCC
Confidence            3568999999999999998 8999999999999998654     9999999884

>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=99.42  E-value=2.2e-13  Score=86.09  Aligned_cols=54  Identities=22%  Similarity=0.551  Sum_probs=45.0

Q ss_pred             CCCCccccccccccc---CcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826            4 PPCGDVCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~---~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~   62 (187)
                      .+++..|+||++.+.   .++.++|||.||..|+.+|+....     .||+||+++....+.
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~~~~~   67 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK-----KCPICRVDIEAQLPS   67 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCS-----BCTTTCSBSCSCCCC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCC-----CCcCcCccccCcCCC
Confidence            356689999999774   467889999999999999998865     899999998765553

>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=99.42  E-value=8.5e-15  Score=101.87  Aligned_cols=51  Identities=27%  Similarity=0.669  Sum_probs=44.5

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .++++.|+||++.+.+|+.++|||+||..|+.+|+..+.    ..||.||+++..
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~   62 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKAS----LCCPFCRRRVSS   62 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTT----SBCTTTCCBCHH
T ss_pred             CCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCc----CCCCCCCcccCc
Confidence            356789999999999999999999999999999886533    399999998853

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

Probab=99.42  E-value=1.8e-13  Score=94.50  Aligned_cols=52  Identities=27%  Similarity=0.691  Sum_probs=44.9

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ++.+.|+||.+.+.+|+.++|||+||..|+.+|+..+.  +...||.||+++..
T Consensus        19 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK--GPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSS--SSCCCTTTSCCCCT
T ss_pred             cCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCC--CCCCCcCCCCcCCH
Confidence            35679999999999999999999999999999998653  23589999998863

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

Probab=99.42  E-value=9.4e-14  Score=86.80  Aligned_cols=48  Identities=25%  Similarity=0.716  Sum_probs=41.4

Q ss_pred             CCcccccccc-cccCc----EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHG-NFNVP----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~-~~~~p----v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++..|+||++ .+.+|    +.++|||+||..|+.+|+..+.    ..||.||+++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~   54 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA----GNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS----SSCTTTCCCCS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCC----CcCCCCCCccc
Confidence            4678999999 88888    5689999999999999987643    38999999884

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

Probab=99.42  E-value=1.3e-13  Score=84.08  Aligned_cols=49  Identities=33%  Similarity=0.796  Sum_probs=41.7

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      +..+++..|+||++.+.+|+.++|||+||..|+.+|+....  +...||.|
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLE--RDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSC--CSCCCSCC
T ss_pred             hccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcC--CCCCCCCC
Confidence            45678899999999999999999999999999999976522  23489988

>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=99.42  E-value=2.6e-13  Score=91.10  Aligned_cols=53  Identities=17%  Similarity=0.484  Sum_probs=44.4

Q ss_pred             CCCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhC-CCCCCCCCcc--cccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHG-STLQACRCPL--CRRR   55 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~-~~~~~~~Cp~--Cr~~   55 (187)
                      ..++++.||||++.+.+||.++ |||+||..||.+||... ...+...||.  |+..
T Consensus         3 ~~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            3 SGSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CCCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            3578899999999999999996 99999999999999874 1123459999  9865

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

Probab=99.41  E-value=8.9e-14  Score=86.36  Aligned_cols=47  Identities=26%  Similarity=0.784  Sum_probs=42.4

Q ss_pred             CCcccccccccccCc-------EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~~p-------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++..|+||++.+.+|       +.++|||.||..|+.+|++.+.     .||.||+++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-----TCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCS-----BCTTTCCBCT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCC-----CCCCCCccCC
Confidence            568999999999887       8899999999999999998855     9999999884

>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=99.40  E-value=1.5e-13  Score=96.01  Aligned_cols=52  Identities=21%  Similarity=0.518  Sum_probs=46.3

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..++++.|+||++.+.+|+.++|||+||..|+.+|+..+..    .||.||.++.
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~----~CP~Cr~~~~   64 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH----KCPVDNEILL   64 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCS----BCTTTCCBCC
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCC----CCCCCCCCcC
Confidence            345778999999999999999999999999999999987643    8999999884

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

Probab=99.40  E-value=3e-13  Score=86.61  Aligned_cols=54  Identities=24%  Similarity=0.558  Sum_probs=45.2

Q ss_pred             CCCCCcccccccccccCcEEc---cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccC
Q 029826            3 GPPCGDVCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP   61 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~---~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~   61 (187)
                      ..+++..|+||++.+.++..+   +|+|.||..|+.+|++...     .||+||+++..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~-----~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRK-----VCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCS-----BCTTTCCBCSSCCS
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCC-----cCCCcCcccccccc
Confidence            456788999999998776544   9999999999999998865     99999999865443

>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=99.39  E-value=2.5e-13  Score=81.88  Aligned_cols=49  Identities=22%  Similarity=0.591  Sum_probs=42.7

Q ss_pred             CCCCcccccccccccC----cEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++..|+||++.+.+    ++.++|||.||..|+.+|++...     .||+||+++.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   54 (55)
T 2ecm_A            2 SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGY-----RCPLCSGPSS   54 (55)
T ss_dssp             CSCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTC-----CCTTSCCSSC
T ss_pred             CCCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCC-----cCCCCCCcCC
Confidence            3567899999998865    77889999999999999999874     9999998773

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

Probab=99.39  E-value=2e-13  Score=82.37  Aligned_cols=48  Identities=29%  Similarity=0.615  Sum_probs=42.0

Q ss_pred             CCCCcccccccccccC---cEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            4 PPCGDVCSVCHGNFNV---PCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~---pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .+++..|+||++.+.+   ++.++ |||.||..|+.+|++.+.     .||+||+++
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-----~CP~Cr~~~   53 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS-----TCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCC-----SCSSSCCCS
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCC-----cCcCCCCEe
Confidence            4678899999999877   77887 999999999999987654     999999876

>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=99.38  E-value=7.8e-14  Score=100.43  Aligned_cols=50  Identities=26%  Similarity=0.650  Sum_probs=44.8

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ..++++.|+||++.+.+|++++|||+||..|+.+|+..+.    ..||.||.++
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~----~~CP~Cr~~~   76 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGP----QNCAACVHEG   76 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSC----EECHHHHHTT
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCC----CCCCCCCCcc
Confidence            4578899999999999999999999999999999997543    3899999976

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

Probab=99.38  E-value=1.4e-13  Score=87.22  Aligned_cols=51  Identities=27%  Similarity=0.578  Sum_probs=44.5

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +..+++..|+||++.+.+ +.++|||.||..|+.+|+....     .||.||+++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~   60 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRHR-----NCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCCS-----SCHHHHHCTTC
T ss_pred             hcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCcC-----cCCCcCCcccC
Confidence            456788999999999998 9999999999999999887543     99999998853

>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=99.37  E-value=5.2e-13  Score=105.81  Aligned_cols=50  Identities=14%  Similarity=0.062  Sum_probs=45.0

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .++.+.||||.+.+.+||+++|||+||..||.+|+.....    .||.||++++
T Consensus       205 ~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~----~cP~~~~~~~  254 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGH----FNPVTRSPLT  254 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCS----SCTTTCCCCC
T ss_pred             CCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCC----CCcCCCCCCc
Confidence            4678999999999999999999999999999999987542    5999999884

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

Probab=99.36  E-value=3.6e-13  Score=87.11  Aligned_cols=51  Identities=29%  Similarity=0.702  Sum_probs=43.1

Q ss_pred             CCCCCcccccccccccCc---EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~p---v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ...++..|+||++.+.++   +.++|||.||..|+.+|++...     .||+||+++..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~   64 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHD-----SCPVCRKSLTG   64 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTC-----SCTTTCCCCCC
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCC-----cCcCcCCccCC
Confidence            346678999999988765   4569999999999999997654     99999999864

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

Probab=99.36  E-value=4.1e-13  Score=86.25  Aligned_cols=49  Identities=24%  Similarity=0.571  Sum_probs=43.0

Q ss_pred             CCCCcccccccccccCc---EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~p---v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+++..|+||++.+..+   +.++|+|.||..|+.+|++...     .||+||+++.
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~-----~CP~Cr~~~~   71 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANR-----TCPICRADSG   71 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCS-----SCTTTCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCC-----cCcCcCCcCC
Confidence            35678999999998877   7789999999999999998865     9999999874

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

Probab=99.35  E-value=1e-12  Score=97.73  Aligned_cols=51  Identities=14%  Similarity=0.047  Sum_probs=45.8

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++.+.||||++.+.+||+++|||+||..||.+||.....    .||.|+++++
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~----tcP~t~~~l~  152 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGH----FDPVTRSPLT  152 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCS----BCTTTCCBCC
T ss_pred             CCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCC----CCCCCcCCCC
Confidence            45788999999999999999999999999999999987531    7999999884

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

Probab=99.35  E-value=1.1e-12  Score=85.01  Aligned_cols=52  Identities=17%  Similarity=0.346  Sum_probs=42.0

Q ss_pred             CCCCCccccccccccc--CcEEcc--CCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            3 GPPCGDVCSVCHGNFN--VPCQAN--CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~--~pv~~~--C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ..+++..||||++.+.  +++..+  |||+||..|+.++|....    ..||.||+++..
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~----~~CP~CR~~~~~   62 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDEN----GLCPACRKPYPE   62 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSC----SBCTTTCCBCSS
T ss_pred             ccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCC----CCCCCCCCccCC
Confidence            4578899999999774  455555  999999999999986533    399999999864

>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=99.35  E-value=3.3e-13  Score=99.60  Aligned_cols=49  Identities=27%  Similarity=0.799  Sum_probs=43.0

Q ss_pred             CCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||.+.+.+|+.+ +|||+||..|+.+|+....    ..||.||.++.
T Consensus        52 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~  101 (165)
T 2ckl_B           52 HSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGN----KECPTCRKKLV  101 (165)
T ss_dssp             HHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTC----CBCTTTCCBCC
T ss_pred             CCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCc----CCCCCCCCcCC
Confidence            3567999999999999998 8999999999999998633    28999999884

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

Probab=99.34  E-value=1.3e-13  Score=83.67  Aligned_cols=48  Identities=23%  Similarity=0.547  Sum_probs=41.4

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      |..++++.|+||++.+.+|+.++|||+||..|+.+   .     ...||.||+++.
T Consensus         1 eee~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~---~-----~~~CP~Cr~~~~   48 (56)
T 1bor_A            1 EEEFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA---S-----GMQCPICQAPWP   48 (56)
T ss_dssp             CCSCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS---S-----SSSCSSCCSSSS
T ss_pred             CCcccCCCceEeCCccCCeEEcCCCCcccHHHHcc---C-----CCCCCcCCcEee
Confidence            34578899999999999999999999999999876   1     238999999884

>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=99.34  E-value=5.1e-13  Score=92.93  Aligned_cols=50  Identities=26%  Similarity=0.601  Sum_probs=44.2

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ++++.|+||.+.+.+|+.++|||+||..|+.+|+.....    .||.||+++..
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~----~CP~Cr~~~~~   70 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGS----YCPSCRYPCFP   70 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCS----BCTTTCCBCCG
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcC----cCCCCCCCCCH
Confidence            356899999999999999999999999999999987432    89999998853

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

Probab=99.33  E-value=6.9e-13  Score=88.44  Aligned_cols=48  Identities=21%  Similarity=0.650  Sum_probs=42.1

Q ss_pred             CCCcccccccccccC---cEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~---pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +++..|+||++.+..   ++.++|||.||..|+.+|++...     .||+||+++.
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~-----~CP~Cr~~~~   88 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSG-----TCPVCRCMFP   88 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTC-----BCTTTCCBSS
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCC-----cCcCcCccCC
Confidence            567889999998876   77899999999999999997654     9999999874

>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=99.30  E-value=2.9e-12  Score=88.75  Aligned_cols=54  Identities=22%  Similarity=0.518  Sum_probs=43.0

Q ss_pred             CCcccccccccccCcE------------------EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            6 CGDVCSVCHGNFNVPC------------------QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv------------------~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      ++..|+||++.+.+|.                  .++|+|.||..||.+|+..........||+||..+...
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            4569999999987664                  67899999999999999654322345999999988654

>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=99.29  E-value=1.6e-12  Score=96.27  Aligned_cols=53  Identities=21%  Similarity=0.491  Sum_probs=47.0

Q ss_pred             CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +..++++.|+||++.+.+|+.++|||+||..|+.+|+..+..    .||.||.+++.
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~----~CP~Cr~~~~~   65 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH----KCPVDNEILLE   65 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCS----BCTTTCCBCCG
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCC----CCCCCccCcch
Confidence            456788999999999999999999999999999999987542    99999998853

>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=99.28  E-value=9.4e-13  Score=91.78  Aligned_cols=46  Identities=28%  Similarity=0.605  Sum_probs=41.8

Q ss_pred             CCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++++.|+||++.+.+|+.+ +|||+||..|+.+|+.  .     .||.||.++.
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~--~-----~CP~Cr~~~~   66 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG--T-----GCPVCYTPAW   66 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT--T-----BCSSSCCBCS
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc--C-----CCcCCCCcCc
Confidence            5678999999999999999 8999999999999887  2     8999999873

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

Probab=99.27  E-value=1.4e-12  Score=92.23  Aligned_cols=50  Identities=24%  Similarity=0.716  Sum_probs=44.6

Q ss_pred             CCCCcccccccccccCc-------EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~p-------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ..+++.|+||++.+.+|       +.++|||+||..|+.+|++.+.     .||.||+.+..
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~   60 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-----TCPTCRKKINH   60 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCS-----BCTTTCCBCTT
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCC-----CCCCCCCcCcc
Confidence            35788999999999998       9999999999999999998765     99999999863

>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=99.23  E-value=3.1e-12  Score=79.69  Aligned_cols=52  Identities=23%  Similarity=0.622  Sum_probs=44.8

Q ss_pred             CCCCcccccccccccCcEEc--cCCCc-ccHHHHHHHHHhCCCCCCCCCccccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQA--NCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~--~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~   60 (187)
                      .+++..|+||++...+++.+  +|||. ||..|+.++++.+.     .||+||+++....
T Consensus         5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~-----~CPiCR~~i~~~i   59 (64)
T 2vje_A            5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNK-----PCPVCRQPIQMIV   59 (64)
T ss_dssp             CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTC-----CCTTTCCCCCEEE
T ss_pred             CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCC-----cCCCcCcchhceE
Confidence            35678999999999999977  99999 89999999987654     8999999986543

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

Probab=99.22  E-value=2e-12  Score=82.93  Aligned_cols=47  Identities=26%  Similarity=0.610  Sum_probs=41.1

Q ss_pred             CCCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCccccccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~   60 (187)
                      +++..|+||++.+.+|+.++|||. ||..|+.+|    .     .||.||+++....
T Consensus        22 ~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~----~-----~CP~Cr~~i~~~~   69 (74)
T 4ic3_A           22 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----D-----KCPMCYTVITFKQ   69 (74)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC----S-----BCTTTCCBCSEEE
T ss_pred             ccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC----c-----cCCCcCcCccCcE
Confidence            356789999999999999999999 999999876    2     9999999986543

>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=99.21  E-value=4e-12  Score=78.95  Aligned_cols=52  Identities=25%  Similarity=0.526  Sum_probs=44.6

Q ss_pred             CCCCcccccccccccCcEEc--cCCCc-ccHHHHHHHHHhCCCCCCCCCccccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQA--NCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~--~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~   60 (187)
                      .+.+..|+||++...+++.+  +|||. ||..|+.++++.+.     .||+||+++....
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~-----~CPiCR~~i~~~i   58 (63)
T 2vje_B            4 QNLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGA-----SCPICKKEIQLVI   58 (63)
T ss_dssp             GGGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTC-----BCTTTCCBCCEEE
T ss_pred             CCcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCC-----cCCCcCchhhceE
Confidence            34567899999999999887  99998 99999999987654     9999999986544

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

Probab=99.18  E-value=1.5e-11  Score=80.19  Aligned_cols=48  Identities=27%  Similarity=0.598  Sum_probs=40.0

Q ss_pred             CCCcccccccccccC--------------cEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNV--------------PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~--------------pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .++..|+||++.+.+              ++.+ +|||.|+..||.+|++.+.     .||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-----~CP~CR~~~~   75 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNN-----RCPLCQQDWV   75 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCC-----BCTTTCCBCC
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCC-----CCCCcCCCcc
Confidence            356789999998866              4455 4999999999999998765     9999999873

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=99.16  E-value=1.5e-11  Score=95.94  Aligned_cols=53  Identities=21%  Similarity=0.435  Sum_probs=45.3

Q ss_pred             CCCCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcc--cccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPL--CRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~--Cr~~~~   57 (187)
                      +....++.||||++.+.+||+. .|||+||+.||.+||...   +...||.  |++.+.
T Consensus       176 ~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~---~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          176 EGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGY---TTRDCPQAACSQVVS  231 (267)
T ss_dssp             CSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTC---SCEECSGGGCSCEEC
T ss_pred             cCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhC---CCCCCCcccccCcCc
Confidence            3456789999999999999985 899999999999999863   2358999  999773

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

Probab=99.14  E-value=8.3e-12  Score=80.15  Aligned_cols=48  Identities=23%  Similarity=0.546  Sum_probs=40.3

Q ss_pred             CCCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCcccccccccccC
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP   61 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~   61 (187)
                      +++..|+||++.+.+|+.++|||. ||..|+.+    ..     .||.||+++.....
T Consensus        23 ~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~----~~-----~CP~Cr~~i~~~~~   71 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA----VD-----KCPMCYTVITFKQK   71 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH----CS-----BCTTTCCBCCCCCB
T ss_pred             CCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC----CC-----CCccCCceecCcEE
Confidence            346789999999999999999999 99999963    12     99999999865443

>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=99.14  E-value=2.4e-11  Score=100.10  Aligned_cols=49  Identities=24%  Similarity=0.556  Sum_probs=42.9

Q ss_pred             CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      +...|+||.+.+.+|+.++|||.||..|+.+|.....    ..||.||+++..
T Consensus       331 ~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~----~~CP~CR~~i~~  379 (389)
T 2y1n_A          331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG----QGCPFCRCEIKG  379 (389)
T ss_dssp             SSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTC----SBCTTTCCBCCE
T ss_pred             CCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCC----CCCCCCCCccCC
Confidence            3479999999999999999999999999999988433    299999999864

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

Probab=99.11  E-value=3.1e-11  Score=85.29  Aligned_cols=49  Identities=24%  Similarity=0.744  Sum_probs=43.9

Q ss_pred             CCCCcccccccccccCc-------EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~p-------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+++..|+||++.+.++       +.++|||.||..|+.+|++...     .||.||+++.
T Consensus        69 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~  124 (133)
T 4ap4_A           69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-----TCPTCRKKIN  124 (133)
T ss_dssp             SSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCS-----BCTTTCCBCC
T ss_pred             CCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCC-----CCCCCCCcCC
Confidence            36778999999999887       8899999999999999998865     9999999884

>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=99.05  E-value=1.4e-10  Score=79.25  Aligned_cols=46  Identities=26%  Similarity=0.467  Sum_probs=39.3

Q ss_pred             CCcccccccccccCc------------------EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            6 CGDVCSVCHGNFNVP------------------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         6 ~~~~C~iC~~~~~~p------------------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ++..|+||++.+.++                  +.++|+|.|+..||.+|+..+.     .||+||+++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-----~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-----VCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCS-----BCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCC-----cCcCCCCcc
Confidence            467899999988765                  3478999999999999998755     999999986

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

Probab=99.04  E-value=1.7e-10  Score=72.62  Aligned_cols=50  Identities=22%  Similarity=0.525  Sum_probs=42.6

Q ss_pred             CCCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCcccccccccccCCC
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPND   63 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~   63 (187)
                      +++..|+||++...+++.++|||. ||..|+..    ..     .||+||+++.......
T Consensus        13 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~----~~-----~CP~CR~~i~~~~~i~   63 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY----FQ-----QCPMCRQFVQESFALS   63 (68)
T ss_dssp             CCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH----CS-----SCTTTCCCCCCEECCC
T ss_pred             CCCCCCCCcCcCCCCEEEECCCChhhhHHHHhc----CC-----CCCCCCcchhceEEee
Confidence            457899999999999999999999 99999984    12     8999999997655544

>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=99.04  E-value=9.2e-11  Score=78.45  Aligned_cols=52  Identities=23%  Similarity=0.539  Sum_probs=42.2

Q ss_pred             CCCCcccccccccccCcEEc---cCCCcccHHHHHHHHHhCC---CCCCCCCcc--cccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGS---TLQACRCPL--CRRR   55 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~---~C~H~fC~~Ci~~~~~~~~---~~~~~~Cp~--Cr~~   55 (187)
                      ..+.++|+||++.+..|..+   +|||.||..|+.++|..+-   ....+.||.  |+..
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            2 SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CCSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            46788999999999888654   6999999999999998631   113469999  9987

>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=99.00  E-value=6.8e-11  Score=76.65  Aligned_cols=50  Identities=24%  Similarity=0.530  Sum_probs=42.2

Q ss_pred             CCCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCcccccccccccCCC
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPND   63 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~   63 (187)
                      +++..|+||++...+++.++|||. ||..|+.++    .     .||+||+++.......
T Consensus        16 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~----~-----~CP~Cr~~i~~~~~i~   66 (79)
T 2yho_A           16 KEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL----Q-----SCPVCRSRVEHVQHVY   66 (79)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC----S-----BCTTTCCBCCEEEECB
T ss_pred             CCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc----C-----cCCCCCchhhCeEEEE
Confidence            356789999999999999999999 999999753    1     8999999998754443

>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=98.93  E-value=5e-10  Score=68.87  Aligned_cols=46  Identities=9%  Similarity=0.131  Sum_probs=41.7

Q ss_pred             CcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+.||||++.+.+||.+ ++||+|+++||++|++...     .||..+++++
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~-----~cP~t~~~L~   49 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG-----NDPITNEPLS   49 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS-----BCTTTCCBCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCC-----CCcCCcCCCC
Confidence            47899999999999999 8999999999999998754     7999999885

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

Probab=98.82  E-value=4.5e-10  Score=77.91  Aligned_cols=46  Identities=28%  Similarity=0.546  Sum_probs=0.9

Q ss_pred             CCcccccccccccCcE------------------EccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            6 CGDVCSVCHGNFNVPC------------------QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv------------------~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      ++..|+||++.+.++.                  .++|+|.|+..||.+|+....     .||+||+++
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~-----~CP~Cr~~~  110 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-----VCPLDNREW  110 (117)
T ss_dssp             CC-------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCC-----cCCCCCCee
Confidence            4568999999887642                  247999999999999998865     999999986

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

Probab=98.72  E-value=1.5e-08  Score=65.55  Aligned_cols=53  Identities=23%  Similarity=0.612  Sum_probs=43.3

Q ss_pred             CCCCCcccccccccc--cCcEEccCC-----CcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            3 GPPCGDVCSVCHGNF--NVPCQANCS-----HWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~--~~pv~~~C~-----H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .+.++..|.||++.+  .++..++|+     |.|...|+.+|+..+.   ...||+||.++..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~---~~~CplCr~~~~~   70 (80)
T 2d8s_A           11 TPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSD---TRCCELCKYEFIM   70 (80)
T ss_dssp             CCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHC---CSBCSSSCCBCCC
T ss_pred             CCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCC---CCCCCCCCCeeec
Confidence            346678999999876  467888996     9999999999998753   2389999998853

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

Probab=98.45  E-value=2.8e-07  Score=58.54  Aligned_cols=52  Identities=19%  Similarity=0.497  Sum_probs=41.5

Q ss_pred             CCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ++....|.||.+.+..-..- .|+|.|-..|+.+|++....   ..||+||++...
T Consensus        12 ~~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~---~~CP~Cr~~w~~   64 (74)
T 2ct0_A           12 PDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAE---PRCPHCNDYWPH   64 (74)
T ss_dssp             SSSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSS---CCCTTTCSCCCS
T ss_pred             cCCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCC---CCCCCCcCcCCC
Confidence            35567899999988765544 69999999999999987531   289999988754

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

Probab=98.37  E-value=2.4e-07  Score=61.48  Aligned_cols=46  Identities=26%  Similarity=0.611  Sum_probs=37.4

Q ss_pred             cccccccccc-CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            9 VCSVCHGNFN-VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         9 ~C~iC~~~~~-~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      -|++|.--+. ...+++|+|.||.+|+..|.+++..    .||.|+.++..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k----~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDK----MCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCC----BCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCC----CCcCcCCeeee
Confidence            4788876444 4678899999999999998876553    99999999974

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

Probab=98.13  E-value=6.2e-07  Score=72.43  Aligned_cols=54  Identities=17%  Similarity=0.354  Sum_probs=39.6

Q ss_pred             CCCcccccccccccC----cE----EccCCCcccHHHHHHHHHhCCCCC------CCCCccccccccc
Q 029826            5 PCGDVCSVCHGNFNV----PC----QANCSHWFCGNCIMLVWDHGSTLQ------ACRCPLCRRRITL   58 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~----pv----~~~C~H~fC~~Ci~~~~~~~~~~~------~~~Cp~Cr~~~~~   58 (187)
                      +...+|+||.+.+.+    |.    ...|+|.|...|+.+|++....+.      .-.||+||++++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            355689999997765    32    246999999999999998642110      1189999998853

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=98.09  E-value=3e-06  Score=51.54  Aligned_cols=53  Identities=17%  Similarity=0.328  Sum_probs=41.2

Q ss_pred             CCCCCCCcccccccccccCcEEccCC--C---cccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            1 MEGPPCGDVCSVCHGNFNVPCQANCS--H---WFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         1 ~~~~~~~~~C~iC~~~~~~pv~~~C~--H---~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      || .++...|.||++...++...||.  |   .|-..|+.+|+..+.   ...||+|+.++.
T Consensus         1 ~e-~~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~---~~~C~~C~~~~~   58 (60)
T 1vyx_A            1 ME-DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR---NTACQICGVVYN   58 (60)
T ss_dssp             CT-TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT---CSBCTTTCCBCC
T ss_pred             CC-CCCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCC---CCccCCCCCeee
Confidence            44 35667899999987777778855  4   789999999998643   239999998773

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=97.35  E-value=7.6e-05  Score=49.85  Aligned_cols=34  Identities=15%  Similarity=0.509  Sum_probs=29.0

Q ss_pred             CCccccccccc-ccCcEE--ccCCCcccHHHHHHHHH
Q 029826            6 CGDVCSVCHGN-FNVPCQ--ANCSHWFCGNCIMLVWD   39 (187)
Q Consensus         6 ~~~~C~iC~~~-~~~pv~--~~C~H~fC~~Ci~~~~~   39 (187)
                      ++..|++|.+. +.+|+.  +.|+|+||..|+..++.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHhc
Confidence            46899999975 678888  89999999999998554

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

Probab=96.58  E-value=0.003  Score=48.80  Aligned_cols=51  Identities=18%  Similarity=0.447  Sum_probs=40.8

Q ss_pred             CCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      .-..|.+|.++......-+ |+|.|-..|+..|++...   ...||.|+.+...-
T Consensus       179 ~i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~---~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA---EPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCS---SCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCC---CCCCCCCCCCCCCC
Confidence            4568999999988776654 999999999999997643   23999998876443

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=96.03  E-value=0.0097  Score=54.18  Aligned_cols=51  Identities=14%  Similarity=-0.032  Sum_probs=45.5

Q ss_pred             CCCCCCcccccccccccCcEEccCC-CcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~C~-H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..+++.+.|||-.+++.+||.++-| ++|=+.+|++|+....     +||.=|++++
T Consensus       886 ~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~~~-----tdP~Tr~~L~  937 (968)
T 3m62_A          886 GDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDS-----TDPFNRMPLK  937 (968)
T ss_dssp             CCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCC-----BCTTTCCBCC
T ss_pred             cCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhcCC-----CCCCCCCCCC
Confidence            3578899999999999999999998 6999999999998644     8999999885

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=95.64  E-value=0.0062  Score=38.47  Aligned_cols=49  Identities=22%  Similarity=0.434  Sum_probs=37.3

Q ss_pred             CCCCcccccccccccCcEEccC----CCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANC----SHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C----~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      +...+.|.+|.+.+.+-....|    .|.||..|-+.+++.+......-||.-
T Consensus        12 ~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q~~~~EvyCPSG   64 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSG   64 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTTS
T ss_pred             CCCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhcCCCCcEECCCC
Confidence            3456899999999887654444    699999999999988665556667653

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=91.32  E-value=0.071  Score=43.53  Aligned_cols=48  Identities=19%  Similarity=0.515  Sum_probs=35.3

Q ss_pred             CcccccccccccCcEEcc-CCCcccHHH--HHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNVPCQAN-CSHWFCGNC--IMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~-C~H~fC~~C--i~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+.||+-...+..|+... |.|.-|.+-  +..+..+   ...+.||.|.+.+.
T Consensus       249 SL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~---~~~W~CPIC~k~~~  299 (371)
T 3i2d_A          249 SLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQ---IPTWQCPVCQIDIA  299 (371)
T ss_dssp             ESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHH---SCCCBCTTTCCBCC
T ss_pred             eecCCCccccccccCcCCcCCCcceECHHHHHHHhhc---CCceeCCCCCcccC
Confidence            478999999999999765 999977653  3333333   34569999998774

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=90.56  E-value=0.092  Score=42.71  Aligned_cols=48  Identities=21%  Similarity=0.627  Sum_probs=35.1

Q ss_pred             CcccccccccccCcEEcc-CCCcccHH--HHHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNVPCQAN-CSHWFCGN--CIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~-C~H~fC~~--Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+.||+-...+..|+... |.|.-|.+  -+.++..+   ...+.||.|.+.+.
T Consensus       215 SL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~---~~~W~CPiC~k~~~  265 (360)
T 4fo9_A          215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEK---KPTWICPVCDKKAA  265 (360)
T ss_dssp             ESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHH---SCCCBCTTTCSBCC
T ss_pred             eeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhh---CCCeECCCCCcccC
Confidence            468999999999999765 99996654  33333333   33569999998874

>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=88.92  E-value=0.9  Score=28.91  Aligned_cols=59  Identities=22%  Similarity=0.398  Sum_probs=37.8

Q ss_pred             CCCCCCcccccccccccCcEEcc---CCCcccHHHHHHHHHhC-----------CCCCCCCCcccccccccccCC
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQAN---CSHWFCGNCIMLVWDHG-----------STLQACRCPLCRRRITLLIPN   62 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~---C~H~fC~~Ci~~~~~~~-----------~~~~~~~Cp~Cr~~~~~~~~~   62 (187)
                      |++..+..|.||...- .-...+   |+-.|-..|+++.-.-+           ......+|+.| ..++.++..
T Consensus        10 e~~~~D~~C~VC~~~t-~~~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~C-enL~lLLtE   82 (89)
T 1wil_A           10 EPVVNDEMCDVCEVWT-AESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYC-DNINLLLTE   82 (89)
T ss_dssp             CCCCCSCCCTTTCCCC-SSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTT-CCCCSSSCC
T ss_pred             cCCCCCcccCcccccc-ccceeccccccccccHhhcccccccccHHHHHHHHccCCCCCcccccc-chhhhhcch
Confidence            4667889999998532 333443   88899999998852111           11235699999 456555443

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=84.25  E-value=0.74  Score=27.89  Aligned_cols=51  Identities=20%  Similarity=0.342  Sum_probs=34.7

Q ss_pred             CCCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~   55 (187)
                      .+..+..|.+|.+-- +-+.- .|...|...|+..-+.... .+...||.|+..
T Consensus         8 ~~~~~~~C~vC~~~~-~ll~Cd~C~~~~H~~Cl~P~l~~~P-~g~W~C~~C~~~   59 (66)
T 2lri_C            8 NLAPGARCGVCGDGT-DVLRCTHCAAAFHWRCHFPAGTSRP-GTGLRCRSCSGD   59 (66)
T ss_dssp             CCCTTCCCTTTSCCT-TCEECSSSCCEECHHHHCTTTCCCC-SSSCCCTTTTTC
T ss_pred             CCCCCCCcCCCCCCC-eEEECCCCCCceecccCCCccCcCC-CCCEECccccCC
Confidence            456667899998632 21221 4889999999976554433 466899999654

>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=83.62  E-value=2.3  Score=27.27  Aligned_cols=49  Identities=22%  Similarity=0.584  Sum_probs=34.2

Q ss_pred             CCccccccccccc----CcEEc---cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            6 CGDVCSVCHGNFN----VPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         6 ~~~~C~iC~~~~~----~pv~~---~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      ....|.||.+..-    --+..   .|+-..|+.|.+--.+..+.    .||.|+.+...
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q----~CpqCktrYkr   70 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQ----NCPQCKTRYKR   70 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCS----SCTTTCCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCc----cccccCCcccc
Confidence            3468999998642    11222   47888999999765555443    99999988863

>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=83.20  E-value=1.7  Score=29.99  Aligned_cols=50  Identities=22%  Similarity=0.506  Sum_probs=31.9

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHH-----HHh-CCCCCCCCCccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLV-----WDH-GSTLQACRCPLCRR   54 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~-----~~~-~~~~~~~~Cp~Cr~   54 (187)
                      ..+..|.+|.+--.-..--.|-..||..|+.+-     +.. ....+...|+.|+.
T Consensus        55 g~~~~C~vC~dGG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           55 GMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             SCBSSCTTTCCCSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCcCeecCCCCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            345569999863221111269999999999864     222 12346679999954

---

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	187
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-07
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-06
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	6e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	7e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	1e-04
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-04
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.002
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	0.003

>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 = 45.0 bits (106), Expect = 2e-07
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 4/50 (8%)

Query: 8  DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
           +C +C  N        C H  C +C+    +         CP CR  I 
Sbjct: 24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQ----GCPFCRCEIK 69

>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 = 43.8 bits (103), Expect = 3e-07
 Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 6/60 (10%)

Query: 7  GDVCSVCHGNF-NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDS 65
           + C +C  +  N      C H FC  CI        T     CPLC+  +  ++   +S
Sbjct: 5  AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT-----CPLCKVPVESVVHTIES 59

>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 = 43.9 bits (103), Expect = 6e-07
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPN 62
          C +C      P    C H FC  C++ + +        +CPLC+  IT   L  +
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK--GPSQCPLCKNDITKRSLQES 76

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.6 bits (100), Expect = 1e-06
 Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C +C      P + +C H FC  CI+       +     CP CR    
Sbjct: 26 CQICEHILADPVETSCKHLFCRICILRCLKVMGS----YCPSCRYPCF 69

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (94), Expect = 4e-06
 Identities = 11/50 (22%), Positives = 15/50 (30%), Gaps = 8/50 (16%)

Query: 9  VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58
           C  C      P    C H  C  C+             +CP+C+    L
Sbjct: 8  RCQQCQAEAKCPKLLPCLHTLCSGCLE--------ASGMQCPICQAPWPL 49

>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 = 37.2 bits (86), Expect = 6e-05
 Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 9/56 (16%)

Query: 7  GDVCSVCHGNFNVPCQA----NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58
          G  C+VC        +A     C H F   C+ +     ST     CPLCR  + +
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST-----CPLCRLTVVV 55

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 37.8 bits (87), Expect = 7e-05
 Identities = 8/53 (15%), Positives = 12/53 (22%), Gaps = 2/53 (3%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN 62
          C +       P   +    +  + I    D G                 L PN
Sbjct: 11 CPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG--LTPN 61

>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 = 37.7 bits (86), Expect = 1e-04
 Identities = 10/44 (22%), Positives = 19/44 (43%)

Query: 19 VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN 62
          V     CSH F   C++ ++ +G+   + +CP C+         
Sbjct: 55 VGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGT 98

>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 = 35.9 bits (82), Expect = 3e-04
 Identities = 10/55 (18%), Positives = 13/55 (23%), Gaps = 5/55 (9%)

Query: 4  PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58
            C    +             C+H F  +CI              CPL  R    
Sbjct: 36 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQV-----CPLDNREWEF 85

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 33.3 bits (75), Expect = 0.002
 Identities = 6/56 (10%), Positives = 12/56 (21%), Gaps = 8/56 (14%)

Query: 8  DVCSVCHGNFN-----VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58
           VC +C+                      +C+          +   C +C      
Sbjct: 7  PVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTIS---RNTACQICGVVYNT 59

>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 = 32.8 bits (74), Expect = 0.003
 Identities = 11/55 (20%), Positives = 17/55 (30%), Gaps = 9/55 (16%)

Query: 8  DVCSVCHGNFNVPCQAN-----CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
            C  C                C H  C +C+ L++  G+      CP C   + 
Sbjct: 4  QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA----GNCPECGTPLR 54

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	187
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.6
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.58
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.58
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.55
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.52
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.46
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.45
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.43
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.4
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.39
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.39
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.35
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.25
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.07
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.91
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.7
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	96.09
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	91.98
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	88.77
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	83.24
d2epqa1	32	PATZ1 {Human (Homo sapiens) [TaxId: 9606]}	82.98
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	80.64

>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=99.60  E-value=5.6e-16  Score=99.59  Aligned_cols=51  Identities=14%  Similarity=0.062  Sum_probs=45.8

Q ss_pred             CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++++.||||++++.+|++++|||+||..||.+|+...+.    .||.||++++
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~----~cP~c~~~l~   53 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGH----FNPVTRSPLT   53 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCS----SCTTTCCCCC
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCc----cCCCcccccc
Confidence            45789999999999999999999999999999999987543    8999999874

>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=99.58  E-value=3.1e-16  Score=101.73  Aligned_cols=48  Identities=27%  Similarity=0.654  Sum_probs=43.2

Q ss_pred             CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +.+.|+||.+.+.+|++++|||+||..|+.+|++.+..    +||.||.+++
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~----~CP~Cr~p~~   69 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGS----YCPSCRYPCF   69 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCS----BCTTTCCBCC
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCC----cCcccCCCCC
Confidence            45789999999999999999999999999999986543    8999999874

>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=99.58  E-value=1.1e-15  Score=97.75  Aligned_cols=50  Identities=16%  Similarity=0.226  Sum_probs=45.3

Q ss_pred             CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .++++.||||++++.+||+++|||+||..|+.+|++....    .||.|+.+++
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~----~cP~~~~~l~   54 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHK----TCPKSQETLL   54 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCC----BCTTTCCBCS
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCC----CCCcccccCC
Confidence            5789999999999999999999999999999999986542    8999999874

>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=99.55  E-value=1.2e-15  Score=102.65  Aligned_cols=51  Identities=27%  Similarity=0.718  Sum_probs=44.4

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++.+.||||++.+.+|+.++|||+||..|+.+|++...  +...||.||.++.
T Consensus        19 ~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK--GPSQCPLCKNDIT   69 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSS--SSCCCTTTSCCCC
T ss_pred             ccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCC--CCCcCcCCCCcCC
Confidence            45689999999999999999999999999999998754  2348999999884

>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=99.52  E-value=5.5e-15  Score=91.91  Aligned_cols=52  Identities=23%  Similarity=0.574  Sum_probs=43.5

Q ss_pred             CCcccccccccccCcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826            6 CGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~   62 (187)
                      ...+|+||++.+.+++. ++|||+||..|+.+|++.+.     +||.||+++......
T Consensus         4 ~~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~-----~CP~CR~~i~~~~~~   56 (68)
T d1chca_           4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-----TCPLCKVPVESVVHT   56 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSC-----STTTTCCCCCCEECC
T ss_pred             CCCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCC-----cCCCCCcchHhhccc
Confidence            44579999999987755 78999999999999999865     999999998754443

>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=99.52  E-value=6.2e-15  Score=94.30  Aligned_cols=50  Identities=24%  Similarity=0.553  Sum_probs=43.4

Q ss_pred             CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      +...|+||++.+.+|+.++|||.||..|+.+|+..++.    .||+||+.++..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~----~CP~Cr~~i~~~   71 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQ----GCPFCRCEIKGT   71 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCC----SCTTTCCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcC----cCCCCCcCccCC
Confidence            34579999999999999999999999999999875442    899999999643

>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=99.46  E-value=6e-14  Score=93.22  Aligned_cols=50  Identities=12%  Similarity=-0.081  Sum_probs=44.4

Q ss_pred             CCCCCcccccccccccCcEEccCC-CcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            3 GPPCGDVCSVCHGNFNVPCQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         3 ~~~~~~~C~iC~~~~~~pv~~~C~-H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ..++++.||||++++.+||+++|+ |+||+.||.+|+....     .||.|+++++
T Consensus        18 ~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~-----~~P~~~~~l~   68 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQ-----TDPFNRSPLT   68 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSC-----BCTTTCSBCC
T ss_pred             CCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcC-----Cccccccccc
Confidence            567889999999999999999866 5899999999997755     8999999884

>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=99.45  E-value=1.4e-14  Score=86.56  Aligned_cols=45  Identities=9%  Similarity=0.132  Sum_probs=41.3

Q ss_pred             cccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            8 DVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         8 ~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +.|+||++.+.+|+.++ |||+||.+||.+|+++.+     .||.||++++
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~-----~CP~c~~~l~   46 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG-----NDPITNEPLS   46 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS-----BCTTTCCBCC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhcc-----CCCccCCcCC
Confidence            47999999999999884 999999999999999865     8999999885

>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=99.43  E-value=2.5e-14  Score=88.03  Aligned_cols=48  Identities=23%  Similarity=0.582  Sum_probs=38.8

Q ss_pred             CCccccccccccc-C----cEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            6 CGDVCSVCHGNFN-V----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         6 ~~~~C~iC~~~~~-~----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      |+..||||++.+. .    .+.++|||.||..|+.+|+...+.    .||.||++++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~----~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAG----NCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSS----SCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcC----CCCCCCcCcc
Confidence            5789999998642 2    256689999999999999976542    7999999874

>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=99.40  E-value=1.3e-14  Score=86.48  Aligned_cols=45  Identities=22%  Similarity=0.561  Sum_probs=38.6

Q ss_pred             CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      .+.++|+||++.+.+|+.++|||+||..|++++        ...||.||++++
T Consensus         4 ~~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~--------~~~CP~Cr~~~~   48 (56)
T d1bora_           4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS--------GMQCPICQAPWP   48 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS--------SSSCSSCCSSSS
T ss_pred             cCCCCCcccCcccCCCEEecCCCHHhHHHHHcC--------CCcCcCCCCccc
Confidence            355799999999999999999999999998642        128999999884

>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=99.39  E-value=3.5e-14  Score=94.27  Aligned_cols=46  Identities=28%  Similarity=0.592  Sum_probs=40.1

Q ss_pred             CCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++.+.|+||.+.+.+|+.+ +|||+||..|+.+|+..       +||.||.++.
T Consensus        20 ~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~-------~CP~Cr~~~~   66 (97)
T d1jm7b_          20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT-------GCPVCYTPAW   66 (97)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTT-------BCSSSCCBCS
T ss_pred             hhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhc-------cccccCCcCc
Confidence            5678999999999999975 79999999999998742       7999998773

>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=99.39  E-value=7.4e-14  Score=82.94  Aligned_cols=48  Identities=29%  Similarity=0.623  Sum_probs=40.2

Q ss_pred             CCCCcccccccccccC---cEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826            4 PPCGDVCSVCHGNFNV---PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (187)
Q Consensus         4 ~~~~~~C~iC~~~~~~---pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~   56 (187)
                      .+++.+|+||++.+.+   .+.+ +|+|.||..|+.+|++.+.     .||+||+++
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~-----~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS-----TCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCC-----SCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCC-----cCCCCCCEe
Confidence            4677889999998864   3444 5999999999999998755     899999876

>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=99.35  E-value=1.6e-13  Score=80.54  Aligned_cols=46  Identities=20%  Similarity=0.546  Sum_probs=37.6

Q ss_pred             cccccccccccC----cEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            8 DVCSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         8 ~~C~iC~~~~~~----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++||||++.+..    +..++|||.||..|+.+|+++++.    +||+||++++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~----~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENG----LCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCC----BCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCC----CCCccCCcCC
Confidence            579999998743    344589999999999999876543    8999999884

>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=99.25  E-value=5.1e-12  Score=85.95  Aligned_cols=53  Identities=23%  Similarity=0.526  Sum_probs=42.2

Q ss_pred             CCcccccccccccCc------------------EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826            6 CGDVCSVCHGNFNVP------------------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (187)
Q Consensus         6 ~~~~C~iC~~~~~~p------------------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~   58 (187)
                      .+..|+||++.+..+                  ..++|||.||..||.+|++.+...+..+||+||..+..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            355799999977542                  45789999999999999987654456689999987744

>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=99.07  E-value=4.4e-11  Score=77.55  Aligned_cols=46  Identities=26%  Similarity=0.470  Sum_probs=37.5

Q ss_pred             CcccccccccccC------------------cEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            7 GDVCSVCHGNFNV------------------PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         7 ~~~C~iC~~~~~~------------------pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      +..|+||++.+.+                  .+.++|||.|+..||.+|++.++     +||+||+++.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-----~CP~CR~~~~   84 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-----VCPLDNREWE   84 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCS-----BCSSSCSBCC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCC-----cCCCCCCccc
Confidence            3469999876643                  34568999999999999998865     9999999874

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.91  E-value=3.3e-10  Score=67.96  Aligned_cols=50  Identities=14%  Similarity=0.300  Sum_probs=40.6

Q ss_pred             CCCcccccccccccCcEEccC-----CCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANC-----SHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C-----~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~   57 (187)
                      ++...|+||++...++...+|     +|.|+..|+.+|+..+..   .+||+||++++
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~---~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRN---TACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTC---SBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCC---CCCcccCCeee
Confidence            566789999998887776655     599999999999976432   38999999874

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.70  E-value=5.7e-09  Score=67.98  Aligned_cols=51  Identities=24%  Similarity=0.452  Sum_probs=37.9

Q ss_pred             CCCcccccccccccC---cEEccCCCcccHHHHHHHHHhCC---CCCCCCCcccccc
Q 029826            5 PCGDVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWDHGS---TLQACRCPLCRRR   55 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~---pv~~~C~H~fC~~Ci~~~~~~~~---~~~~~~Cp~Cr~~   55 (187)
                      .....|+||++.+..   +..++|+|.||..|+..|++.+-   ....++||.|+.+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            456789999997743   45568999999999999997542   1234689987553

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.09  E-value=0.0015  Score=38.71  Aligned_cols=48  Identities=23%  Similarity=0.449  Sum_probs=37.1

Q ss_pred             CCCcccccccccccCcEEccC----CCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826            5 PCGDVCSVCHGNFNVPCQANC----SHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus         5 ~~~~~C~iC~~~~~~pv~~~C----~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      ...+.|.+|.+.+.+.....|    +|.||..|-+.+++.+...+..-||.-
T Consensus         6 ~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~q~~~~evyCPSG   57 (80)
T d2cs3a1           6 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSG   57 (80)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTTS
T ss_pred             CCceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHhcCCCCcEECCCC
Confidence            345899999999987654444    699999999999988766566667664

>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=91.98  E-value=0.11  Score=31.37  Aligned_cols=58  Identities=21%  Similarity=0.445  Sum_probs=37.8

Q ss_pred             CCCCCCcccccccccccCcEEcc---CCCcccHHHHHHHHHhCCC-----------CCCCCCcccccccccccC
Q 029826            2 EGPPCGDVCSVCHGNFNVPCQAN---CSHWFCGNCIMLVWDHGST-----------LQACRCPLCRRRITLLIP   61 (187)
Q Consensus         2 ~~~~~~~~C~iC~~~~~~pv~~~---C~H~fC~~Ci~~~~~~~~~-----------~~~~~Cp~Cr~~~~~~~~   61 (187)
                      |++..+..|+|| +.+..-...+   |+..|-..|+++.-..+..           ....+|+.|- .++.++.
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~-nl~~LLt   81 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCD-NINLLLT   81 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTC-CCCSSSC
T ss_pred             cCCCcCcccccc-CcccccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhc-chhhhhc
Confidence            467888999999 5555555555   7788999999886311110           1246999994 3544443

>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=88.77  E-value=0.71  Score=27.86  Aligned_cols=50  Identities=24%  Similarity=0.598  Sum_probs=34.7

Q ss_pred             CCccccccccccc----CcEEc---cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826            6 CGDVCSVCHGNFN----VPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (187)
Q Consensus         6 ~~~~C~iC~~~~~----~pv~~---~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~   59 (187)
                      ....|.||.+..-    --...   .|+-..|+.|.+--.+..+.    .||.|+.+....
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q----~CpqCkt~Ykr~   71 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQ----NCPQCKTRYKRL   71 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCS----SCTTTCCCCCCC
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCc----cCcccCChhhhh
Confidence            3467999998552    11222   37888999999765555443    999999888653

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=83.24  E-value=0.011  Score=34.78  Aligned_cols=45  Identities=20%  Similarity=0.468  Sum_probs=30.4

Q ss_pred             CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccC
Q 029826            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP   61 (187)
Q Consensus         7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~   61 (187)
                      +..||.|+..+..    .=||.+|..|-..+-..      -.||.|.+++..+-.
T Consensus         2 ~~~CP~C~~eL~~----~~~~~~C~~C~~~~~~~------a~CPdC~~~Le~LkA   46 (71)
T d2jnea1           2 ELHCPQCQHVLDQ----DNGHARCRSCGEFIEMK------ALCPDCHQPLQVLKA   46 (71)
T ss_dssp             CCBCSSSCSBEEE----ETTEEEETTTCCEEEEE------EECTTTCSBCEEEEE
T ss_pred             CCcCCCccCcccc----cCCCEehhhhhhhheeE------EeCCccccHHHHHHh
Confidence            4689999987542    12677888886543332      289999999865433

>d2epqa1 g.37.1.1 (A:380-411) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: PATZ1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.98  E-value=0.19  Score=23.85  Aligned_cols=12  Identities=33%  Similarity=0.659  Sum_probs=6.2

Q ss_pred             Cccccccccccc
Q 029826            7 GDVCSVCHGNFN   18 (187)
Q Consensus         7 ~~~C~iC~~~~~   18 (187)
                      .++||||+..|+
T Consensus         3 p~~cpic~qrfk   14 (32)
T d2epqa1           3 PYSCPVCGLRFK   14 (32)
T ss_dssp             SSEETTTTEECS
T ss_pred             CcccchHHHHhh
Confidence            345555555443

>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=80.64  E-value=0.69  Score=25.89  Aligned_cols=42  Identities=31%  Similarity=0.720  Sum_probs=28.5

Q ss_pred             CCcccccccccccCcEEc---cCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826            6 CGDVCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (187)
Q Consensus         6 ~~~~C~iC~~~~~~pv~~---~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C   52 (187)
                      ....|--|+..+.+....   .|++.||.+|=.  +.+.. +  ..||-|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~--fiHe~-l--h~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDV--FVHDS-L--HSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHH--TTTTT-S--CSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccch--hhhhh-h--cCCCCC
Confidence            356788898877766433   489999999953  33332 2  288877