Citrus Sinensis ID: 032386

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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--
Protein Sequence
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYLR
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEEcccccccHHHHHHHHccccccccccccccccccccccccccHHHcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccEccccccccEcccccHHHHHHHHHHHHccccccccccccHcccEEEEccccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
megppcgdvcsvchgnfnvpcqancshwfcgnCIMLVWdhgstlqacrcplcrrritllipnddslrqrhdpavgDILQKVEsynrifggpttanglfQRIQDLPFLLRRLVRELvdphrslplVIRARVYIAILTFFSYLR
Flexible Loop (DISEMBL)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLlipnddslrqrhDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVdphrslplvirarVYIAILTFFSYLR
Low Complexity Region (SEG)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYLR
Disordered region (IsUnstruct)
*****CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYL*
Disordered Region (DISOPRED)
**GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI******************QKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYLR
Disordered Region (DISEMBL)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYLR
Disordered Region (DISPRO)
*****CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYLR
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYLR
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	142	2.2.26 [Sep-21-2011]
F1MK05	259	E3 ubiquitin-protein liga	yes	no	0.894	0.490	0.371	1e-16
Q5PPX5	257	E3 ubiquitin-protein liga	N/A	no	0.718	0.396	0.411	6e-16
Q28DS3	257	E3 ubiquitin-protein liga	yes	no	0.887	0.490	0.371	8e-16
Q8CBG9	286	E3 ubiquitin-protein liga	yes	no	0.894	0.444	0.371	1e-15
Q96K19	258	E3 ubiquitin-protein liga	yes	no	0.894	0.492	0.363	3e-15
Q7SZN2	266	E3 ubiquitin-protein liga	yes	no	0.908	0.484	0.343	2e-14
Q96EX2	444	RING finger and transmemb	no	no	0.295	0.094	0.404	0.0003
Q12161	406	RING finger protein PSH1	yes	no	0.704	0.246	0.254	0.0009

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

 Score = 85.5 bits (210), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 49/132 (37%), Positives = 69/132 (52%), Gaps = 5/132 (3%)

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 VYIAILTFFSYL 141
           + + ++  F YL
Sbjct: 203 IILCLMGAFFYL 214

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

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 44/107 (41%), Positives = 56/107 (52%), Gaps = 5/107 (4%)

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  RHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVREL 115
                  +ILQ+   YNR F G      L  RI DLP LLR   RE+
Sbjct: 146 ED---AQNILQEATGYNRRFSG--QPRSLMDRIMDLPTLLRHAFREM 187

Xenopus laevis (taxid: 8355)

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

 Score = 82.4 bits (202), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 49/132 (37%), Positives = 66/132 (50%), Gaps = 6/132 (4%)

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

Query: 70  HDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRAR 129
                 +IL++   YNR F G      L  RI DLP LLR   RE+      L  + R R
Sbjct: 147 DS---QNILREAIGYNRRFSG--QPRSLMDRIMDLPTLLRHAFREMFSVG-GLFWMFRIR 200

Query: 130 VYIAILTFFSYL 141
           + + +L    YL
Sbjct: 201 IVLCLLGALFYL 212

Xenopus tropicalis (taxid: 8364)

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

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 49/132 (37%), Positives = 68/132 (51%), Gaps = 5/132 (3%)

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 VYIAILTFFSYL 141
           + + ++  F YL
Sbjct: 230 IMLCLMGAFFYL 241

Mus musculus (taxid: 10090)

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

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/132 (36%), Positives = 67/132 (50%), Gaps = 5/132 (3%)

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 VYIAILTFFSYL 141
           + + ++  F YL
Sbjct: 202 IILCLMGAFFYL 213

Homo sapiens (taxid: 9606)

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

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/137 (34%), Positives = 68/137 (49%), Gaps = 8/137 (5%)

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 VIRARVYIAILTFFSYL 141
           + R R+ + +    +YL
Sbjct: 205 MFRVRILLCVCGALAYL 221

Danio rerio (taxid: 7955)

>sp|Q96EX2|RNFT2_HUMAN RING finger and transmembrane domain-containing protein 2 OS=Homo sapiens GN=RNFT2 PE=2 SV=2

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 23/47 (48%), Gaps = 5/47 (10%)

Query: 7   GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53
           GD+C++C   F  P    C H FC  C+ L  D   T     CPLCR
Sbjct: 381 GDICAICQAEFREPLILLCQHVFCEECLCLWLDRERT-----CPLCR 422

Homo sapiens (taxid: 9606)

>sp|Q12161|PSH1_YEAST RING finger protein PSH1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PSH1 PE=1 SV=1

 Score = 42.4 bits (98), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 10/110 (9%)

Query: 9   VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQ 68
           VCS+CH    VP    C H +C  C+   W   +T +   CP CR  IT +   + +L+Q
Sbjct: 29  VCSICHDYMFVPMMTPCGHNYCYGCLN-TWFASNTQKELACPQCRSDITTIPALNTTLQQ 87

Query: 69  RHDPAVGDILQKV-----ESYNRIFGGPTTANGLFQRIQDLPFLLRRLVR 113
                +  IL+K+     ES+ ++    T     ++  ++   L  ++ +
Sbjct: 88  ----YLSFILEKLRDQNDESFKKLLTTKTKEENDYKNDKEKDTLFDKVFK 133

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	142
351727639	186	uncharacterized protein LOC100306204 [Gl	0.964	0.736	0.645	1e-48
224146326	185	predicted protein [Populus trichocarpa]	0.978	0.751	0.673	8e-48
388493190	188	unknown [Lotus japonicus]	0.971	0.734	0.631	3e-47
224135683	185	predicted protein [Populus trichocarpa]	0.978	0.751	0.645	3e-46
21554064	185	unknown [Arabidopsis thaliana]	0.936	0.718	0.659	4e-46
18395127	185	C3HC4-type RING finger protein [Arabidop	0.936	0.718	0.651	1e-45
18410010	185	C3HC4-type RING finger protein [Arabidop	0.978	0.751	0.631	3e-45
297839077	185	zinc finger family protein [Arabidopsis	0.936	0.718	0.659	5e-45
449441207	185	PREDICTED: E3 ubiquitin-protein ligase R	0.971	0.745	0.657	7e-43
297850706	184	hypothetical protein ARALYDRAFT_889762 [	0.929	0.717	0.592	9e-43

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

 Score =  197 bits (502), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 91/141 (64%), Positives = 113/141 (80%), Gaps = 4/141 (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 SLPLVIRARVYIAILTFFSYL 141
           SLPL+IRARV++ ++    YL
Sbjct: 120 SLPLLIRARVFVVMIASVIYL 140

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 =  194 bits (494), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 95/141 (67%), Positives = 117/141 (82%), Gaps = 2/141 (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 SLPLVIRARVYIAILTFFSYL 141
           SLPLVIRARVYIA++    Y+
Sbjct: 119 SLPLVIRARVYIAVVLSAIYV 139

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 =  192 bits (488), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 89/141 (63%), Positives = 110/141 (78%), Gaps = 3/141 (2%)

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 SLPLVIRARVYIAILTFFSYL 141
           SLPLVIRARVYIA++    Y+
Sbjct: 122 SLPLVIRARVYIAMIISAIYV 142

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  189 bits (481), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 91/141 (64%), Positives = 118/141 (83%), Gaps = 2/141 (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 SLPLVIRARVYIAILTFFSYL 141
           SLP+VI+ARVYIA++    Y+
Sbjct: 119 SLPVVIKARVYIAMVLSAVYI 139

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  189 bits (479), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 89/135 (65%), Positives = 116/135 (85%), Gaps = 2/135 (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 SLPLVIRARVYIAIL 135
           +LPLVIRARVYIA++
Sbjct: 119 TLPLVIRARVYIALI 133

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 =  187 bits (476), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 88/135 (65%), Positives = 116/135 (85%), Gaps = 2/135 (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 SLPLVIRARVYIAIL 135
           +LPLVIRARVYIA++
Sbjct: 119 TLPLVIRARVYIALI 133

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  186 bits (472), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 89/141 (63%), Positives = 116/141 (82%), Gaps = 2/141 (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 SLPLVIRARVYIAILTFFSYL 141
           +LPLVIRARVYIA++    Y+
Sbjct: 119 TLPLVIRARVYIAMILSAVYI 139

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297839077|ref|XP_002887420.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297333261|gb|EFH63679.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  185 bits (470), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 89/135 (65%), Positives = 113/135 (83%), Gaps = 2/135 (1%)

Query: 1   MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI 60
           M  PP  D+CS+CH +F  PCQANCSHWFCGNCIM VW HGSTLQ C+CPLCRR I+LL+
Sbjct: 1   MNSPPENDLCSICHSHFTAPCQANCSHWFCGNCIMQVWRHGSTLQPCKCPLCRRPISLLV 60

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

Query: 121 SLPLVIRARVYIAIL 135
           +LPLVIRARVYIA++
Sbjct: 119 TLPLVIRARVYIAMI 133

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  178 bits (451), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 92/140 (65%), Positives = 110/140 (78%), Gaps = 2/140 (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 SLPLVIRARVYIAILTFFSY 140
           SLPLVIR RVYIA++    Y
Sbjct: 119 SLPLVIRTRVYIAMVLSVIY 138

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297850706|ref|XP_002893234.1| hypothetical protein ARALYDRAFT_889762 [Arabidopsis lyrata subsp. lyrata] gi|297339076|gb|EFH69493.1| hypothetical protein ARALYDRAFT_889762 [Arabidopsis lyrata subsp. lyrata]

 Score =  177 bits (450), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 80/135 (59%), Positives = 108/135 (80%), Gaps = 3/135 (2%)

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

Query: 61  PNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHR 120
           P+++++R R+D  V ++L  VE+YNR+FGG   ++GL Q  +    L  +L+RE++DP R
Sbjct: 61  PSEETVRSRNDATVSEVLHDVETYNRVFGG--QSSGLIQDARS-SLLTPKLLREMMDPRR 117

Query: 121 SLPLVIRARVYIAIL 135
           +LPLVIRARVYIA++
Sbjct: 118 TLPLVIRARVYIALI 132

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

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	142
TAIR|locus:505006218	185	AT1G72175 [Arabidopsis thalian	0.978	0.751	0.631	4.6e-50
TAIR|locus:2118919	262	AT4G33940 [Arabidopsis thalian	0.795	0.431	0.456	9.1e-29
UNIPROTKB|F1NKI3	287	RNF170 "Uncharacterized protei	0.880	0.435	0.378	9.2e-20
UNIPROTKB|F1MK05	259	RNF170 "E3 ubiquitin-protein l	0.894	0.490	0.371	4e-19
MGI|MGI:1924983	286	Rnf170 "ring finger protein 17	0.894	0.444	0.371	7.5e-18
UNIPROTKB|Q96K19	258	RNF170 "E3 ubiquitin-protein l	0.894	0.492	0.363	2e-17
UNIPROTKB|E2RGZ9	639	RNF170 "Uncharacterized protei	0.894	0.198	0.363	3.7e-17
ZFIN|ZDB-GENE-040426-2572	266	rnf170 "ring finger protein 17	0.908	0.484	0.343	8.6e-17
UNIPROTKB|F1NCS0	138	F1NCS0 "Uncharacterized protei	0.556	0.572	0.358	5.6e-13
ZFIN|ZDB-GENE-041001-160	227	si:dkey-183n20.15 "si:dkey-183	0.725	0.453	0.330	4.1e-10

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

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 89/141 (63%), Positives = 116/141 (82%)

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 SLPLVIRARVYIAILTFFSYL 141
             +LPLVIRARVYIA++    Y+
Sbjct:   119 TLPLVIRARVYIAMILSAVYI 139

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 320 (117.7 bits), Expect = 9.1e-29, P = 9.1e-29
 Identities = 53/116 (45%), Positives = 79/116 (68%)

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 NDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVD 117
              + SL++R +  V ++L KV  YNR+F G  T  G  Q++ +LPFL++R+V  ++D
Sbjct:   126 -EPSLQERQEQEVKEVLDKVRRYNRLFVGGLT--GFVQKVHELPFLVKRMVWHMMD 178

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 = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 50/132 (37%), Positives = 68/132 (51%)

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 VYIAILTFFSYL 141
             +++ +   F YL
Sbjct:   231 IFLCLFGAFLYL 242

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 49/132 (37%), Positives = 70/132 (53%)

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 VYIAILTFFSYL 141
             + + ++  F YL
Sbjct:   203 IILCLMGAFFYL 214

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 = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 49/132 (37%), Positives = 69/132 (52%)

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 VYIAILTFFSYL 141
             + + ++  F YL
Sbjct:   230 IMLCLMGAFFYL 241

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

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

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 48/132 (36%), Positives = 68/132 (51%)

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 VYIAILTFFSYL 141
             + + ++  F YL
Sbjct:   202 IILCLMGAFFYL 213

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 = 220 (82.5 bits), Expect = 3.7e-17, P = 3.7e-17
 Identities = 48/132 (36%), Positives = 68/132 (51%)

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 VYIAILTFFSYL 141
             + + ++  F YL
Sbjct:   584 IILCLMGAFFYL 595

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 47/137 (34%), Positives = 69/137 (50%)

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 VIRARVYIAILTFFSYL 141
             + R R+ + +    +YL
Sbjct:   205 MFRVRILLCVCGALAYL 221

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|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

ZFIN|ZDB-GENE-041001-160 si:dkey-183n20.15 "si:dkey-183n20.15" [Danio rerio (taxid:7955)]

 Score = 144 (55.7 bits), Expect = 4.1e-10, P = 4.1e-10
 Identities = 39/118 (33%), Positives = 53/118 (44%)

Query:     5 PCG--DV-CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT---- 57
             P G  DV C VC      P + NC H FC  C++  W H S L A  CPLCR+ +     
Sbjct:    40 PAGSRDVHCPVCLQMATYPVETNCGHLFCAPCLISYWKHCSWLDAISCPLCRQTVKKMCH 99

Query:    58 LLIPNDDSLRQRHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVREL 115
             L   N    ++R      ++L+ V  YN+ + G      +   + D P  L  LVR L
Sbjct:   100 LFSENKTDCKER------EVLRHVRDYNKRYSG--APRQVKDYLCDAPLFLLVLVRGL 149

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: 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	142
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-05
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	5e-05
COG5574	271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	8e-05
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	2e-04
COG5152	259	COG5152, COG5152, Uncharacterized conserved protei	0.001
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	0.001

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

 Score = 39.7 bits (93), Expect = 1e-05
 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|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 41.2 bits (96), Expect = 5e-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 = 40.6 bits (95), Expect = 8e-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 = 39.6 bits (92), Expect = 2e-04
 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|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

 Score = 37.4 bits (86), Expect = 0.001
 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

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

 Score = 34.3 bits (79), Expect = 0.001
 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	142
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	99.79
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.63
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.47
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.4
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.39
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.37
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.34
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.34
PHA02929	238	N1R/p28-like protein; Provisional	99.33
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.31
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.3
PHA02926	242	zinc finger-like protein; Provisional	99.27
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.27
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.24
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	99.21
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.17
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.17
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.1
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	99.02
PF14634	44	zf-RING_5: zinc-RING finger domain	99.01
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.0
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.98
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.94
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.91
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.87
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.86
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.72
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.57
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	98.56
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.54
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.54
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.49
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
KOG2660	331	consensus Locus-specific chromosome binding protei	98.43
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.42
COG5152	259	Uncharacterized conserved protein, contains RING a	98.4
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.36
KOG1002	791	consensus Nucleotide excision repair protein RAD16	98.36
COG5222	427	Uncharacterized conserved protein, contains RING Z	98.33
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.32
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.16
KOG0297	391	consensus TNF receptor-associated factor [Signal t	98.12
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.06
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.93
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.66
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.46
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.45
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	97.45
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.36
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.27
KOG4367	699	consensus Predicted Zn-finger protein [Function un	97.22
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.2
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	97.18
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.12
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	97.11
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	97.09
PHA03096	284	p28-like protein; Provisional	96.97
KOG1001	674	consensus Helicase-like transcription factor HLTF/	96.96
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.93
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.9
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	96.84
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.78
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	96.75
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.71
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.48
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	96.44
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.35
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.29
PF04641	260	Rtf2: Rtf2 RING-finger	96.13
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.0
KOG4739	233	consensus Uncharacterized protein involved in syna	95.98
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	95.85
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.75
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.68
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.49
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.32
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	95.23
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	95.21
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	94.96
KOG0298	1394	consensus DEAD box-containing helicase-like transc	94.78
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	94.64
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	94.59
KOG3002	299	consensus Zn finger protein [General function pred	94.4
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	94.22
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.83
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.81
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	93.75
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	93.42
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.19
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	93.02
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.93
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	92.76
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	92.38
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	92.33
KOG4445	368	consensus Uncharacterized conserved protein, conta	91.1
KOG3899	381	consensus Uncharacterized conserved protein [Funct	91.03
COG5175	480	MOT2 Transcriptional repressor [Transcription]	90.92
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	90.92
PHA02862	156	5L protein; Provisional	90.32
KOG1940	276	consensus Zn-finger protein [General function pred	90.31
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	90.17
KOG3053	293	consensus Uncharacterized conserved protein [Funct	89.75
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	86.82
COG5109	396	Uncharacterized conserved protein, contains RING Z	85.72
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	82.76
KOG0825	1134	consensus PHD Zn-finger protein [General function	80.21

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

Probab=99.79  E-value=1.3e-19  Score=145.02  Aligned_cols=132  Identities=27%  Similarity=0.534  Sum_probs=108.2

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc--cccCCcccccCCCchHhhHHHHH--H
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPNDDSLRQRHDPAVGDILQKV--E   82 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~--l~~~~~~~~~~~~~~~~~~~~~i--~   82 (142)
                      +..||||++....|+.|+|||+||..||.+||..+...+...||+|+..+..  +.|..+... +...++....+..  .
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~-qkke~l~~~~~~ng~~  264 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDD-QKKEELKLHQDPNGIP  264 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccc-cccHHHHHHhcccCCC
Confidence            7899999999999999999999999999999999877888899999999985  777765432 2222222222222  3


Q ss_pred             HHHHhhCCCCCCcchhhhhhchhHHHHHHHHHHhCcCCCchhhHHHHHHHHHHHHHhhc
Q 032386           83 SYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAILTFFSYL  141 (142)
Q Consensus        83 ~~n~~~~~~~~~~~~~~~l~d~p~l~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~y~  141 (142)
                      .||+.|++++ ++.+.+.+.|++.+++.+++.++. +..+.++.+.++..+..+...|+
T Consensus       265 ~~~r~F~~d~-~r~~p~fl~dl~~~a~~~i~~~~~-~~~l~i~~~~~i~~v~i~~~~~~  321 (513)
T KOG2164|consen  265 DYNRRFSGDP-ARFVPDFLMDLPTYARINIRNMFN-NHILTIVDQVCIAAVFICQYLSF  321 (513)
T ss_pred             ccccceecCc-ccccHHHHHhHHHHHHHHHHHhhc-ccceeehhhHhHHHHHHHHHhcc
Confidence            8999999876 478899999999999999999999 68999999999987777776664

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

Probab=99.63  E-value=1.8e-16  Score=88.26  Aligned_cols=42  Identities=33%  Similarity=0.946  Sum_probs=33.0

Q ss_pred             cccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386           10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus        10 CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      ||||+++|++|++++|||+||.+||.++|+.... ....||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~-~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSG-SGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSS-ST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCC-cCCCCcCC
Confidence            8999999999999999999999999999987652 23689987

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.47  E-value=4.1e-14  Score=102.00  Aligned_cols=53  Identities=23%  Similarity=0.563  Sum_probs=44.7

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCC-----------CCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-----------TLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~-----------~~~~~~CP~Cr~~~~   57 (142)
                      .++++|+||++.+++|+.++|||.||..||.+|+..+.           ..+...||+||..++
T Consensus        16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            45689999999999999999999999999999986431           123468999999987

>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=99.40  E-value=1.8e-13  Score=74.96  Aligned_cols=38  Identities=32%  Similarity=0.955  Sum_probs=32.5

Q ss_pred             cccccccccCc-eeecCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386           10 CSVCHGNFNVP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus        10 CpIC~~~~~~p-v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      |+||++.+.+| +.++|||+||.+|+.+|++..     .+||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~-----~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKN-----PKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCT-----SB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCc-----CCCcCC
Confidence            89999999999 578999999999999998874     389987

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

Probab=99.39  E-value=2e-13  Score=100.25  Aligned_cols=57  Identities=21%  Similarity=0.525  Sum_probs=47.8

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc--ccccCC
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT--LLIPND   63 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~--~l~~~~   63 (142)
                      ...+.|-||+|..++||.|.|||.||+.||.+|+....  ....||+|+..++  .++|..
T Consensus        45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~--~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRP--NSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcC--CCeeCCccccccccceEEeee
Confidence            44589999999999999999999999999999998764  2347899999887  455543

>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=99.37  E-value=4.3e-13  Score=77.33  Aligned_cols=48  Identities=27%  Similarity=0.709  Sum_probs=40.7

Q ss_pred             CccccccccccccCceeecCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ++..|+||++...+++.++|||. ||..|+.+|++...     .||+||++++.
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            46789999999999999999999 99999999998554     89999998653

...

>smart00504 Ubox Modified RING finger domain

Probab=99.34  E-value=1.3e-12  Score=78.53  Aligned_cols=46  Identities=11%  Similarity=0.087  Sum_probs=41.6

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++.||||.+.+.+|+.++|||+||.+||.+|++...     .||.|++.++
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     8999998764

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

>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=99.34  E-value=7.2e-13  Score=74.39  Aligned_cols=40  Identities=30%  Similarity=0.790  Sum_probs=34.5

Q ss_pred             cccccccccc---CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCc
Q 032386            9 VCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR   53 (142)
Q Consensus         9 ~CpIC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr   53 (142)
                      +|+||++.+.   ..+.++|||.||.+|+.+|++...     +||+||
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   567789999999999999999864     999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.33  E-value=8.9e-13  Score=98.48  Aligned_cols=55  Identities=25%  Similarity=0.574  Sum_probs=45.0

Q ss_pred             CCccccccccccccC--------ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccCCc
Q 032386            5 PCGDVCSVCHGNFNV--------PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDD   64 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~--------pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~~~   64 (142)
                      .++.+|+||++.+.+        ++.++|+|.||..||.+|++..+     +||+||..+..+.+++.
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            456899999998664        35578999999999999987654     89999999887766653

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

Probab=99.31  E-value=8.7e-13  Score=99.53  Aligned_cols=49  Identities=35%  Similarity=0.839  Sum_probs=44.0

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++.+..|.+|++...+|..|+|||.||++||..|...++     .||.||+.+.
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            456689999999999999999999999999999988775     7999998754

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

Probab=99.30  E-value=1.3e-12  Score=92.35  Aligned_cols=48  Identities=31%  Similarity=0.835  Sum_probs=41.5

Q ss_pred             CCccccccccccccC--ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNV--PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~--pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +..+.||||++.+.+  |+.|+|||.||..||...++.+.     .||+|++.++
T Consensus       129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~-----~CP~C~kkIt  178 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN-----KCPTCRKKIT  178 (187)
T ss_pred             ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC-----CCCCcccccc
Confidence            344799999998864  67799999999999999998876     8999998765

>PHA02926 zinc finger-like protein; Provisional

Probab=99.27  E-value=3.4e-12  Score=93.37  Aligned_cols=60  Identities=22%  Similarity=0.468  Sum_probs=46.7

Q ss_pred             CCcccccccccccc---------CceeecCCCcccHhHHHHHHHhCCC-CCCCCCCCCcccccccccCCc
Q 032386            5 PCGDVCSVCHGNFN---------VPCQANCSHWFCGNCIMLVWDHGST-LQACRCPLCRRRITLLIPNDD   64 (142)
Q Consensus         5 ~~~~~CpIC~~~~~---------~pv~~~CgH~fC~~Ci~~~~~~~~~-~~~~~CP~Cr~~~~~l~~~~~   64 (142)
                      .++.+|+||++...         .++..+|+|.||..||.+|.+.... +...+||+||..+..+.|++.
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf  237 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKF  237 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccc
Confidence            46789999999753         2466789999999999998775321 234579999999998887763

>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=99.27  E-value=3.9e-12  Score=70.20  Aligned_cols=40  Identities=33%  Similarity=0.958  Sum_probs=35.5

Q ss_pred             cccccccccCce-eecCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386           10 CSVCHGNFNVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus        10 CpIC~~~~~~pv-~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      |+||++.+.+|+ .++|||.||..|+.+|++..   +...||.|
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 78999999999999999962   34589988

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 ....

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.24  E-value=1.3e-11  Score=98.30  Aligned_cols=51  Identities=33%  Similarity=0.734  Sum_probs=45.2

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +..++.+.|+||.+.+.+|+.++|||.||..||..|+....     .||+|+..+.
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            44567799999999999999999999999999999997643     7999999865

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=99.21  E-value=4.3e-12  Score=97.73  Aligned_cols=49  Identities=33%  Similarity=0.672  Sum_probs=44.1

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++-+.|.||.++|..|+.|+|+|+||.-||+.++...+     .||.|+..+.
T Consensus        20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p-----~CP~C~~~~~   68 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP-----QCPTCCVTVT   68 (442)
T ss_pred             hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC-----CCCceecccc
Confidence            345589999999999999999999999999999999876     8999998744

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

Probab=99.17  E-value=1.7e-11  Score=76.11  Aligned_cols=49  Identities=14%  Similarity=0.225  Sum_probs=40.0

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      |+++.|||+.+++.+||.+++||+|+.++|.+|++...    ..||.++++++
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            68899999999999999999999999999999998832    48999998866

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=99.17  E-value=1.9e-11  Score=68.08  Aligned_cols=39  Identities=28%  Similarity=0.878  Sum_probs=24.0

Q ss_pred             cccccccccC----ceeecCCCcccHhHHHHHHHhCCCCCCCCCC
Q 032386           10 CSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCP   50 (142)
Q Consensus        10 CpIC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP   50 (142)
                      ||||.+ +.+    |+.++|||+||.+|+.+++..+. .+..+||
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 877    99999999999999999988753 3456787

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

Probab=99.10  E-value=9e-11  Score=65.06  Aligned_cols=43  Identities=37%  Similarity=0.884  Sum_probs=36.6

Q ss_pred             ccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            9 VCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         9 ~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      .|+||++.+.+++.+. |||.||..|+..|++...    ..||.|+..
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            5999999997777766 999999999999988732    489999875

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

Probab=99.02  E-value=4.7e-11  Score=71.18  Aligned_cols=43  Identities=30%  Similarity=0.736  Sum_probs=24.2

Q ss_pred             CccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            6 CGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      +-+.|++|.+++++||. ..|.|.||..||...+..       .||+|+.+
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~-------~CPvC~~P   49 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS-------ECPVCHTP   49 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT-------B-SSS--B
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC-------CCCCcCCh
Confidence            44789999999999987 569999999999774332       69999986

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.01  E-value=2e-10  Score=64.45  Aligned_cols=41  Identities=29%  Similarity=0.991  Sum_probs=33.7

Q ss_pred             ccccccccc---cCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            9 VCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         9 ~CpIC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      .|+||++.+   ..+..++|||+||.+|+.+.. .    ....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~----~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-G----KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-C----CCCCCcCCCC
Confidence            599999988   357889999999999999976 2    2358999985

>smart00184 RING Ring finger

Probab=99.00  E-value=4.8e-10  Score=60.03  Aligned_cols=39  Identities=33%  Similarity=0.931  Sum_probs=34.2

Q ss_pred             cccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386           10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus        10 CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      |+||++....++.++|||.||..|+..|++...    ..||+|
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            899999999999999999999999999988332    479987

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=98.98  E-value=2.7e-10  Score=85.21  Aligned_cols=51  Identities=31%  Similarity=0.808  Sum_probs=42.1

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      .|+.+..|+||++....|..++|||.||..||...|..+.   .-.||.||+.+
T Consensus       211 ip~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~  261 (271)
T COG5574         211 IPLADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKV  261 (271)
T ss_pred             ccccccceeeeecccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhc
Confidence            3577899999999999999999999999999999444432   12699999863

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.94  E-value=1.5e-09  Score=83.64  Aligned_cols=49  Identities=27%  Similarity=0.707  Sum_probs=37.3

Q ss_pred             Ccccccccccc-ccCce---ee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGN-FNVPC---QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~-~~~pv---~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ++..||+|... ...|-   .+ +|||.||.+|+...|..++    ..||.|+..+..
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~----~~CP~C~~~lrk   55 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGS----GSCPECDTPLRK   55 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCC----CCCCCCCCccch
Confidence            46789999994 22332   23 5999999999999986643    489999988763

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).

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

Probab=98.91  E-value=4.1e-10  Score=85.45  Aligned_cols=48  Identities=29%  Similarity=0.769  Sum_probs=43.2

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.-+.|-||.+.+..|+.|+|||+||.-||..++...+     .||+||....
T Consensus        23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp-----~CP~Cr~~~~   70 (391)
T COG5432          23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP-----FCPVCREDPC   70 (391)
T ss_pred             hhHHHhhhhhheeecceecccccchhHHHHHHHhcCCC-----CCccccccHH
Confidence            44478999999999999999999999999999998876     8999997754

>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=98.87  E-value=1.6e-09  Score=67.17  Aligned_cols=41  Identities=34%  Similarity=0.831  Sum_probs=32.3

Q ss_pred             cccccccccccC------------c-eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCc
Q 032386            8 DVCSVCHGNFNV------------P-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR   53 (142)
Q Consensus         8 ~~CpIC~~~~~~------------p-v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr   53 (142)
                      ..|+||++.+.+            + +..+|||.|+..||.+|++...     +||+||
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            2 3347999999999999998765     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 ....

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

Probab=98.86  E-value=6.9e-10  Score=83.85  Aligned_cols=46  Identities=33%  Similarity=0.881  Sum_probs=40.9

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      ..+...|+||++.+..|+.++|||+||..|+..+|. .    ...||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~----~~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-G----PLSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcCccccccchHhHHHHHHhcC-C----CcCCcccCC
Confidence            457789999999999998899999999999999998 2    368999993

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

Probab=98.72  E-value=2.5e-09  Score=82.99  Aligned_cols=48  Identities=27%  Similarity=0.769  Sum_probs=42.5

Q ss_pred             CccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++.||||+++++..++++ |+|.||.+||-.-++.+.    -.||.||+.+.
T Consensus        42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn----~ecptcRk~l~   90 (381)
T KOG0311|consen   42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGN----NECPTCRKKLV   90 (381)
T ss_pred             hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcC----CCCchHHhhcc
Confidence            4579999999999999987 999999999988887765    48999999876

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

Probab=98.57  E-value=6.1e-08  Score=61.28  Aligned_cols=50  Identities=34%  Similarity=0.724  Sum_probs=37.9

Q ss_pred             Ccccccccccccc-----------C-ceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFN-----------V-PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~-----------~-pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +|..|+||...|.           + |+.. .|+|.|...||.+|+++...  ...||+||+...
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~--~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS--KGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC--CCCCCCcCCeee
Confidence            4678888887774           1 3333 59999999999999987532  349999998754

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

Probab=98.56  E-value=5.3e-08  Score=76.27  Aligned_cols=47  Identities=32%  Similarity=0.677  Sum_probs=39.7

Q ss_pred             cccccccccccCc---eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            8 DVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         8 ~~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .+|.||+|.+.+.   ..+||+|.|...||..|+.+..    ..||+|++.+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r----~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTR----TFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcC----ccCCCCCCcCCC
Confidence            4999999998753   4489999999999999998864    269999998664

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

Probab=98.54  E-value=2.2e-08  Score=84.25  Aligned_cols=46  Identities=26%  Similarity=0.743  Sum_probs=41.4

Q ss_pred             cccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.||.|.+...+.+.+.|||.||..|+.+......    .+||.|...|+
T Consensus       644 LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRq----RKCP~Cn~aFg  689 (698)
T KOG0978|consen  644 LKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQ----RKCPKCNAAFG  689 (698)
T ss_pred             eeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhc----CCCCCCCCCCC
Confidence            68999999999999999999999999999887654    58999999865

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

Probab=98.54  E-value=3.6e-08  Score=82.04  Aligned_cols=46  Identities=24%  Similarity=0.759  Sum_probs=41.5

Q ss_pred             CccccccccccccC-----ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            6 CGDVCSVCHGNFNV-----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         6 ~~~~CpIC~~~~~~-----pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      .+..|+||.+.+..     |..++|||.|+..|+.+|+++..     +||+||..+
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            37899999999987     78899999999999999999976     999999843

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

Probab=98.49  E-value=8.3e-08  Score=75.22  Aligned_cols=48  Identities=25%  Similarity=0.721  Sum_probs=41.1

Q ss_pred             CCcccccccccc-ccC------------ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGN-FNV------------PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~-~~~------------pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      -+|..|.||+|- +..            |..++|||.+...|++.|.+...     +||.||.++.
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            467899999996 433            48899999999999999999876     9999999854

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

Probab=98.49  E-value=1.5e-07  Score=73.84  Aligned_cols=61  Identities=26%  Similarity=0.552  Sum_probs=45.4

Q ss_pred             CCccccccccccccCce-----e---ecCCCcccHhHHHHHHHhCC--CCCCCCCCCCcccccccccCCcc
Q 032386            5 PCGDVCSVCHGNFNVPC-----Q---ANCSHWFCGNCIMLVWDHGS--TLQACRCPLCRRRITLLIPNDDS   65 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv-----~---~~CgH~fC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~~l~~~~~~   65 (142)
                      .++..|.||++...+..     .   .+|.|.||..||..|-....  ..-...||.||.....+.|...+
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            45789999999876554     2   67999999999999763322  11124899999999888887533

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

Probab=98.49  E-value=6.4e-08  Score=73.83  Aligned_cols=53  Identities=28%  Similarity=0.553  Sum_probs=45.3

Q ss_pred             CCCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            1 MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         1 ~~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      |.+.--+.+|+||+....-|+.+.|+|.||.-||........    .+|++||.++.
T Consensus         1 ~ap~~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk----~~CavCR~pid   53 (324)
T KOG0824|consen    1 MAPRTKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDK----KTCAVCRFPID   53 (324)
T ss_pred             CCCcccCCcceeeeccCCcCccccccchhhhhhhcchhhcCC----CCCceecCCCC
Confidence            456666789999999999999999999999999987655543    47999999987

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

Probab=98.43  E-value=1.2e-07  Score=73.18  Aligned_cols=51  Identities=27%  Similarity=0.598  Sum_probs=43.8

Q ss_pred             CccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccccccccc
Q 032386            6 CGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP   61 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~   61 (142)
                      ...+|.+|.+++.++.++. |-|+||.+||.+++....     .||+|...+..-.|
T Consensus        14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~-----~CP~C~i~ih~t~p   65 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESK-----YCPTCDIVIHKTHP   65 (331)
T ss_pred             cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhc-----cCCccceeccCccc
Confidence            3468999999999998866 999999999999999865     89999988765433

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

Probab=98.42  E-value=1.1e-07  Score=76.11  Aligned_cols=49  Identities=31%  Similarity=0.714  Sum_probs=43.3

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .+++.|.||+..+..|+.++|||+||..||.+.+.+..     .||.||..+..
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            46789999999999999999999999999999777654     89999987654

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

Probab=98.40  E-value=7.6e-08  Score=69.59  Aligned_cols=45  Identities=24%  Similarity=0.835  Sum_probs=40.6

Q ss_pred             cccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.|.||...+..||.+.|||.||..|..+-.+.++     .|-+|.+...
T Consensus       197 F~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~-----~C~~Cgk~t~  241 (259)
T COG5152         197 FLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGD-----ECGVCGKATY  241 (259)
T ss_pred             eeehhchhhccchhhhhcchhHHHHHHHHHhccCC-----cceecchhhc
Confidence            69999999999999999999999999998888775     8999987643

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

Probab=98.36  E-value=2.9e-07  Score=70.46  Aligned_cols=46  Identities=30%  Similarity=0.631  Sum_probs=37.9

Q ss_pred             CccccccccccccC---ceeecCCCcccHhHHHHHHH-hCCCCCCCCCCCCcccc
Q 032386            6 CGDVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWD-HGSTLQACRCPLCRRRI   56 (142)
Q Consensus         6 ~~~~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~-~~~~~~~~~CP~Cr~~~   56 (142)
                      -+.+|.||++.+.+   -+.+||.|.|...|+.+|+. .+.     .||+||..+
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~-----~CPvCrt~i  371 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSN-----KCPVCRTAI  371 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcc-----cCCccCCCC
Confidence            34789999998753   35689999999999999988 443     899999874

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

Probab=98.36  E-value=1.6e-07  Score=76.66  Aligned_cols=52  Identities=23%  Similarity=0.519  Sum_probs=46.6

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+..|.+|.+...+++.+.|.|.||.-|+.+|......+...+||+|...++
T Consensus       535 ~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  535 GEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             CceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            4479999999999999999999999999999998776666789999988766

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

Probab=98.33  E-value=5.5e-07  Score=68.96  Aligned_cols=49  Identities=31%  Similarity=0.748  Sum_probs=41.8

Q ss_pred             CCCCCccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      -+|.-.+.||.|..++++|+.|+ |+|.||.+||..-+-.+.    ..||.|.+
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            34455589999999999999997 999999999998777654    58999987

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

Probab=98.32  E-value=3.7e-07  Score=53.87  Aligned_cols=47  Identities=26%  Similarity=0.507  Sum_probs=31.7

Q ss_pred             CCCCCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCC
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPL   51 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~   51 (142)
                      ++-..++.|||....+.+||.. .|||+|..+.|.+|++.   .+...||+
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            3445568999999999999996 69999999999999943   23468998

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

Probab=98.27  E-value=1.8e-07  Score=53.94  Aligned_cols=49  Identities=24%  Similarity=0.533  Sum_probs=41.3

Q ss_pred             ccccccccccccCceeecCCC-cccHhHHHHHHHhCCCCCCCCCCCCccccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l   59 (142)
                      +.+|.||++...+.|.-.||| -.|..|-.+.|+...    -.||.||+++..+
T Consensus         7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~----g~CPiCRapi~dv   56 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALH----GCCPICRAPIKDV   56 (62)
T ss_pred             ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccC----CcCcchhhHHHHH
Confidence            378999999999999999999 579999999888543    3899999987643

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

Probab=98.16  E-value=1.7e-06  Score=67.53  Aligned_cols=52  Identities=25%  Similarity=0.660  Sum_probs=43.1

Q ss_pred             CCccccccccccccCceeecCCC-cccHhHHHHHHHhCCCCCCCCCCCCccccccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIP   61 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~   61 (142)
                      ++..+|.||++..++-+.+||.| -.|..|.....-+++     .||+||+++..+..
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n-----~CPICRqpi~~ll~  340 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN-----NCPICRQPIEELLE  340 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc-----CCCccccchHhhhe
Confidence            44689999999999999999999 579999988654444     89999999885443

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

Probab=98.12  E-value=1.2e-06  Score=70.39  Aligned_cols=49  Identities=29%  Similarity=0.831  Sum_probs=43.1

Q ss_pred             CCCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++++..|++|...+.+|+.+ .|||.||..|+..|.....     .||.|+....
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            36679999999999999995 8999999999999988743     8999987765

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

Probab=98.12  E-value=6.8e-07  Score=68.14  Aligned_cols=46  Identities=26%  Similarity=0.780  Sum_probs=41.1

Q ss_pred             cccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +.|-||...+..||.++|+|.||..|..+-++.+.     .|++|.+++..
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            57999999999999999999999999988887765     89999987543

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

Probab=98.06  E-value=1.4e-06  Score=69.82  Aligned_cols=44  Identities=32%  Similarity=0.746  Sum_probs=36.4

Q ss_pred             CccccccccccccCce----eecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            6 CGDVCSVCHGNFNVPC----QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv----~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      +--+||+|++.+..-+    ++.|.|+|..+|+.+||..       +||+||...
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~-------scpvcR~~q  221 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS-------SCPVCRYCQ  221 (493)
T ss_pred             cCCCcchhHhhcCccccceeeeecccccchHHHhhcccC-------cChhhhhhc
Confidence            3459999999997654    4569999999999999876       799999643

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

Probab=98.00  E-value=4.5e-06  Score=63.13  Aligned_cols=51  Identities=25%  Similarity=0.628  Sum_probs=41.8

Q ss_pred             CCccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .++.+||+|.+..+.|.+.. |||.||.-||.+-...+.   -..||.|..+...
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a---sf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA---SFTCPLCGENVEP  288 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh---hcccCccCCCCcc
Confidence            45689999999999999876 999999999988765432   2589999887553

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

Probab=97.93  E-value=2.9e-06  Score=52.14  Aligned_cols=51  Identities=20%  Similarity=0.358  Sum_probs=24.8

Q ss_pred             cccccccccccc-C---cee--e--cCCCcccHhHHHHHHHhCCCCC----C--CCCCCCccccc
Q 032386            7 GDVCSVCHGNFN-V---PCQ--A--NCSHWFCGNCIMLVWDHGSTLQ----A--CRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~-~---pv~--~--~CgH~fC~~Ci~~~~~~~~~~~----~--~~CP~Cr~~~~   57 (142)
                      +..|+||+.... .   |..  .  .|++.|...|+.+|+.....++    .  -.||.|+++++
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            578999999754 2   322  2  5999999999999998643211    1  16999998865

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

Probab=97.91  E-value=7.5e-06  Score=64.10  Aligned_cols=49  Identities=24%  Similarity=0.504  Sum_probs=44.1

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .+|..||||..-...+|.+||+|.-|..||.+.+-+.+     .|..|+..+..
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            56789999999999999999999999999999988875     89999988663

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

Probab=97.66  E-value=1.4e-05  Score=60.53  Aligned_cols=50  Identities=28%  Similarity=0.639  Sum_probs=38.8

Q ss_pred             CCccccccccccccC----------ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNV----------PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~----------pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++..|.||-+.+..          -..++|+|+|...||+.|-.-++   ..+||.|++.++
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK---kqtCPYCKekVd  281 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK---KQTCPYCKEKVD  281 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC---CCCCchHHHHhh
Confidence            456789999886643          34678999999999999966543   248999998755

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

Probab=97.46  E-value=0.00017  Score=41.14  Aligned_cols=42  Identities=19%  Similarity=0.668  Sum_probs=33.3

Q ss_pred             ccccccc--cccCceeecCC-----CcccHhHHHHHHHhCCCCCCCCCCCCc
Q 032386            9 VCSVCHG--NFNVPCQANCS-----HWFCGNCIMLVWDHGSTLQACRCPLCR   53 (142)
Q Consensus         9 ~CpIC~~--~~~~pv~~~Cg-----H~fC~~Ci~~~~~~~~~~~~~~CP~Cr   53 (142)
                      .|-||++  .-.++...||.     |.+..+|+.+|+..+.   ..+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~---~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG---NKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC---CCcCCCCC
Confidence            4889997  44567788885     7899999999998764   34899995

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

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

Probab=97.45  E-value=5.2e-05  Score=65.92  Aligned_cols=48  Identities=29%  Similarity=0.796  Sum_probs=37.7

Q ss_pred             cccccccccccc-----Ccee--ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFN-----VPCQ--ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~-----~pv~--~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..+|+||+.++.     -|..  ..|.|.|...|+.+|++.++   .-+||.||..++
T Consensus      1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~---~s~CPlCRseit 1523 (1525)
T COG5219        1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA---RSNCPLCRSEIT 1523 (1525)
T ss_pred             cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC---CCCCCccccccc
Confidence            368999999775     2333  35999999999999999864   458999997654

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

Probab=97.45  E-value=6.5e-05  Score=61.15  Aligned_cols=49  Identities=22%  Similarity=0.533  Sum_probs=37.5

Q ss_pred             CCcccccccccccc-----------------CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFN-----------------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~-----------------~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+...|+||+....                 +=+.|||.|.|...|+.+|.+.-+    ..||+||.++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk----l~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK----LICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc----ccCCccCCCCC
Confidence            44578999997652                 124469999999999999998432    47999998753

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

Probab=97.36  E-value=0.00014  Score=58.04  Aligned_cols=50  Identities=28%  Similarity=0.777  Sum_probs=39.3

Q ss_pred             CCccccccccccccCc-----eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVP-----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~p-----v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ....+||||+|....|     +.+.|||.|-.+||++|+-+   .....||.|...-.
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            4568999999987765     33569999999999999953   34568999986543

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

Probab=97.27  E-value=0.00012  Score=58.24  Aligned_cols=47  Identities=28%  Similarity=0.661  Sum_probs=38.1

Q ss_pred             ccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            9 VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         9 ~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      -|-||-+-=++-..-+|||..|..|+..|....   +..+||.||..+..
T Consensus       371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd---~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSD---EGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHhhccCCCcccccccchHHHHHHHhhcccC---CCCCCCceeeEecc
Confidence            589999887776777899999999999975443   23589999998873

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

Probab=97.22  E-value=0.00019  Score=57.84  Aligned_cols=38  Identities=24%  Similarity=0.466  Sum_probs=34.5

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCC
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS   42 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~   42 (142)
                      ++++.||||-..+++|+.++|+|..|..|......+++
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            57899999999999999999999999999988776654

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

Probab=97.20  E-value=7.9e-05  Score=63.65  Aligned_cols=52  Identities=19%  Similarity=0.435  Sum_probs=40.4

Q ss_pred             ccccccccccccCcee---ecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccCC
Q 032386            7 GDVCSVCHGNFNVPCQ---ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPND   63 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~---~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~~   63 (142)
                      ...||+|+..+.+...   .+|+|.||..|+..|-+...     +||+||..+..+.+..
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            3578888887765433   46999999999999988876     9999999988554443

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

Probab=97.19  E-value=0.00022  Score=56.62  Aligned_cols=49  Identities=18%  Similarity=0.539  Sum_probs=36.3

Q ss_pred             ccccccccccccCce---ee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNVPC---QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv---~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ...|.||.+.+..-.   .+ .|||+|...|+.+|+...++.  ..||.|+-.+.
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~--R~cpic~ik~~   56 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN--RGCPICQIKLQ   56 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc--CCCCceeeccc
Confidence            357999966554321   23 399999999999999988753  48999994443

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

Probab=97.18  E-value=0.00012  Score=45.20  Aligned_cols=47  Identities=28%  Similarity=0.726  Sum_probs=34.4

Q ss_pred             ccccccccccC------------ceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            9 VCSVCHGNFNV------------PCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         9 ~CpIC~~~~~~------------pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .|.||.-.|.-            |.... |.|.|..-||.+|+.....  .-.||+||+...
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts--q~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS--QGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc--cccCCcchheeE
Confidence            77887766531            34443 9999999999999876542  248999998754

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

Probab=97.12  E-value=0.00052  Score=42.72  Aligned_cols=29  Identities=34%  Similarity=0.635  Sum_probs=25.7

Q ss_pred             cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386           24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus        24 ~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .|.|.|..-||.+|+....     .||++|+...
T Consensus        53 ~CnHaFH~HCI~rWL~Tk~-----~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTKG-----VCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhCC-----CCCCCCceeE
Confidence            4999999999999998865     8999999754

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

Probab=97.11  E-value=0.00025  Score=55.66  Aligned_cols=46  Identities=33%  Similarity=0.749  Sum_probs=35.9

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l   59 (142)
                      ...-|.||.+-..+.+.++|||.-|  |..-.-.-      ..||+||+.+...
T Consensus       304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l------~~CPvCR~rI~~~  349 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHL------PQCPVCRQRIRLV  349 (355)
T ss_pred             CCCceEEecCCccceeeecCCcEEE--chHHHhhC------CCCchhHHHHHHH
Confidence            3467999999999999999999877  66543222      3799999987653

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

Probab=97.09  E-value=0.0001  Score=56.42  Aligned_cols=42  Identities=26%  Similarity=0.694  Sum_probs=35.3

Q ss_pred             ccccccccccccCceeecCCC-cccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.-|.||+|...+.+.++||| .-|.+|-.+. .        .||+||+.+.
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-~--------eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-N--------ECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcccc-c--------cCchHHHHHH
Confidence            467999999999999999999 6788887653 1        6999998754

>PHA03096 p28-like protein; Provisional

Probab=96.97  E-value=0.00074  Score=52.10  Aligned_cols=47  Identities=21%  Similarity=0.277  Sum_probs=32.0

Q ss_pred             ccccccccccc--------CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            8 DVCSVCHGNFN--------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         8 ~~CpIC~~~~~--------~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      ..|.||++...        ..+..+|.|.||..|+..|...+..  ...||.|+.-.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~--~e~~~~c~~~~  233 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY--KETEPENRRLN  233 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh--cccCccccchh
Confidence            57999999543        2344579999999999998766532  23455555433

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

Probab=96.96  E-value=0.00031  Score=60.01  Aligned_cols=46  Identities=26%  Similarity=0.720  Sum_probs=40.7

Q ss_pred             cccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..|+||.+ ...++.+.|||.||.+|+...++...   ...||.||..+.
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~---~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSE---NAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhcccccc---CCCCcHHHHHHH
Confidence            78999999 88899999999999999999998764   238999998876

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

Probab=96.93  E-value=0.00074  Score=46.10  Aligned_cols=50  Identities=18%  Similarity=0.492  Sum_probs=42.6

Q ss_pred             ccccccccccccCceeec----CCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            7 GDVCSVCHGNFNVPCQAN----CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~----CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      -.+|-||.|...+...+.    ||-..|..|....|+...  -.+.||.|+.++..
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~--~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN--LYPVCPVCKTSFKS  133 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc--cCCCCCcccccccc
Confidence            369999999998887764    999999999999999874  45699999988653

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

Probab=96.90  E-value=0.00078  Score=52.42  Aligned_cols=47  Identities=28%  Similarity=0.532  Sum_probs=39.6

Q ss_pred             CCCccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      |++...||+|...-.+|..+. -|-.||..|+.+|..+.+     .||+=..+
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~-----~CPVT~~p  344 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG-----HCPVTGYP  344 (357)
T ss_pred             CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC-----CCCccCCc
Confidence            466789999999888887765 699999999999999765     89987655

>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=96.84  E-value=0.0013  Score=49.20  Aligned_cols=100  Identities=19%  Similarity=0.466  Sum_probs=57.4

Q ss_pred             ccccccccccc-cCc-ee--e-c-CCCcccHhHHHHHHHhCCCCCCCCCC--CCcccccccccCCcccccCCCchHhhHH
Q 032386            7 GDVCSVCHGNF-NVP-CQ--A-N-CSHWFCGNCIMLVWDHGSTLQACRCP--LCRRRITLLIPNDDSLRQRHDPAVGDIL   78 (142)
Q Consensus         7 ~~~CpIC~~~~-~~p-v~--~-~-CgH~fC~~Ci~~~~~~~~~~~~~~CP--~Cr~~~~~l~~~~~~~~~~~~~~~~~~~   78 (142)
                      +..||+|...- -+| +.  + | |-|..|.+|+-+.+..++    ..||  -|.+.+....-..+.+++..-..-.++.
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp----AqCP~~gC~kILRK~kf~~qtFeD~~vEkEvdvR   85 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP----AQCPYKGCGKILRKIKFIKQTFEDITVEKEVDVR   85 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC----CCCCCccHHHHHHHhcccccccchhhhhhhhhHH
Confidence            45899999743 233 22  2 3 999999999999888765    5899  8887665322222212211111111122


Q ss_pred             HHH-HHHH---HhhCCCCCCcchhhhhhchhHHHHHHH
Q 032386           79 QKV-ESYN---RIFGGPTTANGLFQRIQDLPFLLRRLV  112 (142)
Q Consensus        79 ~~i-~~~n---~~~~~~~~~~~~~~~l~d~p~l~~~~~  112 (142)
                      ..+ +-+|   ..|+|..  ....++|..+-.++-.++
T Consensus        86 kr~~r~Fnk~~~eF~gdl--~~YNdYLEevE~l~f~l~  121 (314)
T COG5220          86 KRLLRAFNKEEEEFGGDL--AKYNDYLEEVEELVFELL  121 (314)
T ss_pred             HHHHHHhccchhhhCccH--HHHHHHHHHHHHHHHHHH
Confidence            222 2333   3466666  777777777666654443

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

Probab=96.78  E-value=0.0023  Score=51.26  Aligned_cols=49  Identities=20%  Similarity=0.364  Sum_probs=36.0

Q ss_pred             cccccccccccc--C-ceeecCCCcccHhHHHHHHHhCC---CCCCCCCCCCccc
Q 032386            7 GDVCSVCHGNFN--V-PCQANCSHWFCGNCIMLVWDHGS---TLQACRCPLCRRR   55 (142)
Q Consensus         7 ~~~CpIC~~~~~--~-pv~~~CgH~fC~~Ci~~~~~~~~---~~~~~~CP~Cr~~   55 (142)
                      .+.|.||++...  . -+.++|+|.||.+|...|.....   .....+||.+...
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            368999999653  2 35589999999999999977432   2345678877654

>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=96.75  E-value=0.0018  Score=49.62  Aligned_cols=45  Identities=24%  Similarity=0.798  Sum_probs=33.8

Q ss_pred             cccccccc-ccCce-e---ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            9 VCSVCHGN-FNVPC-Q---ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         9 ~CpIC~~~-~~~pv-~---~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .||+|... ..+|- .   -+|+|..|.+|+-..+..++    ..||.|...+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~----~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP----AQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC----CCCCcccchhh
Confidence            59999874 33331 1   26999999999999888765    48999987654

>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=96.71  E-value=0.0026  Score=44.72  Aligned_cols=58  Identities=19%  Similarity=0.352  Sum_probs=39.9

Q ss_pred             CccccccccccccCceeecCC------------Ccc-cHhHHHHHHHhCCC--------------------------CCC
Q 032386            6 CGDVCSVCHGNFNVPCQANCS------------HWF-CGNCIMLVWDHGST--------------------------LQA   46 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~Cg------------H~f-C~~Ci~~~~~~~~~--------------------------~~~   46 (142)
                      ++.+||||++...++|.+-|.            .+| ...|+.++-+....                          ...
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            578999999999999998443            222 25788876553211                          114


Q ss_pred             CCCCCCcccccccccCC
Q 032386           47 CRCPLCRRRITLLIPND   63 (142)
Q Consensus        47 ~~CP~Cr~~~~~l~~~~   63 (142)
                      ..||+||..+..+....
T Consensus        81 L~CPLCRG~V~GWtvve   97 (162)
T PF07800_consen   81 LACPLCRGEVKGWTVVE   97 (162)
T ss_pred             ccCccccCceeceEEch
Confidence            58999999988665544

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.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.48  E-value=0.0013  Score=38.11  Aligned_cols=45  Identities=22%  Similarity=0.481  Sum_probs=34.4

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ...|-.|...-...+.++|||.-|..|... .+.+      .||.|.++++.
T Consensus         7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~-~rYn------gCPfC~~~~~~   51 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPG-ERYN------GCPFCGTPFEF   51 (55)
T ss_pred             ceeEEEccccccccccccccceeeccccCh-hhcc------CCCCCCCcccC
Confidence            345666777777888999999999999855 3332      79999998653

>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=96.44  E-value=0.001  Score=38.05  Aligned_cols=47  Identities=17%  Similarity=0.544  Sum_probs=23.1

Q ss_pred             cccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            8 DVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      +.|||....+..|+... |.|.-|.+= ..|+......+...||.|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            68999999999999965 999877642 233332222334789999863

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.

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

Probab=96.35  E-value=0.0023  Score=49.41  Aligned_cols=45  Identities=27%  Similarity=0.829  Sum_probs=37.3

Q ss_pred             ccccccccccc------CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            8 DVCSVCHGNFN------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         8 ~~CpIC~~~~~------~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      ..|-||-+.+.      .|..+.|||++|..|+.....+..    ..||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~----i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSR----ILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCce----eeccCCCCcc
Confidence            57999998764      477788999999999999887764    4789999874

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

Probab=96.29  E-value=0.003  Score=35.75  Aligned_cols=42  Identities=24%  Similarity=0.646  Sum_probs=20.5

Q ss_pred             ccccccccc--Cceee--cCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386           10 CSVCHGNFN--VPCQA--NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus        10 CpIC~~~~~--~pv~~--~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      ||+|.+.+.  +--..  +||+..|..|.....+...    -.||-||++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~----g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEG----GRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-----SB-TTT--B
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccC----CCCCCCCCC
Confidence            788988763  22333  4999999999988765322    389999986

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.13  E-value=0.014  Score=44.51  Aligned_cols=53  Identities=23%  Similarity=0.457  Sum_probs=38.9

Q ss_pred             CCccccccccccccC---cee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc--ccccCC
Q 032386            5 PCGDVCSVCHGNFNV---PCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT--LLIPND   63 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~---pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~--~l~~~~   63 (142)
                      ...+.|||....|..   -+. -+|||+|+..++.+. ..+     ..||+|.+++.  .+++.+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~-----~~Cp~c~~~f~~~DiI~Ln  169 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKS-----KKCPVCGKPFTEEDIIPLN  169 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-ccc-----ccccccCCccccCCEEEec
Confidence            455899999988853   233 479999999999996 322     27999999988  444443

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.00  E-value=0.0053  Score=46.23  Aligned_cols=48  Identities=10%  Similarity=0.218  Sum_probs=39.5

Q ss_pred             CCccccccccccccCc----eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVP----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ...+.||+|.+.+++.    +.-+|||.+|.+|+++.++...     .||+|..++.
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            3557899999999863    3347999999999999887754     8999998876

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

Probab=95.98  E-value=0.0016  Score=48.73  Aligned_cols=45  Identities=29%  Similarity=0.734  Sum_probs=30.1

Q ss_pred             ccccccccccc-Cc-eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccccc
Q 032386            8 DVCSVCHGNFN-VP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (142)
Q Consensus         8 ~~CpIC~~~~~-~p-v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l   59 (142)
                      ..|-.|...-. +| ..|.|+|+||..|....  .     +..||.|++++..+
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~-----~~~C~lCkk~ir~i   50 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--S-----PDVCPLCKKSIRII   50 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccC--C-----ccccccccceeeee
Confidence            35666665332 33 33679999999998542  1     12899999997743

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

Probab=95.85  E-value=0.0059  Score=39.89  Aligned_cols=27  Identities=30%  Similarity=0.547  Sum_probs=24.3

Q ss_pred             cCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386           24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus        24 ~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      .|.|.|..-||.+|+++..     .||+|.+.
T Consensus        80 ~CNHaFH~hCisrWlktr~-----vCPLdn~e  106 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRN-----VCPLDNKE  106 (114)
T ss_pred             ecchHHHHHHHHHHHhhcC-----cCCCcCcc
Confidence            5999999999999999876     89999875

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

Probab=95.75  E-value=0.011  Score=47.08  Aligned_cols=34  Identities=24%  Similarity=0.739  Sum_probs=26.1

Q ss_pred             CCCcccHhHHHHHHHhCCC--------CCCCCCCCCcccccc
Q 032386           25 CSHWFCGNCIMLVWDHGST--------LQACRCPLCRRRITL   58 (142)
Q Consensus        25 CgH~fC~~Ci~~~~~~~~~--------~~~~~CP~Cr~~~~~   58 (142)
                      |....|.+|+-+|+....+        ++...||+||+.+-.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            4556689999999987542        456799999998753

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

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

Probab=95.68  E-value=0.007  Score=47.74  Aligned_cols=50  Identities=24%  Similarity=0.568  Sum_probs=39.5

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +++..|.||-+-++....+||+|..|.-|..+.-.-=   -...||.||..-.
T Consensus        59 Een~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY---~~K~C~~CrTE~e  108 (493)
T COG5236          59 EENMNCQICAGSTTYSARYPCGHQICHACAVRLRALY---MQKGCPLCRTETE  108 (493)
T ss_pred             cccceeEEecCCceEEEeccCCchHHHHHHHHHHHHH---hccCCCccccccc
Confidence            5567899999999999999999999999986642210   1138999998765

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.49  E-value=0.021  Score=40.25  Aligned_cols=53  Identities=15%  Similarity=0.466  Sum_probs=38.7

Q ss_pred             CCCCC-CccccccccccccCceeecCC--C---cccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            1 MEGPP-CGDVCSVCHGNFNVPCQANCS--H---WFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         1 ~~~~~-~~~~CpIC~~~~~~pv~~~Cg--H---~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ||++. .+..|-||.+.-. +-.-||.  .   .-..+|+++|...+   +...|+.|+.+..
T Consensus         1 ~~~~s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s---~~~~CeiC~~~Y~   59 (162)
T PHA02825          1 MEDVSLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTS---KNKSCKICNGPYN   59 (162)
T ss_pred             CCCcCCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcC---CCCcccccCCeEE
Confidence            56654 4579999998754 3334644  4   33899999999875   4579999999877

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

Probab=95.32  E-value=0.008  Score=48.07  Aligned_cols=48  Identities=23%  Similarity=0.518  Sum_probs=35.9

Q ss_pred             cccccccccccc-Cc---eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFN-VP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~-~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++-|..|-+.+- .|   -.+||.|+|...|+.+++.+   .+..+||.||+-.+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~---n~~rsCP~CrklrS  416 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN---NGTRSCPNCRKLRS  416 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh---CCCCCCccHHHHHh
Confidence            467888888653 22   23789999999999999876   34579999995444

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

Probab=95.23  E-value=0.016  Score=46.31  Aligned_cols=46  Identities=24%  Similarity=0.486  Sum_probs=36.4

Q ss_pred             cccccccccccc---CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            7 GDVCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         7 ~~~CpIC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      -+.|||=.+.-.   .|+.+.|||+-+.+-+.+.-+++.  ...+||.|-.
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~--~sfKCPYCP~  382 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGS--QSFKCPYCPV  382 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCC--eeeeCCCCCc
Confidence            368999877554   489999999999999999776653  2478999954

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

Probab=95.21  E-value=0.06  Score=40.20  Aligned_cols=51  Identities=20%  Similarity=0.456  Sum_probs=38.7

Q ss_pred             Ccccccccccccc--CceeecCCCcccHhHHHHHHHhCCC---CCCCCCCCCcccc
Q 032386            6 CGDVCSVCHGNFN--VPCQANCSHWFCGNCIMLVWDHGST---LQACRCPLCRRRI   56 (142)
Q Consensus         6 ~~~~CpIC~~~~~--~pv~~~CgH~fC~~Ci~~~~~~~~~---~~~~~CP~Cr~~~   56 (142)
                      -+--|..|...+.  +.+.+.|-|.|...|+.+|-.+-+.   .....||.|.+.+
T Consensus        49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            3457889988775  5677889999999999998776432   2345899998764

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

Probab=94.96  E-value=0.015  Score=44.67  Aligned_cols=47  Identities=23%  Similarity=0.490  Sum_probs=37.5

Q ss_pred             CCccccccccccccCceeecC----CCcccHhHHHHHHHhCCCCCCCCCCC
Q 032386            5 PCGDVCSVCHGNFNVPCQANC----SHWFCGNCIMLVWDHGSTLQACRCPL   51 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~C----gH~fC~~Ci~~~~~~~~~~~~~~CP~   51 (142)
                      ...+.|.+|.+.+.+-....|    .|.||..|-++.+++...++..-||.
T Consensus       266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS  316 (352)
T KOG3579|consen  266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS  316 (352)
T ss_pred             CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence            445899999999998777666    59999999999998876666565663

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

Probab=94.78  E-value=0.011  Score=53.48  Aligned_cols=47  Identities=30%  Similarity=0.535  Sum_probs=40.2

Q ss_pred             Ccccccccccccc-CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFN-VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~-~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +...|+||.+.+. ....+.|||.+|..|...|..++.     .||.|+....
T Consensus      1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s-----~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS-----RCPICKSIKG 1199 (1394)
T ss_pred             cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc-----cCcchhhhhh
Confidence            3458999999998 677889999999999999998875     8999985544

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

Probab=94.64  E-value=0.032  Score=51.53  Aligned_cols=54  Identities=26%  Similarity=0.617  Sum_probs=40.8

Q ss_pred             CCcccccccccc-c--cCceeecCCCcccHhHHHHHHHhCCC-----CCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGN-F--NVPCQANCSHWFCGNCIMLVWDHGST-----LQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~-~--~~pv~~~CgH~fC~~Ci~~~~~~~~~-----~~~~~CP~Cr~~~~~   58 (142)
                      +.|.-|.||+.- +  ...+.+.|+|.|...|..+.+++.--     .+-++||.|+.+++.
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            446789999973 3  24577999999999999988776431     334589999998774

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

Probab=94.59  E-value=0.0075  Score=51.39  Aligned_cols=49  Identities=22%  Similarity=0.579  Sum_probs=41.7

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..+||||......|+.+.|-|.||..|+...+...+  +...||+|+..+.
T Consensus        21 ~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~--~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   21 ILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKK--GPKQCALCKSDIE   69 (684)
T ss_pred             hccCCceeEEeeccchhhhhHHHHhhhhhceeeccC--ccccchhhhhhhh
Confidence            478999999999999999999999999988777654  2568999997655

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

Probab=94.40  E-value=0.027  Score=43.87  Aligned_cols=43  Identities=30%  Similarity=0.630  Sum_probs=34.6

Q ss_pred             ccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      -+.||||.+.+..|+. =+=||.-|.+|-.+.. +       .||.||.++.
T Consensus        48 lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~-~-------~CP~Cr~~~g   91 (299)
T KOG3002|consen   48 LLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS-N-------KCPTCRLPIG   91 (299)
T ss_pred             hccCchhhccCcccceecCCCcEehhhhhhhhc-c-------cCCccccccc
Confidence            3799999999998865 3468999999987532 2       7999998876

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

Probab=94.22  E-value=0.018  Score=48.77  Aligned_cols=38  Identities=32%  Similarity=0.971  Sum_probs=30.8

Q ss_pred             ccccccccccc----CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCc
Q 032386            8 DVCSVCHGNFN----VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR   53 (142)
Q Consensus         8 ~~CpIC~~~~~----~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr   53 (142)
                      +.|+||...|.    .|+.+-|||+.|+.|+...-+.       +|| |+
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~-------scp-~~   53 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA-------SCP-TK   53 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc-------cCC-CC
Confidence            57999987663    6899999999999999886544       788 44

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

Probab=93.83  E-value=0.03  Score=38.44  Aligned_cols=35  Identities=17%  Similarity=0.465  Sum_probs=26.6

Q ss_pred             CccccccccccccC--cee-ecCC------CcccHhHHHHHHHh
Q 032386            6 CGDVCSVCHGNFNV--PCQ-ANCS------HWFCGNCIMLVWDH   40 (142)
Q Consensus         6 ~~~~CpIC~~~~~~--pv~-~~Cg------H~fC~~Ci~~~~~~   40 (142)
                      ...+|.||++.+.+  .++ ++||      |.||.+|+.+|-+.
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~   68 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE   68 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence            36799999998766  544 4555      78999999998433

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.

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

Probab=93.81  E-value=0.031  Score=48.69  Aligned_cols=42  Identities=29%  Similarity=0.735  Sum_probs=34.3

Q ss_pred             CccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            6 CGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      +.-.|..|-..+..|++ -.|||+|...|+.   +..     ..||.|+..
T Consensus       839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~-----~~CP~C~~e  881 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKE-----DKCPKCLPE  881 (933)
T ss_pred             eeeeecccCCccccceeeeecccHHHHHhhc---cCc-----ccCCccchh
Confidence            34589999999999866 6799999999998   222     389999873

>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=93.75  E-value=0.071  Score=29.38  Aligned_cols=40  Identities=23%  Similarity=0.646  Sum_probs=24.0

Q ss_pred             cccccccccCceee---cCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386           10 CSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus        10 CpIC~~~~~~pv~~---~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      |.+|.++....+.=   .|+-.+...|+..||+..+.   ..||.|
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            67899988877663   39989999999999987642   269987

; PDB: 3NW0_A 2CT0_A.

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

Probab=93.42  E-value=0.06  Score=44.11  Aligned_cols=38  Identities=18%  Similarity=0.395  Sum_probs=32.0

Q ss_pred             CCccccccccccccC-ceeecCCCcccHhHHHHHHHhCC
Q 032386            5 PCGDVCSVCHGNFNV-PCQANCSHWFCGNCIMLVWDHGS   42 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~-pv~~~CgH~fC~~Ci~~~~~~~~   42 (142)
                      ....+|.||.+.... ...+.|||.||..|+..|+..+-
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI  106 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKI  106 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhhee
Confidence            345799999998875 66678999999999999988754

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

Probab=93.19  E-value=0.029  Score=43.66  Aligned_cols=42  Identities=29%  Similarity=0.567  Sum_probs=28.6

Q ss_pred             ccccccc-cccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            9 VCSVCHG-NFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         9 ~CpIC~~-~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .|.-|-- +......++|.|.||.+|...-  .     .+.||.|-..+.
T Consensus        92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~--~-----dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   92 FCDRCDFPIAIYGRMIPCKHVFCLECARSD--S-----DKICPLCDDRVQ  134 (389)
T ss_pred             eecccCCcceeeecccccchhhhhhhhhcC--c-----cccCcCcccHHH
Confidence            4555544 3334556799999999998542  1     138999987765

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

Probab=93.02  E-value=0.074  Score=42.88  Aligned_cols=44  Identities=23%  Similarity=0.568  Sum_probs=30.5

Q ss_pred             ccccccccc-cccC---ceeecCCCcccHhHHHHHHHhCCC-CCCCCCC
Q 032386            7 GDVCSVCHG-NFNV---PCQANCSHWFCGNCIMLVWDHGST-LQACRCP   50 (142)
Q Consensus         7 ~~~CpIC~~-~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~-~~~~~CP   50 (142)
                      ..+|.||.+ ....   .....|+|.||..|..+++..+.. ...+.||
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~  194 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCP  194 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCC
Confidence            468999994 3322   124569999999999999885421 3345676

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.93  E-value=0.09  Score=39.76  Aligned_cols=34  Identities=18%  Similarity=0.117  Sum_probs=31.1

Q ss_pred             cccccccccccCceeecCCCcccHhHHHHHHHhC
Q 032386            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHG   41 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~   41 (142)
                      ..|..|+..+.+||.++=||.||.+||.+++-..
T Consensus        44 dcCsLtLqPc~dPvit~~GylfdrEaILe~ilaq   77 (303)
T KOG3039|consen   44 DCCSLTLQPCRDPVITPDGYLFDREAILEYILAQ   77 (303)
T ss_pred             ceeeeecccccCCccCCCCeeeeHHHHHHHHHHH
Confidence            5789999999999999999999999999997654

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

Probab=92.76  E-value=0.071  Score=46.53  Aligned_cols=50  Identities=26%  Similarity=0.517  Sum_probs=37.5

Q ss_pred             CccccccccccccC--cee--ecCCCcccHhHHHHHHHhCCC--CCCCCCCCCccc
Q 032386            6 CGDVCSVCHGNFNV--PCQ--ANCSHWFCGNCIMLVWDHGST--LQACRCPLCRRR   55 (142)
Q Consensus         6 ~~~~CpIC~~~~~~--pv~--~~CgH~fC~~Ci~~~~~~~~~--~~~~~CP~Cr~~   55 (142)
                      +..+|.||.+.+..  |+-  .+|-|+|...||.+|-++..+  .+.+.||.|+..
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            34799999998763  332  358899999999999876432  246799999843

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

Probab=92.38  E-value=0.13  Score=37.05  Aligned_cols=53  Identities=21%  Similarity=0.312  Sum_probs=34.9

Q ss_pred             Ccccccccccccc-----Ccee--ecCCCcccHhHHHHHHHhCCCCC----C--CCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFN-----VPCQ--ANCSHWFCGNCIMLVWDHGSTLQ----A--CRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~-----~pv~--~~CgH~fC~~Ci~~~~~~~~~~~----~--~~CP~Cr~~~~~   58 (142)
                      +..-|.||+.+--     +.+.  ..||..|..-|+..|++.-..++    .  -.||.|..++..
T Consensus       164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            3357888876432     2222  35999999999999988522111    0  179999988764

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

Probab=92.33  E-value=0.0048  Score=37.62  Aligned_cols=46  Identities=20%  Similarity=0.540  Sum_probs=27.4

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccC
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~   62 (142)
                      +..||.|...+.--   + +|.+|..|-..+...+      .||.|.+++..|..-
T Consensus         1 e~~CP~C~~~L~~~---~-~~~~C~~C~~~~~~~a------~CPdC~~~Le~LkAC   46 (70)
T PF07191_consen    1 ENTCPKCQQELEWQ---G-GHYHCEACQKDYKKEA------FCPDCGQPLEVLKAC   46 (70)
T ss_dssp             --B-SSS-SBEEEE---T-TEEEETTT--EEEEEE------E-TTT-SB-EEEEET
T ss_pred             CCcCCCCCCccEEe---C-CEEECccccccceecc------cCCCcccHHHHHHHh
Confidence            46899999876531   1 8999999998765554      799999998866544

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

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

Probab=91.10  E-value=0.3  Score=38.00  Aligned_cols=53  Identities=25%  Similarity=0.574  Sum_probs=37.4

Q ss_pred             CCcccccccccccc-Cc--eeecCCCcccHhHHHHHHHh------------------CCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFN-VP--CQANCSHWFCGNCIMLVWDH------------------GSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~-~p--v~~~CgH~fC~~Ci~~~~~~------------------~~~~~~~~CP~Cr~~~~   57 (142)
                      .....|.||+--|. .|  ..|.|-|-|...|+.+|+..                  ....-...||+||..+.
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            34578999998664 34  45789999999999888653                  11111125999999886

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.03  E-value=0.16  Score=39.44  Aligned_cols=34  Identities=21%  Similarity=0.759  Sum_probs=25.2

Q ss_pred             CCCcccHhHHHHHHHhCCC--------CCCCCCCCCcccccc
Q 032386           25 CSHWFCGNCIMLVWDHGST--------LQACRCPLCRRRITL   58 (142)
Q Consensus        25 CgH~fC~~Ci~~~~~~~~~--------~~~~~CP~Cr~~~~~   58 (142)
                      |....|.+|+.+|+....+        .+...||+||+.+..
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            6677889999998765432        234699999998763

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=90.92  E-value=0.16  Score=40.12  Aligned_cols=47  Identities=26%  Similarity=0.578  Sum_probs=32.3

Q ss_pred             cccccccccccc--Cceee--cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFN--VPCQA--NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~--~pv~~--~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.-||.|.+.+.  +--..  +||-..|.-|....-+.-.    -.||-||+.-+
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~ln----grcpacrr~y~   64 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLN----GRCPACRRKYD   64 (480)
T ss_pred             cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhcc----CCChHhhhhcc
Confidence            345999999654  33333  5888889999877544332    28999998654

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

Probab=90.92  E-value=0.093  Score=38.79  Aligned_cols=39  Identities=31%  Similarity=0.661  Sum_probs=30.9

Q ss_pred             cccccccccCceeecCCC-cccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386           10 CSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus        10 CpIC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      |-.|.+.-..-+.+||.| .+|..|-.. .        ..||.|+....
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-~--------~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES-L--------RICPICRSPKT  200 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc-C--------ccCCCCcChhh
Confidence            888888777777789998 889999855 1        27999997644

>PHA02862 5L protein; Provisional

Probab=90.32  E-value=0.31  Score=33.92  Aligned_cols=47  Identities=19%  Similarity=0.524  Sum_probs=34.4

Q ss_pred             ccccccccccccCceeecCC-----CcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCS-----HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~Cg-----H~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +..|=||.+.-.+. .-||.     .+-..+|+.+|+..+   +...|+.|+.+..
T Consensus         2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S---~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYS---KKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcC---CCcCccCCCCeEE
Confidence            35789999976544 34554     245789999999764   4579999998765

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

Probab=90.31  E-value=0.17  Score=38.95  Aligned_cols=42  Identities=21%  Similarity=0.636  Sum_probs=33.3

Q ss_pred             ccccccccccc----CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            8 DVCSVCHGNFN----VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         8 ~~CpIC~~~~~----~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      .-||||.+.+.    .|..++|||..-..|.+.....+     .+||+|.+
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            34999998653    56678899999998888876543     69999988

>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=90.17  E-value=0.12  Score=29.07  Aligned_cols=32  Identities=34%  Similarity=0.994  Sum_probs=22.6

Q ss_pred             eeecCC-CcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386           21 CQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus        21 v~~~Cg-H~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      -.+.|. |-.|..|+...+..+.     .||.|..++.
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            455677 8899999999887765     8999998754

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.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.75  E-value=0.2  Score=38.12  Aligned_cols=61  Identities=21%  Similarity=0.505  Sum_probs=43.5

Q ss_pred             CCCccccccccccccCceee----cCC-----CcccHhHHHHHHHhCCC---CCCCCCCCCcccccccccCCc
Q 032386            4 PPCGDVCSVCHGNFNVPCQA----NCS-----HWFCGNCIMLVWDHGST---LQACRCPLCRRRITLLIPNDD   64 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~----~Cg-----H~fC~~Ci~~~~~~~~~---~~~~~CP~Cr~~~~~l~~~~~   64 (142)
                      -+.+..|=||+..=++-...    ||.     ||-..+|+.+|++++..   .....||.|+..-....|.-.
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            45667899999865543222    442     78899999999998754   445689999987666666543

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

Probab=86.82  E-value=0.57  Score=26.20  Aligned_cols=40  Identities=18%  Similarity=0.567  Sum_probs=24.4

Q ss_pred             ccccccccc--CceeecCCC-----cccHhHHHHHHHhCCCCCCCCCCCC
Q 032386           10 CSVCHGNFN--VPCQANCSH-----WFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus        10 CpIC~~~~~--~pv~~~CgH-----~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      |-||++.-.  .|...||+-     .-..+|+.+|+..+.   ...|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~---~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG---NRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT----SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC---CCcCCCC
Confidence            668888644  256777653     347899999998742   3468877

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

Probab=85.72  E-value=0.61  Score=36.63  Aligned_cols=45  Identities=20%  Similarity=0.527  Sum_probs=35.3

Q ss_pred             ccccccccccc---CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            8 DVCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         8 ~~CpIC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      +.||+=.+..+   .|+.+.|||+.-.+-+.+.-+++.  ...+||.|-.
T Consensus       337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~--~~FKCPYCP~  384 (396)
T COG5109         337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGV--LSFKCPYCPE  384 (396)
T ss_pred             eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCc--EEeeCCCCCc
Confidence            67888777654   489999999999999988666553  3578999954

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

Probab=82.76  E-value=2  Score=38.01  Aligned_cols=51  Identities=16%  Similarity=0.385  Sum_probs=38.7

Q ss_pred             CCCccccccccc--cccCceeecCCCc-----ccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHG--NFNVPCQANCSHW-----FCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~--~~~~pv~~~CgH~-----fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+|+.+|-||..  .-.+|..-||..+     ...+|+.+|+..++   ..+|-.|+.++.
T Consensus         9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~---~~kCdiChy~~~   66 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG---TKKCDICHYEYK   66 (1175)
T ss_pred             CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC---Ccceeeecceee
Confidence            467799999986  3456777777642     47899999998754   468999998755

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

Probab=80.21  E-value=1.2  Score=39.14  Aligned_cols=60  Identities=13%  Similarity=0.143  Sum_probs=40.4

Q ss_pred             CCCccccccccccccCc-------eeecCCCcccHhHHHHHHHhCCC-CCCCCCCCCcccccccccCC
Q 032386            4 PPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGST-LQACRCPLCRRRITLLIPND   63 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~p-------v~~~CgH~fC~~Ci~~~~~~~~~-~~~~~CP~Cr~~~~~l~~~~   63 (142)
                      +.+..+|++|.--+.+|       ..-+|+|.+|..||..|.++-.. ..+..|+.|..-+..+..+.
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            44556777777655542       22349999999999998776432 22457899988877554443

---

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	142
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-10
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-09
1z6u_A	150	NP95-like ring finger protein isoform B; structura	5e-09
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-09
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	2e-08
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	4e-08
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	7e-08
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	1e-07
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-07
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	5e-07
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	6e-07
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	7e-07
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	7e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-06
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-06
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	5e-06
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	6e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	7e-06
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	7e-06
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	7e-06
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	8e-06
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-05
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-05
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	7e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	7e-05
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	2e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-04
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	4e-04

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

 Score = 53.9 bits (129), Expect = 3e-10
 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 = 51.5 bits (123), Expect = 2e-09
 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 = 50.8 bits (121), Expect = 5e-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 = 48.7 bits (116), Expect = 5e-09
 Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 5/48 (10%)

Query: 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57
          C++C      P    C H FC  C+      G      RC LCR+ I 
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGK-----RCALCRQEIP 60

>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 = 48.4 bits (115), Expect = 2e-08
 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 = 47.0 bits (112), Expect = 4e-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 = 45.5 bits (108), Expect = 7e-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 = 46.3 bits (110), Expect = 1e-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 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGP--SQCPLCKNDITKRSLQES 76

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

 Score = 43.8 bits (104), Expect = 5e-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

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

 Score = 43.7 bits (103), Expect = 5e-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

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

 Score = 43.5 bits (103), Expect = 6e-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

>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 = 43.4 bits (103), Expect = 7e-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

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

 Score = 43.2 bits (102), Expect = 7e-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

>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 = 43.3 bits (102), Expect = 1e-06
 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

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

 Score = 42.5 bits (100), Expect = 1e-06
 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

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

 Score = 43.3 bits (102), Expect = 2e-06
 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

>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 = 42.1 bits (99), Expect = 2e-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: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-----CPTCRKKIN 62

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

 Score = 44.4 bits (104), 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

>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 = 42.2 bits (99), Expect = 5e-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

>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 = 41.4 bits (97), Expect = 6e-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

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

 Score = 40.9 bits (96), Expect = 7e-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

>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 = 42.0 bits (98), Expect = 7e-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

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

 Score = 40.0 bits (94), Expect = 7e-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

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

 Score = 40.5 bits (95), Expect = 8e-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

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

 Score = 40.1 bits (94), Expect = 1e-05
 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

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

 Score = 39.7 bits (93), Expect = 1e-05
 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

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

 Score = 40.1 bits (94), Expect = 1e-05
 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

>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 = 40.7 bits (95), Expect = 2e-05
 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 = 39.7 bits (93), Expect = 2e-05
 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

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

 Score = 39.4 bits (92), Expect = 2e-05
 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

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

 Score = 38.6 bits (90), Expect = 7e-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

>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 = 39.7 bits (92), Expect = 7e-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

>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 = 37.4 bits (87), Expect = 1e-04
 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

>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 = 39.2 bits (90), 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

>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 = 37.6 bits (87), Expect = 3e-04
 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

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

 Score = 36.6 bits (85), Expect = 4e-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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	142
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.66
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.63
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.62
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.61
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.61
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.61
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.59
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.58
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.58
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.58
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.58
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.57
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.57
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.56
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.56
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.55
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.55
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.55
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.55
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.54
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.54
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.53
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.53
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.52
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.52
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.51
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.51
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.51
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.51
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.51
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.5
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.5
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.48
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.48
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.48
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.47
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.47
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.45
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.45
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.45
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.44
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.44
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.44
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.43
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.43
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.41
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.41
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.4
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.4
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.39
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.39
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.34
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.32
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.31
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.31
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.3
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.24
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.23
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.23
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.2
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.17
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.13
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.12
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.97
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.94
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.93
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.69
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.42
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.38
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.26
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.53
3nw0_A	238	Non-structural maintenance of chromosomes element	97.04
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.96
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	95.88
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	92.32
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	91.06
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	90.57
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	90.45
3mjh_B	34	Early endosome antigen 1; protein-zinc finger comp	88.06
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	86.05
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	85.77
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	84.17
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	83.55
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	83.06
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	82.9
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	82.13
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	80.71
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	80.49

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

Probab=99.66  E-value=9.4e-17  Score=99.71  Aligned_cols=53  Identities=15%  Similarity=0.179  Sum_probs=46.9

Q ss_pred             CCCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            1 MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         1 ~~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++..++++.||||++.+.+|+.++|||+||..||.+|+..+.    ..||+||+.+.
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            356788999999999999999999999999999999997532    48999999865

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

Probab=99.63  E-value=6.8e-16  Score=97.70  Aligned_cols=51  Identities=12%  Similarity=0.049  Sum_probs=46.1

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ...++++.||||++.+.+||+++|||+||..||.+||....     +||+|++.+.
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            45678899999999999999999999999999999998643     8999999865

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

Probab=99.62  E-value=1.3e-15  Score=97.28  Aligned_cols=51  Identities=20%  Similarity=0.513  Sum_probs=45.0

Q ss_pred             CCCCccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      ..++++.||||++.+.+|+.++ |||+||..||.+||....   ...||+||+.+
T Consensus         9 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~---~~~CP~Cr~~~   60 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESD---EHTCPTCHQND   60 (92)
T ss_dssp             CCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCT---TCCCTTTCCSS
T ss_pred             cCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcC---CCcCcCCCCcC
Confidence            4567899999999999999999 999999999999998642   35899999875

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

Probab=99.61  E-value=5.4e-16  Score=95.53  Aligned_cols=52  Identities=19%  Similarity=0.521  Sum_probs=45.3

Q ss_pred             CCCCCccccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      +..++++.|+||++.+.+|+.++ |||+||..||.+|++...   ...||+||+.+
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            45567799999999999999999 999999999999998742   34899999964

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

Probab=99.61  E-value=3.5e-16  Score=94.23  Aligned_cols=52  Identities=25%  Similarity=0.611  Sum_probs=45.1

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +..+++..|+||++.+.+|+.++|||.||..|+.+|++..    ...||+||+.+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~   61 (66)
T 2ecy_A           10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSS----SPKCTACQESIV   61 (66)
T ss_dssp             CSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTS----SCCCTTTCCCCC
T ss_pred             hcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhC----cCCCCCCCcCCC
Confidence            4567789999999999999999999999999999999633    248999999854

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

Probab=99.61  E-value=9e-16  Score=93.96  Aligned_cols=52  Identities=27%  Similarity=0.588  Sum_probs=45.8

Q ss_pred             CCCCCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +..+++..|+||++.+.+|+.+ +|||.||..||.+|++...     .||+||+.+..
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            4456778999999999999997 9999999999999998754     89999998764

>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=99.59  E-value=6.7e-16  Score=100.58  Aligned_cols=50  Identities=12%  Similarity=0.041  Sum_probs=45.0

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..++++.||||++.+.+||.++|||+||..||.+||...     .+||.|++++.
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~-----~~cP~~~~~l~   74 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNS-----PTDPFNRQTLT   74 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSC-----SBCSSSCCBCC
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcC-----CCCCCCCCCCC
Confidence            457789999999999999999999999999999999853     38999999865

>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=99.58  E-value=1e-15  Score=99.57  Aligned_cols=49  Identities=22%  Similarity=0.484  Sum_probs=44.0

Q ss_pred             CCccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+++.|+||++.+.+|+. ++|||.||..||.+|+....    ..||+||..+.
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            356899999999999999 99999999999999999863    38999999875

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

Probab=99.58  E-value=1.1e-15  Score=93.49  Aligned_cols=53  Identities=25%  Similarity=0.667  Sum_probs=44.9

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..+++..|+||++.+.+|+.++|||.||..|+.+|++..  .+...||+||+.+.
T Consensus        16 ~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~--~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETS--CGFFKCPLCKTSVR   68 (73)
T ss_dssp             CCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSS--CSCCCCSSSCCCCC
T ss_pred             hCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcC--CCCCCCCCCCCcCC
Confidence            456778999999999999999999999999999998632  23458999999854

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

Probab=99.58  E-value=2.9e-15  Score=89.27  Aligned_cols=48  Identities=27%  Similarity=0.700  Sum_probs=41.4

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      ..+++..|+||++.+.+|+.++|||+||..||.+|++..  .+...||+|
T Consensus        16 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~--~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETS--CGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHC--SSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcC--CCCCcCcCC
Confidence            456778999999999999999999999999999999863  123589998

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

Probab=99.58  E-value=1.7e-15  Score=94.65  Aligned_cols=48  Identities=25%  Similarity=0.711  Sum_probs=43.5

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+++.|+||++.+.+|+.++|||.||..|+.+|+....     .||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATP-----RCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCS-----BCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCC-----cCCCcCcccc
Confidence            45679999999999999999999999999999998754     8999999865

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

Probab=99.57  E-value=5.6e-16  Score=106.27  Aligned_cols=48  Identities=31%  Similarity=0.693  Sum_probs=43.1

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +++.|+||++.+.+|+.++|||+||..||.+|+....     .||+||+++..
T Consensus        52 ~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~   99 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKI-----ECPICRKDIKS   99 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCS-----BCTTTCCBCCC
T ss_pred             ccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCC-----cCCCCCCcCCC
Confidence            4578999999999999999999999999999988754     89999998653

>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=99.57  E-value=2.9e-15  Score=97.25  Aligned_cols=50  Identities=12%  Similarity=-0.098  Sum_probs=45.2

Q ss_pred             CCCCccccccccccccCceeecCC-CcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~Cg-H~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..++++.||||++++++||+++|| |+||..||.+||...     ..||+|++++.
T Consensus        18 ~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~-----~~cP~~~~~l~   68 (98)
T 1wgm_A           18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD-----QTDPFNRSPLT   68 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS-----CBCTTTCSBCC
T ss_pred             cCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhC-----CCCCCCCCCCC
Confidence            457889999999999999999999 999999999999864     38999999865

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

Probab=99.56  E-value=1e-15  Score=93.42  Aligned_cols=49  Identities=31%  Similarity=0.623  Sum_probs=43.8

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..++..|+||++.+.+|+.++|||.||..||.+|+....     .||+||+.+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~   60 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGK-----RCALCRQEIP   60 (71)
T ss_dssp             SSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSS-----BCSSSCCBCC
T ss_pred             CCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCC-----cCcCcCchhC
Confidence            456689999999999999999999999999999887653     8999999876

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

Probab=99.56  E-value=6.7e-16  Score=95.83  Aligned_cols=56  Identities=20%  Similarity=0.489  Sum_probs=46.7

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCC--CCCCCCCCCCccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS--TLQACRCPLCRRRIT   57 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~   57 (142)
                      +..+++..|+||++.+.+|+.++|||+||..|+.+|++...  ..+...||+||+.+.
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            44567899999999999999999999999999999987631  122458999999876

>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=99.55  E-value=8.5e-15  Score=96.52  Aligned_cols=50  Identities=28%  Similarity=0.734  Sum_probs=43.9

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++..|+||++.+.+|+.++|||.||..|+.+|+....  +...||+||..+.
T Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~   69 (112)
T 1jm7_A           20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK--GPSQCPLCKNDIT   69 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSS--SSCCCTTTSCCCC
T ss_pred             CCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCC--CCCCCcCCCCcCC
Confidence            4578999999999999999999999999999998652  3358999999876

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

Probab=99.55  E-value=1.8e-15  Score=92.03  Aligned_cols=50  Identities=26%  Similarity=0.783  Sum_probs=44.7

Q ss_pred             CCCCccccccccccccCc-------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~p-------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++++..|+||++.+.+|       +.++|||.||..|+.+|++...     .||+||+.+.
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            456779999999999887       8899999999999999998864     8999999866

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

Probab=99.55  E-value=5.3e-15  Score=92.65  Aligned_cols=56  Identities=21%  Similarity=0.539  Sum_probs=46.3

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCC-CCCCCCCCCCccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRIT   57 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~   57 (142)
                      +...++..|+||++.+.+|+.++|||.||..|+.+|+..+. ..+...||.||+.+.
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            34567789999999999999999999999999999998720 012358999999877

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

Probab=99.55  E-value=5.5e-15  Score=92.57  Aligned_cols=55  Identities=29%  Similarity=0.640  Sum_probs=46.4

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCC-CCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~   57 (142)
                      ...+++.|+||++.+.+|+.++|||.||..|+.+|+.... ..+...||.||+.+.
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~   70 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP   70 (85)
T ss_dssp             CCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCC
T ss_pred             hCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCC
Confidence            3456789999999999999999999999999999998842 122458999999876

>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=99.54  E-value=3e-15  Score=100.72  Aligned_cols=50  Identities=22%  Similarity=0.493  Sum_probs=43.5

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ++++.||||++.+.+|+.++|||+||..||.+|+....    ..||+||+.+..
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQV----FSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTC----CBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCc----CCCCCCCccCCC
Confidence            34578999999999999999999999999999998432    489999998653

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

Probab=99.54  E-value=3.8e-15  Score=89.97  Aligned_cols=50  Identities=26%  Similarity=0.783  Sum_probs=43.5

Q ss_pred             CCCCccccccccccccCc-------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~p-------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ...++..|+||++.+.+|       +.++|||.||..||.+|+....     .||+||+.+.
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            345678999999999887       8899999999999999998854     8999998754

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

Probab=99.53  E-value=8.9e-15  Score=88.30  Aligned_cols=53  Identities=23%  Similarity=0.563  Sum_probs=45.5

Q ss_pred             CCccccccccccccCc-eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccC
Q 032386            5 PCGDVCSVCHGNFNVP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~p-v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~   62 (142)
                      +++..|+||++.+.+| +.++|||.||..|+.+|++...     .||.||+.+..+...
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            5678999999999986 7789999999999999998764     899999998755443

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

Probab=99.53  E-value=1e-14  Score=92.15  Aligned_cols=53  Identities=23%  Similarity=0.585  Sum_probs=45.5

Q ss_pred             CCCCccccccccccccC----ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ...++..|+||++.+.+    |+.++|||.||..|+.+|++...  +...||+||+.+.
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~   67 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI--NGVRCPFCSKITR   67 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCS--SCBCCTTTCCCBC
T ss_pred             hccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCC--CCcCCCCCCCccc
Confidence            44667899999999998    99999999999999999998752  2358999999865

>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=99.52  E-value=1.1e-14  Score=84.34  Aligned_cols=50  Identities=24%  Similarity=0.623  Sum_probs=42.9

Q ss_pred             CCCCccccccccccccC----ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +..++..|+||++.+.+    ++.++|||.||..|+.+|++...     .||+||+.+.
T Consensus         1 g~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   54 (55)
T 2ecm_A            1 GSSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGY-----RCPLCSGPSS   54 (55)
T ss_dssp             CCSCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTC-----CCTTSCCSSC
T ss_pred             CCCCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCC-----cCCCCCCcCC
Confidence            34677899999999865    77889999999999999999864     8999998753

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

Probab=99.52  E-value=1.3e-14  Score=93.92  Aligned_cols=48  Identities=29%  Similarity=0.632  Sum_probs=42.6

Q ss_pred             CccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +++.|+||++.+.+|+.+ +|||+||..|+.+|+....     .||+||..+..
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~~   69 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT-----QCPTCCVTVTE   69 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCC-----BCTTTCCBCCG
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCC-----CCCCCCCcCCh
Confidence            457999999999999998 8999999999999998653     89999998653

>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=99.51  E-value=2e-14  Score=87.07  Aligned_cols=53  Identities=23%  Similarity=0.564  Sum_probs=43.9

Q ss_pred             CCcccccccccccc---CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccC
Q 032386            5 PCGDVCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (142)
Q Consensus         5 ~~~~~CpIC~~~~~---~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~   62 (142)
                      .++..|+||++.+.   .++.++|||.||..|+.+|+....     .||+||+.+....+.
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~~~~~   67 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK-----KCPICRVDIEAQLPS   67 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCS-----BCTTTCSBSCSCCCC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCC-----CCcCcCccccCcCCC
Confidence            45579999999874   457789999999999999998865     799999987765443

>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=99.51  E-value=1.4e-14  Score=93.19  Aligned_cols=53  Identities=17%  Similarity=0.484  Sum_probs=44.4

Q ss_pred             CCCCccccccccccccCceeec-CCCcccHhHHHHHHHhC-CCCCCCCCCC--Cccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHG-STLQACRCPL--CRRR   55 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~-~~~~~~~CP~--Cr~~   55 (142)
                      .+++++.||||++.|.+||.++ |||+||..||.+||... ...+...||+  |+..
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            4578899999999999999996 99999999999999874 1123468999  9854

>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=99.51  E-value=7.3e-15  Score=96.58  Aligned_cols=49  Identities=27%  Similarity=0.670  Sum_probs=44.2

Q ss_pred             CCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ++++.|+||++.+.+|+.+ +|||+||..||.+|+..+.     .||.||+.+..
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-----~CP~Cr~~~~~   62 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSK-----YCPICDVQVHK   62 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCS-----BCTTTCCBSCS
T ss_pred             CCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCC-----cCcCCCccccc
Confidence            5678999999999999998 9999999999999998753     89999998764

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

Probab=99.51  E-value=1.4e-14  Score=84.73  Aligned_cols=49  Identities=33%  Similarity=0.776  Sum_probs=41.2

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      +...++..|+||++.+.+|+.++|||.||..||.+|+...  .+...||+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~--~~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDL--ERDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSS--CCSCCCSCC
T ss_pred             hccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhc--CCCCCCCCC
Confidence            4456778999999999999999999999999999997652  123589998

>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=99.51  E-value=1.2e-15  Score=101.33  Aligned_cols=50  Identities=28%  Similarity=0.680  Sum_probs=43.7

Q ss_pred             CCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .+++.|+||++.+.+|+.++|||+||..||.+|+..+.    ..||.||+.+..
T Consensus        13 ~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKAS----LCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTT----SBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCc----CCCCCCCcccCc
Confidence            45689999999999999999999999999999986532    489999998763

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

Probab=99.50  E-value=9.4e-15  Score=87.60  Aligned_cols=48  Identities=25%  Similarity=0.716  Sum_probs=41.4

Q ss_pred             Cccccccccc-cccCc----eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHG-NFNVP----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~-~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++..||||++ .+.+|    +.++|||+||..|+.+|+.++.    ..||+||+.+.
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            5789999999 88888    4689999999999999987643    48999999865

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

Probab=99.50  E-value=7.3e-15  Score=87.42  Aligned_cols=47  Identities=26%  Similarity=0.784  Sum_probs=42.0

Q ss_pred             CccccccccccccCc-------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~p-------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++..|+||++.+.+|       +.++|||.||..|+.+|++...     .||+||+.+.
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       7899999999999999998854     8999999865

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

Probab=99.48  E-value=1.5e-14  Score=83.79  Aligned_cols=48  Identities=29%  Similarity=0.615  Sum_probs=41.4

Q ss_pred             CCCccccccccccccC---ceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            4 PPCGDVCSVCHGNFNV---PCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      .+++..|+||++.+.+   ++.++ |||.||..|+.+|++...     +||+||+.+
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            4677899999999877   67776 999999999999987654     899999875

>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=99.48  E-value=2e-14  Score=95.95  Aligned_cols=52  Identities=21%  Similarity=0.497  Sum_probs=45.6

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ..++++.|+||++.+.+|+.++|||+||..||.+|+..+.    ..||+||..+..
T Consensus        14 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~   65 (118)
T 3hct_A           14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG----HKCPVDNEILLE   65 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC----SBCTTTCCBCCG
T ss_pred             CCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCC----CCCCCCCCCcCH
Confidence            4567789999999999999999999999999999998754    289999998653

>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=99.48  E-value=2.5e-14  Score=107.44  Aligned_cols=50  Identities=14%  Similarity=0.056  Sum_probs=44.9

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++++.||||++.+.+||+++|||+||..||.+||..+.    ..||+|+.+++
T Consensus       205 ~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~----~~cP~~~~~~~  254 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG----HFNPVTRSPLT  254 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC----SSCTTTCCCCC
T ss_pred             CCcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCC----CCCcCCCCCCc
Confidence            467899999999999999999999999999999998754    25999999865

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

Probab=99.47  E-value=5.4e-14  Score=86.23  Aligned_cols=52  Identities=25%  Similarity=0.586  Sum_probs=43.7

Q ss_pred             CCCccccccccccccCceee---cCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~---~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~   60 (142)
                      ..++..|+||++.+..+..+   +|||.||..||.+|++...     .||+||+.+..+.
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~-----~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRK-----VCPLCNMPVLQLA   66 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCS-----BCTTTCCBCSSCC
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCC-----cCCCcCccccccc
Confidence            45678999999999876554   9999999999999998864     8999999877543

>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=99.47  E-value=2.1e-14  Score=99.87  Aligned_cols=49  Identities=22%  Similarity=0.609  Sum_probs=43.5

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +++.|+||++.+.+|+.++|||+||..||.+|+....    ..||+||..+..
T Consensus        77 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~  125 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQV----FSCPACRHDLGQ  125 (150)
T ss_dssp             HHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTC----CBCTTTCCBCCT
T ss_pred             cCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCC----CcCCCCCccCCC
Confidence            5679999999999999999999999999999998643    479999998653

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

Probab=99.45  E-value=4.6e-14  Score=86.88  Aligned_cols=48  Identities=25%  Similarity=0.584  Sum_probs=41.9

Q ss_pred             CCccccccccccccCc---eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++..|+||++.+..+   +.++|||.||..||.+|++...     .||+||+.+.
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~-----~CP~Cr~~~~   71 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANR-----TCPICRADSG   71 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCS-----SCTTTCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCC-----cCcCcCCcCC
Confidence            4567999999999876   7789999999999999998864     8999998754

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

Probab=99.45  E-value=4.1e-14  Score=87.64  Aligned_cols=50  Identities=30%  Similarity=0.725  Sum_probs=41.9

Q ss_pred             CCCccccccccccccCc---eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            4 PPCGDVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      ..++..|+||++.+..+   +.++|||.||..||.+|++...     .||+||+.+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~-----~CP~Cr~~~~~   64 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHD-----SCPVCRKSLTG   64 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTC-----SCTTTCCCCCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCC-----cCcCcCCccCC
Confidence            34568999999998765   4569999999999999997654     89999998773

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

Probab=99.45  E-value=6.4e-14  Score=99.83  Aligned_cols=51  Identities=14%  Similarity=0.040  Sum_probs=45.7

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..++++.||||.+++.+||+++|||+||..||..||....    ..||+|+.++.
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~----~tcP~t~~~l~  152 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG----HFDPVTRSPLT  152 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC----SBCTTTCCBCC
T ss_pred             CCcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCC----CCCCCCcCCCC
Confidence            4578899999999999999999999999999999998743    26999999865

>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=99.44  E-value=1e-14  Score=100.44  Aligned_cols=51  Identities=25%  Similarity=0.633  Sum_probs=44.5

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..++++.|+||++.+.+|++++|||+||..||.+|++.+.    ..||+||..+.
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~----~~CP~Cr~~~~   77 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGP----QNCAACVHEGI   77 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSC----EECHHHHHTTC
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCC----CCCCCCCCccc
Confidence            3467789999999999999999999999999999997643    48999999753

>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=99.44  E-value=4.7e-14  Score=93.75  Aligned_cols=49  Identities=27%  Similarity=0.616  Sum_probs=43.4

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +++.||||++.+.+|+.++|||+||..||.+|+....    ..||+||..+..
T Consensus        22 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~   70 (116)
T 1rmd_A           22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMG----SYCPSCRYPCFP   70 (116)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC----SBCTTTCCBCCG
T ss_pred             CCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCc----CcCCCCCCCCCH
Confidence            4579999999999999999999999999999998742    389999998663

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

Probab=99.44  E-value=1.4e-14  Score=88.04  Aligned_cols=51  Identities=27%  Similarity=0.565  Sum_probs=43.7

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +...++..|+||++.+.+ +.++|||.||..|+.+|+...     ..||+||+.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   60 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSDRH-----RNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSCCC-----SSCHHHHHCTTC
T ss_pred             hcCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHHCc-----CcCCCcCCcccC
Confidence            345667899999999999 999999999999999988754     389999998763

>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=99.43  E-value=1.4e-13  Score=91.03  Aligned_cols=54  Identities=22%  Similarity=0.518  Sum_probs=43.1

Q ss_pred             CccccccccccccCce------------------eecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccccc
Q 032386            6 CGDVCSVCHGNFNVPC------------------QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv------------------~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l   59 (142)
                      ++..|+||++.+.++.                  .++|||.||..||.+|+..........||+||..+...
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            4569999999997664                  67899999999999999754322345899999987654

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

Probab=99.43  E-value=7.6e-14  Score=89.15  Aligned_cols=48  Identities=21%  Similarity=0.650  Sum_probs=41.3

Q ss_pred             CCccccccccccccC---ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++..|+||++.+..   ++.++|||.||..||.+|++...     .||+||+.+.
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            456789999998876   77899999999999999997654     8999998754

>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=99.41  E-value=7.1e-14  Score=98.28  Aligned_cols=48  Identities=27%  Similarity=0.823  Sum_probs=42.3

Q ss_pred             CccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +++.|+||++.+.+|+.+ +|||+||..||.+|+..+.    ..||+||..+.
T Consensus        53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~  101 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGN----KECPTCRKKLV  101 (165)
T ss_dssp             HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTC----CBCTTTCCBCC
T ss_pred             CCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCc----CCCCCCCCcCC
Confidence            456999999999999998 8999999999999998632    48999999874

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

Probab=99.41  E-value=7.3e-14  Score=94.16  Aligned_cols=49  Identities=24%  Similarity=0.744  Sum_probs=43.9

Q ss_pred             CCCccccccccccccCc-------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~p-------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..+++.|+||++.+.+|       +.++|||.||..||.+|++.+.     +||+||+.+.
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-----~CP~Cr~~~~   59 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-----TCPTCRKKIN   59 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCS-----BCTTTCCBCT
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCC-----CCCCCCCcCc
Confidence            35678999999999988       8999999999999999998764     8999999877

>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=99.40  E-value=1e-13  Score=92.38  Aligned_cols=46  Identities=28%  Similarity=0.590  Sum_probs=41.3

Q ss_pred             CCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+++.||||++.+.+|+.+ +|||+||..||.+|+.       ..||+||..+.
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-------~~CP~Cr~~~~   66 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-------TGCPVCYTPAW   66 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-------TBCSSSCCBCS
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc-------CCCcCCCCcCc
Confidence            4568999999999999999 9999999999999986       28999999864

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

Probab=99.40  E-value=4.8e-14  Score=82.28  Aligned_cols=46  Identities=22%  Similarity=0.545  Sum_probs=40.0

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..+++.|+||++.+.+|+.++|||+||..|+.+|        ...||+||+.+.
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~--------~~~CP~Cr~~~~   48 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS--------GMQCPICQAPWP   48 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS--------SSSCSSCCSSSS
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHccC--------CCCCCcCCcEee
Confidence            4567899999999999999999999999999771        238999999865

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

Probab=99.39  E-value=1.9e-13  Score=85.05  Aligned_cols=51  Identities=18%  Similarity=0.341  Sum_probs=41.1

Q ss_pred             CCCcccccccccccc--Cceeec--CCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            4 PPCGDVCSVCHGNFN--VPCQAN--CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~--~pv~~~--CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .+++.+||||++.+.  ++..++  |||.||..|+.++|...    ...||.||+.+..
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~----~~~CP~CR~~~~~   62 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE----NGLCPACRKPYPE   62 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSS----CSBCTTTCCBCSS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcC----CCCCCCCCCccCC
Confidence            356789999999874  455555  99999999999998653    2589999998773

>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=99.39  E-value=2e-13  Score=96.37  Aligned_cols=53  Identities=21%  Similarity=0.485  Sum_probs=46.4

Q ss_pred             CCCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +..++++.||||++.+.+|+.++|||+||..|+.+|+..+.    ..||+||..+..
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~----~~CP~Cr~~~~~   65 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG----HKCPVDNEILLE   65 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHC----SBCTTTCCBCCG
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCC----CCCCCCccCcch
Confidence            45577899999999999999999999999999999998753    389999988653

>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=99.34  E-value=4.2e-13  Score=80.40  Aligned_cols=52  Identities=23%  Similarity=0.622  Sum_probs=44.4

Q ss_pred             CCCccccccccccccCceee--cCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQA--NCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~--~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~   60 (142)
                      .+++..|+||++...+++.+  +|||. ||.+|+.+|++.+.     .||+||+.+....
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            34567999999999999987  99999 89999999987654     8999999877543

>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=99.32  E-value=6.6e-13  Score=79.27  Aligned_cols=52  Identities=25%  Similarity=0.526  Sum_probs=44.3

Q ss_pred             CCCccccccccccccCceee--cCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQA--NCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~--~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~   60 (142)
                      .+.+..|+||++...+++.+  +|||. ||.+|+.++++.+.     .||+||+++....
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            34567999999999999888  99998 99999999887653     8999999987543

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

Probab=99.31  E-value=1.1e-12  Score=81.97  Aligned_cols=48  Identities=27%  Similarity=0.598  Sum_probs=39.8

Q ss_pred             CCccccccccccccC--------------ceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNV--------------PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~--------------pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++..|+||++.+.+              ++.+ +|||.|+..||.+|+....     +||+||+++.
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            456789999998866              4455 5999999999999988764     8999999854

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

Probab=99.31  E-value=3.5e-13  Score=82.89  Aligned_cols=46  Identities=26%  Similarity=0.624  Sum_probs=40.5

Q ss_pred             CccccccccccccCceeecCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~   60 (142)
                      ++..|+||++.+.+|+.++|||. ||..|+.+|    .     .||+||+.+....
T Consensus        23 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~----~-----~CP~Cr~~i~~~~   69 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----D-----KCPMCYTVITFKQ   69 (74)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC----S-----BCTTTCCBCSEEE
T ss_pred             cCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC----c-----cCCCcCcCccCcE
Confidence            45789999999999999999999 999999886    2     8999999877543

>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=99.30  E-value=7.2e-13  Score=99.03  Aligned_cols=52  Identities=19%  Similarity=0.420  Sum_probs=44.5

Q ss_pred             CCCCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCC--Cccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPL--CRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~--Cr~~~~   57 (142)
                      +...++.||||++.|.+||+. .|||+||..||.+||..+   +...||+  |++.+.
T Consensus       177 ~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~---~~~~CPvtGCr~~l~  231 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGY---TTRDCPQAACSQVVS  231 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTC---SCEECSGGGCSCEEC
T ss_pred             CCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhC---CCCCCCcccccCcCc
Confidence            445678999999999999985 899999999999999863   2358999  999765

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

Probab=99.24  E-value=2.8e-12  Score=86.27  Aligned_cols=49  Identities=24%  Similarity=0.744  Sum_probs=43.5

Q ss_pred             CCCccccccccccccCc-------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVP-------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~p-------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+++..|+||++.+.++       +.++|||.||..|+.+|++...     +||+||+.+.
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            35678999999999876       8899999999999999998865     8999999865

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

Probab=99.23  E-value=2.5e-12  Score=79.15  Aligned_cols=46  Identities=26%  Similarity=0.598  Sum_probs=39.2

Q ss_pred             CccccccccccccCceeecCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLI   60 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~   60 (142)
                      ++..|+||++.+.+|+.++|||. ||..|+.+.         ..||+||+.+....
T Consensus        24 ~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~---------~~CP~Cr~~i~~~~   70 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV---------DKCPMCYTVITFKQ   70 (75)
T ss_dssp             HHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHC---------SBCTTTCCBCCCCC
T ss_pred             CCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCC---------CCCccCCceecCcE
Confidence            35689999999999999999999 999999542         38999999877543

>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=99.23  E-value=5.3e-12  Score=99.35  Aligned_cols=48  Identities=25%  Similarity=0.571  Sum_probs=42.2

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +..|+||++.+.+|+.++|||.||..|+..|+....    ..||+||+.+..
T Consensus       332 ~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~----~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG----QGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTC----SBCTTTCCBCCE
T ss_pred             CCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCC----CCCCCCCCccCC
Confidence            479999999999999999999999999999987422    389999998773

>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=99.20  E-value=7.3e-12  Score=80.22  Aligned_cols=53  Identities=25%  Similarity=0.584  Sum_probs=42.8

Q ss_pred             CCCCccccccccccccCceee---cCCCcccHhHHHHHHHhC---CCCCCCCCCC--Cccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHG---STLQACRCPL--CRRR   55 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~---~CgH~fC~~Ci~~~~~~~---~~~~~~~CP~--Cr~~   55 (142)
                      |..+.++|+||++.+..|..+   +|||.||..|+.+||..+   .......||.  |+..
T Consensus         1 g~~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            1 GSSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CCCSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            456789999999999887664   699999999999999863   1123468999  9876

>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=99.17  E-value=1.8e-11  Score=80.32  Aligned_cols=47  Identities=26%  Similarity=0.456  Sum_probs=39.5

Q ss_pred             CccccccccccccCc------------------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVP------------------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~p------------------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++..|+||++.+.++                  +.++|+|.|+..||.+|+....     +||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-----~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-----VCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCS-----BCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCC-----cCcCCCCcce
Confidence            567899999998765                  3478999999999999988754     8999999754

>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=99.13  E-value=8.5e-12  Score=77.67  Aligned_cols=48  Identities=25%  Similarity=0.556  Sum_probs=41.2

Q ss_pred             CccccccccccccCceeecCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccccccC
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~   62 (142)
                      ++..|+||++...+++.++|||. ||..|+..++         .||+||+.+......
T Consensus        17 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~---------~CP~Cr~~i~~~~~i   65 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQ---------SCPVCRSRVEHVQHV   65 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCS---------BCTTTCCBCCEEEEC
T ss_pred             CCCEeEEeCcccCcEEEECCCCHHHHHHHHHhcC---------cCCCCCchhhCeEEE
Confidence            45789999999999999999999 9999997652         799999998854443

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=99.12  E-value=3.6e-11  Score=71.27  Aligned_cols=52  Identities=8%  Similarity=0.096  Sum_probs=44.7

Q ss_pred             ccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc--ccccCC
Q 032386            7 GDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT--LLIPND   63 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~--~l~~~~   63 (142)
                      .+.|||+.+.+.+||.+ ++||+|+.+||.+|++...     .||+.++++.  .+.|+.
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~-----~cP~t~~~L~~~~Lip~~   57 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTG-----NDPITNEPLSIEEIVEIV   57 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHS-----BCTTTCCBCCGGGCEECC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCC-----CCcCCcCCCChhhcEECc
Confidence            47899999999999999 8999999999999998754     6999999886  555543

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

Probab=99.11  E-value=6.3e-11  Score=71.63  Aligned_cols=49  Identities=22%  Similarity=0.558  Sum_probs=41.3

Q ss_pred             CccccccccccccCceeecCCCc-ccHhHHHHHHHhCCCCCCCCCCCCcccccccccCC
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPND   63 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~~   63 (142)
                      ++..|+||++...+++.+||||. ||..|+...         ..||+||+.+.......
T Consensus        14 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~---------~~CP~CR~~i~~~~~i~   63 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYF---------QQCPMCRQFVQESFALS   63 (68)
T ss_dssp             CSSCCSSSSSSCCCCEETTTTBCCSCTTHHHHC---------SSCTTTCCCCCCEECCC
T ss_pred             CCCCCCCcCcCCCCEEEECCCChhhhHHHHhcC---------CCCCCCCcchhceEEee
Confidence            45799999999999999999999 999999741         28999999988654443

>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=98.97  E-value=6.5e-11  Score=78.86  Aligned_cols=47  Identities=28%  Similarity=0.534  Sum_probs=1.0

Q ss_pred             CccccccccccccCce------------------eecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPC------------------QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv------------------~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++..|+||++.+.++.                  .++|+|.|+..||.+|+....     .||+||+.+.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~-----~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-----VCPLDNREWE  111 (117)
T ss_dssp             CC--------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCC-----cCCCCCCeee
Confidence            4578999999987642                  248999999999999998754     8999998743

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.94  E-value=1.4e-10  Score=90.32  Aligned_cols=45  Identities=27%  Similarity=0.601  Sum_probs=40.1

Q ss_pred             CccccccccccccCceeecCCCc-ccHhHHHHHHHhCCCCCCCCCCCCccccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLL   59 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l   59 (142)
                      ++..|+||++.+.+|+.++|||. ||..|+..|    .     .||+||..+...
T Consensus       294 ~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~----~-----~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----R-----KCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC----S-----BCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCCceEEcCCCChhHhHHHHhcC----C-----cCCCCCCCccCe
Confidence            46789999999999999999999 999999876    2     899999987754

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

Probab=98.93  E-value=1.4e-09  Score=67.77  Aligned_cols=52  Identities=23%  Similarity=0.639  Sum_probs=42.4

Q ss_pred             CCCcccccccccccc--CceeecCC-----CcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            4 PPCGDVCSVCHGNFN--VPCQANCS-----HWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~--~pv~~~Cg-----H~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +.++..|.||++.+.  +++.++|+     |.|+..||.+|+..+.   ...||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~---~~~CplCr~~~~~   70 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSD---TRCCELCKYEFIM   70 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHC---CSBCSSSCCBCCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCC---CCCCCCCCCeeec
Confidence            456689999998763  67888996     9999999999998753   2489999998763

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

Probab=98.69  E-value=2.4e-08  Score=61.18  Aligned_cols=51  Identities=18%  Similarity=0.455  Sum_probs=40.4

Q ss_pred             CCccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +.-..|.||.+.+..... ..|+|.|...||.+|++...   ...||.||+....
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~---~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA---EPRCPHCNDYWPH   64 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCS---SCCCTTTCSCCCS
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcC---CCCCCCCcCcCCC
Confidence            444799999999875544 37999999999999997652   2489999987654

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

Probab=98.42  E-value=1.5e-07  Score=60.23  Aligned_cols=46  Identities=26%  Similarity=0.590  Sum_probs=37.2

Q ss_pred             cccccccccc-CceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            9 VCSVCHGNFN-VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         9 ~CpIC~~~~~-~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      -|++|.-.+. ....+||+|.||.+|+..|..++.    ..||.|+.++..
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~----k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGD----KMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTC----CBCTTTCCBCSE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccC----CCCcCcCCeeee
Confidence            4788877554 466789999999999999887654    389999999884

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

Probab=98.38  E-value=3.3e-07  Score=53.79  Aligned_cols=50  Identities=14%  Similarity=0.300  Sum_probs=39.7

Q ss_pred             CCccccccccccccCceeecCC--C---cccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANCS--H---WFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~Cg--H---~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +++..|.||++...++..+||.  |   .|...|+.+|+..+.   ...||+|+..+.
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~---~~~C~~C~~~~~   58 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR---NTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT---CSBCTTTCCBCC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCC---CCccCCCCCeee
Confidence            4567899999987777778855  4   899999999998642   358999998753

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

Probab=98.26  E-value=2.8e-07  Score=71.36  Aligned_cols=52  Identities=17%  Similarity=0.383  Sum_probs=38.1

Q ss_pred             CccccccccccccC----ce----eecCCCcccHhHHHHHHHhCCCC----C--CCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNV----PC----QANCSHWFCGNCIMLVWDHGSTL----Q--ACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~----pv----~~~CgH~fC~~Ci~~~~~~~~~~----~--~~~CP~Cr~~~~   57 (142)
                      ....|+||++.+.+    |.    ..+|||.|...|+.+|++..+.+    +  .-.||.||++++
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            34589999998765    21    13699999999999999863211    0  126999999876

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=97.53  E-value=3.2e-05  Score=49.39  Aligned_cols=34  Identities=15%  Similarity=0.509  Sum_probs=28.9

Q ss_pred             Ccccccccccc-ccCcee--ecCCCcccHhHHHHHHH
Q 032386            6 CGDVCSVCHGN-FNVPCQ--ANCSHWFCGNCIMLVWD   39 (142)
Q Consensus         6 ~~~~CpIC~~~-~~~pv~--~~CgH~fC~~Ci~~~~~   39 (142)
                      ++..|+||.+. +.+|+.  +.|+|+||..|+..++.
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 778888  89999999999998544

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

Probab=97.04  E-value=0.00071  Score=49.91  Aligned_cols=49  Identities=18%  Similarity=0.474  Sum_probs=38.8

Q ss_pred             ccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            7 GDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      -..|.||.++...... .+|+|.|...|+..|++...   ...||.|+.....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~---~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNA---EPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCS---SCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCC---CCCCCCCCCCCCC
Confidence            4689999998886554 34999999999999987632   3589999987443

>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=96.96  E-value=0.00068  Score=58.69  Aligned_cols=51  Identities=14%  Similarity=-0.032  Sum_probs=45.5

Q ss_pred             CCCCCccccccccccccCceeecCC-CcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~Cg-H~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ..+|+++.|||-.+++.+||.++-| ++|=+..|.+|+...+     +||.=|++++
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 6999999999997643     8999999876

>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=95.88  E-value=0.0062  Score=37.24  Aligned_cols=47  Identities=21%  Similarity=0.352  Sum_probs=34.9

Q ss_pred             CccccccccccccCceeec----CCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386            6 CGDVCSVCHGNFNVPCQAN----CSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~----CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      ..+.|.+|.+.+.+-....    =.|.||..|-+.+++........-||.=
T Consensus        14 a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~q~~~~EvyCPSG   64 (93)
T 2cs3_A           14 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSG   64 (93)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHHHHSSSCCCCTTS
T ss_pred             CeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHhcCCCCcEECCCC
Confidence            3479999999998765544    4699999999999886543444556643

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=92.32  E-value=0.082  Score=31.02  Aligned_cols=52  Identities=21%  Similarity=0.358  Sum_probs=36.1

Q ss_pred             CCCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      .|..+..|.||.+.-..-.--.|...|...|+..-+...+ .+...||.|...
T Consensus         8 ~~~~~~~C~vC~~~~~ll~Cd~C~~~~H~~Cl~P~l~~~P-~g~W~C~~C~~~   59 (66)
T 2lri_C            8 NLAPGARCGVCGDGTDVLRCTHCAAAFHWRCHFPAGTSRP-GTGLRCRSCSGD   59 (66)
T ss_dssp             CCCTTCCCTTTSCCTTCEECSSSCCEECHHHHCTTTCCCC-SSSCCCTTTTTC
T ss_pred             CCCCCCCcCCCCCCCeEEECCCCCCceecccCCCccCcCC-CCCEECccccCC
Confidence            3566678999987432111125999999999976665554 456899999754

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=91.06  E-value=0.25  Score=38.49  Aligned_cols=47  Identities=21%  Similarity=0.559  Sum_probs=35.4

Q ss_pred             cccccccccccCceee-cCCCcccHh--HHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNVPCQA-NCSHWFCGN--CIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~-~CgH~fC~~--Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.||+-...+..|+.- .|.|.-|.+  -+.+...+   .+...||+|.+.+.
T Consensus       250 L~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~---~~~W~CPIC~k~~~  299 (371)
T 3i2d_A          250 LQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQ---IPTWQCPVCQIDIA  299 (371)
T ss_dssp             SBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHH---SCCCBCTTTCCBCC
T ss_pred             ecCCCccccccccCcCCcCCCcceECHHHHHHHhhc---CCceeCCCCCcccC
Confidence            6899999999999996 499996654  34444444   34579999998764

>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=90.57  E-value=0.3  Score=37.95  Aligned_cols=47  Identities=21%  Similarity=0.639  Sum_probs=35.3

Q ss_pred             cccccccccccCceee-cCCCcccH--hHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNVPCQA-NCSHWFCG--NCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~-~CgH~fC~--~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.||+-...+..|+.. .|.|.-|.  .-+.+...+   .+...||+|.+.+.
T Consensus       216 L~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~---~~~W~CPiC~k~~~  265 (360)
T 4fo9_A          216 LMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEK---KPTWICPVCDKKAA  265 (360)
T ss_dssp             SBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHH---SCCCBCTTTCSBCC
T ss_pred             eeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhh---CCCeECCCCCcccC
Confidence            5799999999999996 59999555  444444444   34579999998875

>3mjh_B Early endosome antigen 1; protein-zinc finger complex, beta BETA alpha fold, beta HAIR RAB5A GTPase, EEA1, protein transport; HET: GTP; 2.03A {Homo sapiens}

Probab=88.06  E-value=0.11  Score=26.46  Aligned_cols=16  Identities=19%  Similarity=0.515  Sum_probs=9.7

Q ss_pred             CCccccccccccccCc
Q 032386            5 PCGDVCSVCHGNFNVP   20 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~p   20 (142)
                      .+++.||+|+..+..+
T Consensus         3 ~EGFiCP~C~~~l~s~   18 (34)
T 3mjh_B            3 SEGFICPQCMKSLGSA   18 (34)
T ss_dssp             SEEEECTTTCCEESSH
T ss_pred             CcccCCcHHHHHcCCH
Confidence            3456677776666554

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=86.05  E-value=0.39  Score=29.64  Aligned_cols=34  Identities=24%  Similarity=0.562  Sum_probs=25.0

Q ss_pred             CCCCccccccccccccCce----eecCCCcccHhHHHH
Q 032386            3 GPPCGDVCSVCHGNFNVPC----QANCSHWFCGNCIML   36 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv----~~~CgH~fC~~Ci~~   36 (142)
                      ++.+...|.+|...|..-.    --.||++||..|...
T Consensus         5 ~~~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   42 (88)
T 1wfk_A            5 SSGMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSF   42 (88)
T ss_dssp             CCCCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCE
T ss_pred             CCCcCCCCcCcCCcccCccccccCCCCCCEEChhHcCC
Confidence            3455678999999876422    246999999999754

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=85.77  E-value=0.27  Score=29.21  Aligned_cols=52  Identities=19%  Similarity=0.467  Sum_probs=33.3

Q ss_pred             CCccccccccccccC-ceee--cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNV-PCQA--NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~-pv~~--~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++..|++|...-.. .++.  .|..+|...|+..-....+ .+...||.|+..+.
T Consensus        16 ~~~~~C~~C~~~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~-~~~w~C~~C~~~~~   70 (75)
T 2k16_A           16 NQIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPE-EMQWFCPKCANKIK   70 (75)
T ss_dssp             CEEECBTTTTBCCSSCCEEECSSSSSEEEHHHHTCSSCCCS-SSCCCCTTTHHHHC
T ss_pred             CCCcCCCCCCCCCCCCCEEEcCCCCcccccccCCCCccCCC-CCCEEChhccCchh
Confidence            344679999875433 2222  5889999999954322221 35678999987643

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=84.17  E-value=1.5  Score=26.94  Aligned_cols=57  Identities=23%  Similarity=0.444  Sum_probs=37.2

Q ss_pred             CCCCCccccccccccccCceeec---CCCcccHhHHHHH--HH---------hCCCCCCCCCCCCcccccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQAN---CSHWFCGNCIMLV--WD---------HGSTLQACRCPLCRRRITLLI   60 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~---CgH~fC~~Ci~~~--~~---------~~~~~~~~~CP~Cr~~~~~l~   60 (142)
                      |.++.|..|.||...-.. ...+   |+..|...|+.+.  .+         .+......+||.| ..++.|.
T Consensus        10 e~~~~D~~C~VC~~~t~~-~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~C-enL~lLL   80 (89)
T 1wil_A           10 EPVVNDEMCDVCEVWTAE-SLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYC-DNINLLL   80 (89)
T ss_dssp             CCCCCSCCCTTTCCCCSS-CCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTT-CCCCSSS
T ss_pred             cCCCCCcccCcccccccc-ceeccccccccccHhhcccccccccHHHHHHHHccCCCCCcccccc-chhhhhc
Confidence            566788999999854322 3333   8899999999884  11         1112345799999 4555443

>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=83.55  E-value=1.9  Score=28.57  Aligned_cols=49  Identities=22%  Similarity=0.520  Sum_probs=32.7

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHH-----HHhC-CCCCCCCCCCCcc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLV-----WDHG-STLQACRCPLCRR   54 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~-----~~~~-~~~~~~~CP~Cr~   54 (142)
                      .+..|.+|-+--.-..--.|-..||.+|+..-     +... ...+...|+.|+.
T Consensus        56 ~~~~C~vC~dGG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           56 MDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             CBSSCTTTCCCSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCcCeecCCCCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            34569999875432223369999999999864     2221 1256789999964

>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1

Probab=83.06  E-value=0.66  Score=27.42  Aligned_cols=29  Identities=24%  Similarity=0.674  Sum_probs=21.8

Q ss_pred             ccccccccccccCcee----ecCCCcccHhHHH
Q 032386            7 GDVCSVCHGNFNVPCQ----ANCSHWFCGNCIM   35 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~----~~CgH~fC~~Ci~   35 (142)
                      +..|.+|...|..-..    -.||..||..|..
T Consensus        11 ~~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~   43 (73)
T 1vfy_A           11 SDACMICSKKFSLLNRKHHCRSCGGVFCQEHSS   43 (73)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECGGGSC
T ss_pred             CCcccCCCCccCCccccccCCCCCEEEcccccC
Confidence            4689999998764221    3699999999974

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=82.90  E-value=3.2  Score=27.88  Aligned_cols=48  Identities=23%  Similarity=0.535  Sum_probs=32.4

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHH-----hC-CCCCCCCCCCCcc
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWD-----HG-STLQACRCPLCRR   54 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~-----~~-~~~~~~~CP~Cr~   54 (142)
                      +..|.+|.+--..-.--.|...||..|+..-+.     .. ...+...||.|+.
T Consensus        63 ~d~C~vC~~GG~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           63 DEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             BCSCSSSCCCSSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCeecccCCCCcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            467888887544322337999999999986542     10 1256789999974

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=82.13  E-value=0.59  Score=26.68  Aligned_cols=48  Identities=19%  Similarity=0.434  Sum_probs=32.6

Q ss_pred             CCccccccccccccCcee--ecCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            5 PCGDVCSVCHGNFNVPCQ--ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~--~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      ..+..|.+|.+.-  .+.  -.|...|...|+..-+...+ .+...||.|...
T Consensus         9 ~~~~~C~vC~~~g--~ll~CD~C~~~fH~~Cl~p~l~~~p-~g~W~C~~C~~~   58 (61)
T 2l5u_A            9 DHQDYCEVCQQGG--EIILCDTCPRAYHMVCLDPDMEKAP-EGKWSCPHCEKE   58 (61)
T ss_dssp             CCCSSCTTTSCCS--SEEECSSSSCEEEHHHHCTTCCSCC-CSSCCCTTGGGG
T ss_pred             CCCCCCccCCCCC--cEEECCCCChhhhhhccCCCCCCCC-CCceECcccccc
Confidence            3457899998742  122  25888999999976444333 466899999753

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=80.71  E-value=1  Score=27.38  Aligned_cols=31  Identities=26%  Similarity=0.598  Sum_probs=22.8

Q ss_pred             CccccccccccccCce----eecCCCcccHhHHHH
Q 032386            6 CGDVCSVCHGNFNVPC----QANCSHWFCGNCIML   36 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv----~~~CgH~fC~~Ci~~   36 (142)
                      +...|.+|...|..-.    --.||+.||..|...
T Consensus        20 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   54 (84)
T 1z2q_A           20 DAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRH   54 (84)
T ss_dssp             TCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCC
T ss_pred             CCCCCcCcCCccccchhcccccCCCcEEChHHhCC
Confidence            3468999999876422    136999999999754

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=80.49  E-value=0.98  Score=27.30  Aligned_cols=29  Identities=31%  Similarity=0.808  Sum_probs=22.1

Q ss_pred             cccccccccccCce----eecCCCcccHhHHHH
Q 032386            8 DVCSVCHGNFNVPC----QANCSHWFCGNCIML   36 (142)
Q Consensus         8 ~~CpIC~~~~~~pv----~~~CgH~fC~~Ci~~   36 (142)
                      ..|.+|...|..-.    --.||..||..|...
T Consensus        20 ~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   52 (82)
T 2yw8_A           20 THCRQCEKEFSISRRKHHCRNCGHIFCNTCSSN   52 (82)
T ss_dssp             CBCTTTCCBCBTTBCCEECTTTCCEECSGGGCE
T ss_pred             CcccCcCCcccCccccccCCCCCCEEChHHhCC
Confidence            58999999886322    136999999999854

---

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	142
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	7e-07
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-05
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-04
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	2e-04
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-04
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	0.001

>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 = 42.3 bits (99), Expect = 7e-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 = 41.5 bits (97), Expect = 1e-06
 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 = 41.6 bits (97), Expect = 2e-06
 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 = 40.7 bits (95), Expect = 3e-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 = 38.3 bits (89), Expect = 2e-05
 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 = 35.2 bits (81), Expect = 2e-04
 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 = 35.8 bits (82), Expect = 2e-04
 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 = 35.8 bits (81), Expect = 3e-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 = 34.0 bits (77), Expect = 0.001
 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

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	142
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.64
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.63
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.63
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.62
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.59
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.57
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.57
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.51
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.5
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.48
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.47
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.44
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.39
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.37
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.21
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.05
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.85
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	96.49
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	93.19
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	88.68
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	88.61
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	83.27
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	83.24
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	81.26

>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=99.64  E-value=6.8e-17  Score=99.70  Aligned_cols=50  Identities=14%  Similarity=0.056  Sum_probs=45.1

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .|+++.||||++++.+||.++|||+||..||.+|+....    ..||.|++++.
T Consensus         4 iP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~----~~cP~c~~~l~   53 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVG----HFNPVTRSPLT   53 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTC----SSCTTTCCCCC
T ss_pred             CCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCC----ccCCCcccccc
Confidence            478999999999999999999999999999999998654    37999998865

>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=99.63  E-value=2.3e-16  Score=101.66  Aligned_cols=50  Identities=28%  Similarity=0.734  Sum_probs=43.7

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.+.||||++.+.+|++++|||+||..||.+|++...  +...||.||+.+.
T Consensus        20 ~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK--GPSQCPLCKNDIT   69 (103)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSS--SSCCCTTTSCCCC
T ss_pred             cCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCC--CCCcCcCCCCcCC
Confidence            4578999999999999999999999999999998753  2358999999875

>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=99.63  E-value=7.1e-17  Score=100.81  Aligned_cols=48  Identities=27%  Similarity=0.645  Sum_probs=42.4

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +++.||||++.+.+|+.++|||+||..||.+|++...    ..||+||.++.
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~----~~CP~Cr~p~~   69 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMG----SYCPSCRYPCF   69 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTC----SBCTTTCCBCC
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCC----CcCcccCCCCC
Confidence            3468999999999999999999999999999997643    37999999865

>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=99.62  E-value=1.3e-16  Score=97.92  Aligned_cols=50  Identities=16%  Similarity=0.207  Sum_probs=45.0

Q ss_pred             CCCccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .++++.||||+++|.+||.++|||+||..||.+|++...    ..||.|+.++.
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~----~~cP~~~~~l~   54 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGH----KTCPKSQETLL   54 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTC----CBCTTTCCBCS
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCC----CCCCcccccCC
Confidence            578899999999999999999999999999999997643    37999999865

>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=99.59  E-value=5.8e-16  Score=92.63  Aligned_cols=52  Identities=23%  Similarity=0.574  Sum_probs=43.5

Q ss_pred             CccccccccccccCcee-ecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccC
Q 032386            6 CGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~   62 (142)
                      ....|+||++.+.+++. ++|||.||..|+.+|+++++     +||+||+++..+..+
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            34579999999987655 78999999999999999865     899999998755433

>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=99.57  E-value=1.1e-15  Score=93.95  Aligned_cols=49  Identities=24%  Similarity=0.556  Sum_probs=42.7

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      +...|+||++.+.+|+.++|||.||.+||.+|+....    ..||+||+.+..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~----~~CP~Cr~~i~~   70 (79)
T d1fbva4          22 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG----QGCPFCRCEIKG   70 (79)
T ss_dssp             CTTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTC----CSCTTTCCCCCC
T ss_pred             CCCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCc----CcCCCCCcCccC
Confidence            3457999999999999999999999999999987542    379999998774

>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=99.57  E-value=4.9e-16  Score=89.54  Aligned_cols=45  Identities=9%  Similarity=0.132  Sum_probs=41.2

Q ss_pred             cccccccccccCceeec-CCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.|+||++.+++|+.++ |||+||.+||.+|+++..     .||+||++++
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            46999999999999885 999999999999999865     8999999876

>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=99.51  E-value=1.1e-14  Score=92.94  Aligned_cols=50  Identities=12%  Similarity=-0.081  Sum_probs=44.3

Q ss_pred             CCCCccccccccccccCceeecCC-CcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            3 GPPCGDVCSVCHGNFNVPCQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~~pv~~~Cg-H~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      .+|+++.||||.++|.+||+++|| |+||..||.+|+....     .||.|++++.
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            467899999999999999999866 5899999999997754     8999999865

>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=99.50  E-value=3.6e-15  Score=88.38  Aligned_cols=48  Identities=23%  Similarity=0.577  Sum_probs=38.7

Q ss_pred             CccccccccccccC-----ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNV-----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~-----pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      |+..||||++.+..     .+.++|||.||.+||.+|+.+.+    ..||+||+.+.
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~----~~CP~CR~~i~   54 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA----GNCPECGTPLR   54 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS----SSCTTTCCCCS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCc----CCCCCCCcCcc
Confidence            67899999986532     25568999999999999997653    37999999865

>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=99.48  E-value=6.3e-15  Score=84.48  Aligned_cols=48  Identities=29%  Similarity=0.623  Sum_probs=39.7

Q ss_pred             CCCccccccccccccC---ceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCcccc
Q 032386            4 PPCGDVCSVCHGNFNV---PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI   56 (142)
Q Consensus         4 ~~~~~~CpIC~~~~~~---pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   56 (142)
                      -+++.+|+||++.+..   ...+ +|||.||..||.+|++...     +||+||+++
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            4677899999998864   3344 5999999999999998754     899999864

>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=99.47  E-value=8.8e-15  Score=93.13  Aligned_cols=46  Identities=28%  Similarity=0.592  Sum_probs=39.6

Q ss_pred             CCccccccccccccCceee-cCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++.+.||||++.+.+|+.+ +|||+||..||.+|+..       .||.||..+.
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            3567999999999999985 79999999999998743       6999998754

>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=99.44  E-value=4.4e-15  Score=85.42  Aligned_cols=44  Identities=23%  Similarity=0.602  Sum_probs=38.0

Q ss_pred             CccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +.+.|+||++.+.+|+.++|||+||..|+.+|        ...||+||+++.
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~--------~~~CP~Cr~~~~   48 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEAS--------GMQCPICQAPWP   48 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSS--------SSSCSSCCSSSS
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcC--------CCcCcCCCCccc
Confidence            34699999999999999999999999999653        238999999865

>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=99.39  E-value=5.6e-14  Score=79.53  Aligned_cols=46  Identities=20%  Similarity=0.539  Sum_probs=36.8

Q ss_pred             cccccccccccC----ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            8 DVCSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         8 ~~CpIC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++||||++.+..    +..++|||.||..|+.+|+++++    .+||+||++++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~----~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDEN----GLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSC----CBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcC----CCCCccCCcCC
Confidence            479999998753    34458999999999999987643    37999999854

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=4.1e-13  Score=87.44  Aligned_cols=53  Identities=23%  Similarity=0.526  Sum_probs=41.8

Q ss_pred             CccccccccccccCc------------------eeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccc
Q 032386            6 CGDVCSVCHGNFNVP------------------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL   58 (142)
Q Consensus         6 ~~~~CpIC~~~~~~p------------------v~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   58 (142)
                      .+..|+||++.+..+                  ..++|||.||..||.+|++..+..+..+||+||..+..
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            356799999987532                  45789999999999999987654455689999987653

>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=99.21  E-value=4.2e-12  Score=79.11  Aligned_cols=46  Identities=26%  Similarity=0.470  Sum_probs=37.4

Q ss_pred             ccccccccccccC------------------ceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            7 GDVCSVCHGNFNV------------------PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         7 ~~~CpIC~~~~~~------------------pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      +..|+||++.+.+                  .+.++|||.||..||.+|++...     +||+||+.+.
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            4569999886643                  34568999999999999998765     8999999754

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=99.05  E-value=4.9e-11  Score=68.92  Aligned_cols=50  Identities=14%  Similarity=0.295  Sum_probs=39.9

Q ss_pred             CCccccccccccccCceeecC-----CCcccHhHHHHHHHhCCCCCCCCCCCCccccc
Q 032386            5 PCGDVCSVCHGNFNVPCQANC-----SHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT   57 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~C-----gH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   57 (142)
                      ++...|+||++...++...+|     +|.||..|+.+|+..+.   ..+||+||++++
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~---~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISR---NTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHT---CSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCC---CCCCcccCCeee
Confidence            455789999998887766654     59999999999997642   248999998754

>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=98.85  E-value=6.5e-10  Score=69.49  Aligned_cols=53  Identities=23%  Similarity=0.462  Sum_probs=38.7

Q ss_pred             CCCCcccccccccccc--C-ceeecCCCcccHhHHHHHHHhC---CCCCCCCCCCCccc
Q 032386            3 GPPCGDVCSVCHGNFN--V-PCQANCSHWFCGNCIMLVWDHG---STLQACRCPLCRRR   55 (142)
Q Consensus         3 ~~~~~~~CpIC~~~~~--~-pv~~~CgH~fC~~Ci~~~~~~~---~~~~~~~CP~Cr~~   55 (142)
                      |......|+||++.+.  + +..++|||.||.+|+..|+..+   ......+||.|+..
T Consensus         1 g~~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           1 GSSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             CCCSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            3456689999999874  3 3445799999999999999753   11334579987643

>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=96.49  E-value=0.00095  Score=38.34  Aligned_cols=48  Identities=21%  Similarity=0.348  Sum_probs=35.6

Q ss_pred             CCccccccccccccCceeec----CCCcccHhHHHHHHHhCCCCCCCCCCCC
Q 032386            5 PCGDVCSVCHGNFNVPCQAN----CSHWFCGNCIMLVWDHGSTLQACRCPLC   52 (142)
Q Consensus         5 ~~~~~CpIC~~~~~~pv~~~----CgH~fC~~Ci~~~~~~~~~~~~~~CP~C   52 (142)
                      ...+.|.+|.+.+.+-....    =+|.||..|-+.+++.....+..-||.=
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            34589999999998865554    4699999999999886543444556644

>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=93.19  E-value=0.059  Score=31.55  Aligned_cols=56  Identities=25%  Similarity=0.514  Sum_probs=37.1

Q ss_pred             CCCCCccccccccccccCceeec---CCCcccHhHHHHHH-HhC----------CCCCCCCCCCCccccccc
Q 032386            2 EGPPCGDVCSVCHGNFNVPCQAN---CSHWFCGNCIMLVW-DHG----------STLQACRCPLCRRRITLL   59 (142)
Q Consensus         2 ~~~~~~~~CpIC~~~~~~pv~~~---CgH~fC~~Ci~~~~-~~~----------~~~~~~~CP~Cr~~~~~l   59 (142)
                      |.++.|..|+|| +.+..-...|   |+..|...|+.+.= .++          ......+|+.|-. ++.|
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~n-l~~L   79 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDN-INLL   79 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCC-CCSS
T ss_pred             cCCCcCcccccc-CcccccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhcc-hhhh
Confidence            456788999999 6665545555   78899999998851 111          1122468999953 4433

>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=88.68  E-value=0.0036  Score=35.81  Aligned_cols=46  Identities=20%  Similarity=0.445  Sum_probs=33.4

Q ss_pred             ccccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCcccccccccC
Q 032386            7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN   62 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~l~~~   62 (142)
                      +..||.|...+..    .=||.+|..|-..+-..+      .||.|.+++..|..-
T Consensus         2 ~~~CP~C~~eL~~----~~~~~~C~~C~~~~~~~a------~CPdC~~~Le~LkAC   47 (71)
T d2jnea1           2 ELHCPQCQHVLDQ----DNGHARCRSCGEFIEMKA------LCPDCHQPLQVLKAC   47 (71)
T ss_dssp             CCBCSSSCSBEEE----ETTEEEETTTCCEEEEEE------ECTTTCSBCEEEEET
T ss_pred             CCcCCCccCcccc----cCCCEehhhhhhhheeEE------eCCccccHHHHHHhc
Confidence            4689999987653    126888888877654443      799999998866543

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=88.61  E-value=0.1  Score=29.64  Aligned_cols=30  Identities=37%  Similarity=0.874  Sum_probs=22.4

Q ss_pred             CccccccccccccCce----eecCCCcccHhHHH
Q 032386            6 CGDVCSVCHGNFNVPC----QANCSHWFCGNCIM   35 (142)
Q Consensus         6 ~~~~CpIC~~~~~~pv----~~~CgH~fC~~Ci~   35 (142)
                      ++..|.+|...|..-.    --.||+.||.+|..
T Consensus        12 ~~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~   45 (72)
T d1dvpa2          12 DGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTA   45 (72)
T ss_dssp             CCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSC
T ss_pred             cCCccccCCCcccCccccccccccCCeeChhhhC
Confidence            5568999998775422    24699999999964

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.27  E-value=0.17  Score=26.36  Aligned_cols=45  Identities=20%  Similarity=0.372  Sum_probs=30.0

Q ss_pred             ccccccccccCceee---cCCCcccHhHHHHHHHhCCCCCCCCCCCCcc
Q 032386            9 VCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRR   54 (142)
Q Consensus         9 ~CpIC~~~~~~pv~~---~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~   54 (142)
                      .|.||...-.....+   .|..+|...|+..-....+ .+...||.|+.
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p-~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVP-DGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCSCC-SSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCcCC-CCCEECcCCcC
Confidence            578887643322222   5999999999976544433 45678999975

>d1vfya_ g.50.1.1 (A:) vps27p protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: vps27p protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.24  E-value=0.31  Score=27.04  Aligned_cols=29  Identities=24%  Similarity=0.674  Sum_probs=21.1

Q ss_pred             ccccccccccccCcee----ecCCCcccHhHHH
Q 032386            7 GDVCSVCHGNFNVPCQ----ANCSHWFCGNCIM   35 (142)
Q Consensus         7 ~~~CpIC~~~~~~pv~----~~CgH~fC~~Ci~   35 (142)
                      +..|.+|...|..-..    -.||..||..|..
T Consensus         5 ~~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~   37 (67)
T d1vfya_           5 SDACMICSKKFSLLNRKHHCRSCGGVFCQEHSS   37 (67)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECGGGSC
T ss_pred             CcccccCCCcccCcccccccccCCCEecccccC
Confidence            3579999987753222    3699999999963

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.26  E-value=0.16  Score=27.67  Aligned_cols=47  Identities=19%  Similarity=0.457  Sum_probs=30.2

Q ss_pred             cccccccccccCceeecCCCcccHhHHHHHHHhCCCCCCCCCCCCccc
Q 032386            8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR   55 (142)
Q Consensus         8 ~~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~~~CP~Cr~~   55 (142)
                      ..|.+|.+.-..-.--.|.-+|+..|+.......+ .+...||.|+..
T Consensus        10 ~~C~~C~~~g~lv~Cd~C~~~~H~~C~~~~~~~~~-~~~W~C~~C~~~   56 (61)
T d1mm2a_          10 EFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIP-NGEWLCPRCTCP   56 (61)
T ss_dssp             SSCTTTCCCSSCBCCSSSCCCBCSSSSSSCCSSCC-SSCCCCTTTTTT
T ss_pred             CCCcCCCCCCeEEEeCCCCccCchhhcCCCcCcCC-CCcEECCCCcCc
Confidence            46888986432111136999999999854433333 356789999754