Citrus Sinensis ID: 037626

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------10
Protein Sequence
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHccHHHHHHHHHHHcccccccccccccccccccccccccccEEcccccccccccHHcHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEcccccHHEEEEEEHEEEEccHHHHHHHHHHHccccccccccccccccEEEEHcccccHHHHccccccccccHHHHHHHHHcccccccccccccc
Coil and Loop (DISEMBL)
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAmgyqpeaedskVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWldcnqftcpvcrsffl
Flexible Loop (DISEMBL)
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGyqpeaedskVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL
Low Complexity Region (SEG)
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL
Disordered region (IsUnstruct)
*****YSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF*
Disordered Region (DISOPRED)
*************AAIFFFSCILIPLLETKRAIY***************EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL
Disordered Region (DISEMBL)
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL
Disordered Region (DISPRO)
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR****
Transmembrane Helix (TMHMM)
oooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL
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	99	2.2.26 [Sep-21-2011]
Q9SZL4	145	RING-H2 finger protein AT	yes	no	1.0	0.682	0.440	2e-18
Q9P7E1	583	Uncharacterized RING fing	yes	no	0.898	0.152	0.340	2e-10
Q9SUS5	157	E3 ubiquitin-protein liga	no	no	0.545	0.343	0.436	9e-10
P93823	381	RING-H2 finger protein AT	no	no	0.545	0.141	0.436	4e-09
O64763	378	E3 ubiquitin-protein liga	no	no	0.444	0.116	0.466	5e-09
Q84W40	404	RING-H2 finger protein AT	no	no	0.444	0.108	0.466	6e-09
Q9SUS4	159	RING-H2 zinc finger prote	no	no	0.545	0.339	0.454	6e-09
Q9LY41	334	E3 ubiquitin-protein liga	no	no	0.444	0.131	0.6	7e-09
Q9ZV53	423	Putative RING-H2 finger p	no	no	0.474	0.111	0.5	8e-09
Q9SK92	381	E3 ubiquitin-protein liga	no	no	0.444	0.115	0.466	8e-09

>sp|Q9SZL4|ATL18_ARATH RING-H2 finger protein ATL18 OS=Arabidopsis thaliana GN=ATL18 PE=2 SV=1

 Score = 90.9 bits (224), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 48/109 (44%), Positives = 64/109 (58%), Gaps = 10/109 (9%)

Query: 1   MISLMYSQSRLFTAAIFFFSCILIPLLETKR----------AIYKAMGYQPEAEDSKVEE 50
           MIS+++ +S L TAAI F++C+ IPL   K+            Y  +G     ++ + E 
Sbjct: 1   MISMLFPRSPLCTAAIVFYTCVCIPLGRLKKNGGDADAHDDDGYNLVGVMFGDKEKEEEI 60

Query: 51  ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
            C ICL+EFE ED V+ L RC HLFH +CIE WL     TCP+CRSF L
Sbjct: 61  CCPICLVEFEAEDAVTHLPRCAHLFHINCIEPWLLRGHLTCPLCRSFVL 109

Arabidopsis thaliana (taxid: 3702)

>sp|Q9P7E1|YOF7_SCHPO Uncharacterized RING finger protein P4H10.07 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBP4H10.07 PE=1 SV=1

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/94 (34%), Positives = 52/94 (55%), Gaps = 5/94 (5%)

Query: 5   MYSQSRLFTAAIFFFSCILI--PLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKE 62
           +++ S  +   +   S I I  P + +++ + KA G  P    S  +E C +CL  FE  
Sbjct: 479 LFTDSPTYEDMLLLNSIIGIEKPPVASQKDLEKAGGVFPF---SGTDERCLVCLSNFELN 535

Query: 63  DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           D   RL +C H FH +CI++WL  +Q +CP+CR+
Sbjct: 536 DECRRLKQCNHFFHRECIDQWLTSSQNSCPLCRT 569

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

>sp|Q9SUS5|RHA1B_ARATH E3 ubiquitin-protein ligase RHA1B OS=Arabidopsis thaliana GN=RHA1B PE=2 SV=1

 Score = 62.4 bits (150), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 40/55 (72%), Gaps = 1/55 (1%)

Query: 46  SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFFL 99
           +  E+ C++CL +F  +D + +L +C H+FH  C++RW+ DCN+ TCP+CR+ FL
Sbjct: 79  TDPEDCCTVCLSDFVSDDKIRQLPKCGHVFHHRCLDRWIVDCNKITCPICRNRFL 133

Possesses E3 ubiquitin-protein ligase activity when associated with the E2 enzyme UBC8 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P93823|ATL1_ARATH RING-H2 finger protein ATL1 OS=Arabidopsis thaliana GN=ATL1 PE=2 SV=1

 Score = 60.1 bits (144), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/55 (43%), Positives = 37/55 (67%), Gaps = 1/55 (1%)

Query: 42  EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           E + SK  + CS+CL EF++++ +  +  CCH+FH DCI+ WL  N   CP+CR+
Sbjct: 124 EEDQSKNSQECSVCLNEFQEDEKLRIIPNCCHVFHIDCIDIWLQGNA-NCPLCRT 177

Arabidopsis thaliana (taxid: 3702)

>sp|O64763|ATL9_ARATH E3 ubiquitin-protein ligase ATL9 OS=Arabidopsis thaliana GN=ATL9 PE=1 SV=1

 Score = 60.1 bits (144), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 21/45 (46%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 52  CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           C++CL EFE ++ +  +  CCH+FHADC++ WL     TCP+CR+
Sbjct: 135 CAVCLCEFEDDETLRLMPPCCHVFHADCVDVWLS-EHSTCPLCRA 178

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q84W40|ATL11_ARATH RING-H2 finger protein ATL11 OS=Arabidopsis thaliana GN=ATL11 PE=2 SV=2

 Score = 59.7 bits (143), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 21/45 (46%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 52  CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           CS+CL EFE ++ +  + +CCH+FH  CI+ WL  +  TCP+CR+
Sbjct: 144 CSVCLNEFEDDETLRLIPKCCHVFHPGCIDAWLRSHT-TCPLCRA 187

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SUS4|RHA1A_ARATH RING-H2 zinc finger protein RHA1a OS=Arabidopsis thaliana GN=RHA1A PE=2 SV=1

 Score = 59.7 bits (143), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)

Query: 46  SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFFL 99
           +  E+ C++CL +FE +D V +L +C H+FH  C++RW+ D N+  CPVCR  FL
Sbjct: 80  TDPEDCCTVCLSDFESDDKVRQLPKCGHVFHHYCLDRWIVDYNKMKCPVCRHRFL 134

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LY41|ATL4_ARATH E3 ubiquitin-protein ligase ATL4 OS=Arabidopsis thaliana GN=ATL4 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 27/45 (60%), Positives = 33/45 (73%), Gaps = 1/45 (2%)

Query: 52  CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           C++CL +FE ED +  L  CCH FHADCI+ WL  NQ TCP+CRS
Sbjct: 117 CAVCLSKFEPEDQLRLLPLCCHAFHADCIDIWLVSNQ-TCPLCRS 160

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 59.3 bits (142), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 24/48 (50%), Positives = 31/48 (64%), Gaps = 1/48 (2%)

Query: 52  CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
           C +CL EFE ED +  L +C H FH +CI+ WL  +  TCP+CRS  L
Sbjct: 126 CPVCLCEFETEDKLRLLPKCSHAFHVECIDTWL-LSHSTCPLCRSNLL 172

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SK92|ATL15_ARATH E3 ubiquitin-protein ligase ATL15 OS=Arabidopsis thaliana GN=ATL15 PE=1 SV=1

 Score = 58.9 bits (141), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 21/45 (46%), Positives = 32/45 (71%), Gaps = 1/45 (2%)

Query: 52  CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           C +CL EFE ++ +  + +CCH+FH  CI+ WL  +Q TCP+CR+
Sbjct: 118 CPVCLNEFEDDETLRLIPQCCHVFHPGCIDAWLR-SQTTCPLCRA 161

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28 and UBC29 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	99
297801900	144	zinc finger family protein [Arabidopsis	1.0	0.687	0.467	6e-18
15233696	145	RING-H2 finger protein ATL18 [Arabidopsi	1.0	0.682	0.440	8e-17
388520595	137	unknown [Lotus japonicus]	0.989	0.715	0.401	7e-16
449453766	125	PREDICTED: RING-H2 finger protein ATL18-	0.848	0.672	0.390	1e-12
225426186	168	PREDICTED: E3 ubiquitin-protein ligase R	0.696	0.410	0.363	2e-10
255546662	85	conserved hypothetical protein [Ricinus	0.494	0.576	0.591	1e-09
356497249	141	PREDICTED: E3 ubiquitin-protein ligase R	0.505	0.354	0.52	3e-09
357141653	435	PREDICTED: E3 ubiquitin-protein ligase A	0.494	0.112	0.52	4e-09
297836999	166	zinc finger family protein [Arabidopsis	0.505	0.301	0.509	6e-09
338190109	171	ubiquitin-protein ligase E3 [Jatropha cu	0.595	0.345	0.423	8e-09

>gi|297801900|ref|XP_002868834.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297314670|gb|EFH45093.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 94.7 bits (234), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 51/109 (46%), Positives = 65/109 (59%), Gaps = 10/109 (9%)

Query: 1   MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEA---------EDSKVEEI 51
           MIS+++ +S L TAAI F++C+ IPL   K+    A  +  +          +  K EEI
Sbjct: 1   MISMLFPRSPLCTAAIVFYTCVCIPLGRLKKNGGDAEAHDDDGYHLVGVMFGDKEKEEEI 60

Query: 52  C-SICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
           C  ICL EFE ED V+RL RC HLFH +CIE WL     TCP+CRSF L
Sbjct: 61  CCPICLAEFEAEDAVTRLPRCAHLFHINCIEPWLLRGHLTCPLCRSFVL 109

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233696|ref|NP_195527.1| RING-H2 finger protein ATL18 [Arabidopsis thaliana] gi|68565341|sp|Q9SZL4.1|ATL18_ARATH RecName: Full=RING-H2 finger protein ATL18; Flags: Precursor gi|4467120|emb|CAB37554.1| putative protein [Arabidopsis thaliana] gi|7270798|emb|CAB80479.1| putative protein [Arabidopsis thaliana] gi|124301120|gb|ABN04812.1| At4g38140 [Arabidopsis thaliana] gi|332661483|gb|AEE86883.1| RING-H2 finger protein ATL18 [Arabidopsis thaliana]

 Score = 90.9 bits (224), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 48/109 (44%), Positives = 64/109 (58%), Gaps = 10/109 (9%)

Query: 1   MISLMYSQSRLFTAAIFFFSCILIPLLETKR----------AIYKAMGYQPEAEDSKVEE 50
           MIS+++ +S L TAAI F++C+ IPL   K+            Y  +G     ++ + E 
Sbjct: 1   MISMLFPRSPLCTAAIVFYTCVCIPLGRLKKNGGDADAHDDDGYNLVGVMFGDKEKEEEI 60

Query: 51  ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
            C ICL+EFE ED V+ L RC HLFH +CIE WL     TCP+CRSF L
Sbjct: 61  CCPICLVEFEAEDAVTHLPRCAHLFHINCIEPWLLRGHLTCPLCRSFVL 109

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388520595|gb|AFK48359.1| unknown [Lotus japonicus]

 Score = 87.8 bits (216), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 51/127 (40%), Positives = 67/127 (52%), Gaps = 29/127 (22%)

Query: 1   MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGY--------------------- 39
           M  L+  QS+L+   I F++CILIPL E K A+    G                      
Sbjct: 1   MNCLVGCQSQLWVVTIVFYTCILIPLKELKGALASLFGLFSKDVVEFLAVISSLPVARFE 60

Query: 40  --------QPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTC 91
                   +   +D   E+ICSICL+EFE ED VS+L R  H+FH +CIE+WLD  QF+C
Sbjct: 61  DLRRQCCCEGGDDDELREKICSICLVEFEGEDAVSKLERRGHVFHLNCIEQWLDRCQFSC 120

Query: 92  PVCRSFF 98
           P+CRSF 
Sbjct: 121 PLCRSFL 127

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453766|ref|XP_004144627.1| PREDICTED: RING-H2 finger protein ATL18-like [Cucumis sativus] gi|449500186|ref|XP_004161028.1| PREDICTED: RING-H2 finger protein ATL18-like [Cucumis sativus]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 43/110 (39%), Positives = 55/110 (50%), Gaps = 26/110 (23%)

Query: 14  AAIFFFSCILIPLLETKRAIYKAMGY--------------------------QPEAEDSK 47
           A I F +C+ IPL + K AI                                + +     
Sbjct: 11  ATIVFLTCVWIPLSQLKAAISSMFDILSGRTCQMLTTASLPCEVKLLVCRFEELQRAVGS 70

Query: 48  VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97
            EEICS+CL EF +E +VS+L RC H+FH +CIE WL  NQFTCP+CRSF
Sbjct: 71  EEEICSVCLTEFTREHLVSQLHRCSHVFHLECIESWLQRNQFTCPLCRSF 120

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426186|ref|XP_002279473.1| PREDICTED: E3 ubiquitin-protein ligase RHA1B-like [Vitis vinifera]

 Score = 69.7 bits (169), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 49/77 (63%), Gaps = 8/77 (10%)

Query: 23  LIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIER 82
           ++P+++ +  +    G  P+         C++CL EFE ++ + RLT C H+FH  C++R
Sbjct: 70  ILPVMKFEELVGAGAGDPPDQ--------CAVCLYEFEGQEEIRRLTNCRHIFHRSCLDR 121

Query: 83  WLDCNQFTCPVCRSFFL 99
           W+DC+Q TCP+CR+ F+
Sbjct: 122 WMDCDQKTCPLCRTPFI 138

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546662|ref|XP_002514390.1| conserved hypothetical protein [Ricinus communis] gi|223546487|gb|EEF47986.1| conserved hypothetical protein [Ricinus communis]

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 29/49 (59%), Positives = 38/49 (77%)

Query: 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97
          E +C ICL+EFE+ D VS+++RC HLFH DCI +WL  + FTCP+CRS 
Sbjct: 33 ENLCCICLVEFEEGDEVSQVSRCMHLFHLDCIAKWLQRHNFTCPLCRSL 81

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356497249|ref|XP_003517474.1| PREDICTED: E3 ubiquitin-protein ligase RHA1B-like [Glycine max]

 Score = 65.9 bits (159), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%)

Query: 50  EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
           E C++CL EFE ED + RLT C H+FH  C++RW+  +Q TCP+CR+ F+
Sbjct: 79  ESCAVCLYEFEGEDEIRRLTNCRHIFHRGCLDRWMGYDQRTCPLCRTPFI 128

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357141653|ref|XP_003572301.1| PREDICTED: E3 ubiquitin-protein ligase ATL6-like [Brachypodium distachyon]

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 26/50 (52%), Positives = 33/50 (66%), Gaps = 1/50 (2%)

Query: 47  KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           K E  C++CL EF+  D +  L RCCH FH DCI+ WL  +  TCPVCR+
Sbjct: 148 KGELECAVCLSEFDDRDALRLLPRCCHAFHVDCIDAWL-ASHVTCPVCRA 196

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297836999|ref|XP_002886381.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297332222|gb|EFH62640.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 38/51 (74%), Gaps = 1/51 (1%)

Query: 50  EICSICLMEFEKEDVVSRLTRCCHLFHADCIERW-LDCNQFTCPVCRSFFL 99
           E C++CL +FEK+D + RLT C H+FH  C++RW +  NQ TCP+CR+ F+
Sbjct: 87  ECCAVCLYDFEKDDEIRRLTNCTHIFHRGCLDRWMMGYNQMTCPLCRTQFI 137

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|338190109|gb|AEI84328.1| ubiquitin-protein ligase E3 [Jatropha curcas]

 Score = 64.3 bits (155), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 40/59 (67%)

Query: 41  PEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
           P A +  + E C++CL EF+ ED +  L  C H+FH  C++RW+D ++ TCP+CR+ F+
Sbjct: 81  PGAGEGDLPESCAVCLYEFDGEDEIRWLKNCKHIFHRACLDRWMDHDRNTCPLCRTSFV 139

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	99
TAIR|locus:2120963	145	AT4G38140 [Arabidopsis thalian	1.0	0.682	0.458	4e-19
TAIR|locus:2128293	157	RHA1B "RING-H2 finger A1B" [Ar	0.515	0.324	0.461	1.9e-12
TAIR|locus:2195498	166	AT1G63840 [Arabidopsis thalian	0.505	0.301	0.490	3.1e-12
TAIR|locus:2177931	176	AT5G41400 [Arabidopsis thalian	0.505	0.284	0.490	3.9e-12
TAIR|locus:2128303	159	RHA1A "RING-H2 finger A1A" [Ar	0.515	0.320	0.480	2.8e-11
TAIR|locus:2081907	334	ATL4 "TOXICOS EN LEVADURA 4" [	0.444	0.131	0.6	4.8e-11
TAIR|locus:2178515	289	AT5G46650 [Arabidopsis thalian	0.434	0.148	0.577	5e-11
TAIR|locus:2082757	170	BRH1 "brassinosteroid-responsi	0.505	0.294	0.48	5.8e-11
TAIR|locus:2169063	166	AT5G47610 [Arabidopsis thalian	0.575	0.343	0.396	1.3e-10
TAIR|locus:2177886	164	AT5G41450 [Arabidopsis thalian	0.434	0.262	0.5	1.3e-10

TAIR|locus:2120963 AT4G38140 [Arabidopsis thaliana (taxid:3702)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 50/109 (45%), Positives = 65/109 (59%)

Query:     1 MISLMYSQSRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEA---------EDSKVEEI 51
             MIS+++ +S L TAAI F++C+ IPL   K+    A  +  +          +  K EEI
Sbjct:     1 MISMLFPRSPLCTAAIVFYTCVCIPLGRLKKNGGDADAHDDDGYNLVGVMFGDKEKEEEI 60

Query:    52 CS-ICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
             C  ICL+EFE ED V+ L RC HLFH +CIE WL     TCP+CRSF L
Sbjct:    61 CCPICLVEFEAEDAVTHLPRCAHLFHINCIEPWLLRGHLTCPLCRSFVL 109

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

GO:0031225 "anchored to membrane" evidence=TAS

TAIR|locus:2128293 RHA1B "RING-H2 finger A1B" [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 24/52 (46%), Positives = 39/52 (75%)

Query:    49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFFL 99
             E+ C++CL +F  +D + +L +C H+FH  C++RW+ DCN+ TCP+CR+ FL
Sbjct:    82 EDCCTVCLSDFVSDDKIRQLPKCGHVFHHRCLDRWIVDCNKITCPICRNRFL 133

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0010200 "response to chitin" evidence=IEP

TAIR|locus:2195498 AT1G63840 [Arabidopsis thaliana (taxid:3702)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 25/51 (49%), Positives = 37/51 (72%)

Query:    50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFFL 99
             E C++CL +FE +D + RLT C H+FH  C++RW+   NQ TCP+CR+ F+
Sbjct:    87 ECCAVCLYDFENDDEIRRLTNCRHIFHRGCLDRWMMGYNQMTCPLCRTQFI 137

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

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

GO:0007165 "signal transduction" evidence=RCA

GO:0009414 "response to water deprivation" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009723 "response to ethylene stimulus" evidence=RCA

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

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

TAIR|locus:2177931 AT5G41400 [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 3.9e-12, P = 3.9e-12
 Identities = 25/51 (49%), Positives = 37/51 (72%)

Query:    50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFFL 99
             + C++CL EFE +D + RLT C H+FH  C++RW+   NQ TCP+CR+ F+
Sbjct:   103 DCCAVCLHEFENDDEIRRLTNCQHIFHRSCLDRWMMGYNQMTCPLCRTPFI 153

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

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2128303 RHA1A "RING-H2 finger A1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 25/52 (48%), Positives = 37/52 (71%)

Query:    49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFFL 99
             E+ C++CL +FE +D V +L +C H+FH  C++RW+ D N+  CPVCR  FL
Sbjct:    83 EDCCTVCLSDFESDDKVRQLPKCGHVFHHYCLDRWIVDYNKMKCPVCRHRFL 134

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

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009723 "response to ethylene stimulus" evidence=RCA

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

 Score = 158 (60.7 bits), Expect = 4.8e-11, P = 4.8e-11
 Identities = 27/45 (60%), Positives = 33/45 (73%)

Query:    52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
             C++CL +FE ED +  L  CCH FHADCI+ WL  NQ TCP+CRS
Sbjct:   117 CAVCLSKFEPEDQLRLLPLCCHAFHADCIDIWLVSNQ-TCPLCRS 160

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2178515 AT5G46650 [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 5.0e-11, P = 5.0e-11
 Identities = 26/45 (57%), Positives = 37/45 (82%)

Query:    52 CSICLMEFEKEDVVSRL-TRCCHLFHADCIERWLDCNQFTCPVCR 95
             C+ICL+EFE+E ++ RL T C H+FH +CI++WL+ N+ TCPVCR
Sbjct:   114 CAICLLEFEEEHILLRLLTTCYHVFHQECIDQWLESNK-TCPVCR 157

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2082757 BRH1 "brassinosteroid-responsive RING-H2" [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 5.8e-11, P = 5.8e-11
 Identities = 24/50 (48%), Positives = 35/50 (70%)

Query:    50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99
             E C++CL EFE E  +  L  C H+FH  C++RW+D +Q TCP+CR+ F+
Sbjct:    92 ENCAVCLYEFEGEQEIRWLRNCRHIFHRSCLDRWMDHDQKTCPLCRTPFV 141

GO:0005634 "nucleus" evidence=ISM

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

GO:0009741 "response to brassinosteroid stimulus" evidence=IEP

GO:0010200 "response to chitin" evidence=IEP

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0070838 "divalent metal ion transport" evidence=RCA

TAIR|locus:2169063 AT5G47610 [Arabidopsis thaliana (taxid:3702)]

 Score = 129 (50.5 bits), Expect = 1.3e-10, Sum P(2) = 1.3e-10
 Identities = 23/58 (39%), Positives = 33/58 (56%)

Query:    39 YQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
             Y  + E +  E  C+ICL EFE+ + +  L +C H FH  CI +WL     +CP CR+
Sbjct:    94 YSSDLELAGAEAECAICLSEFEQGESIQVLEKCQHGFHVKCIHKWLSTRS-SCPTCRT 150

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2177886 AT5G41450 [Arabidopsis thaliana (taxid:3702)]

 Score = 120 (47.3 bits), Expect = 1.3e-10, Sum P(2) = 1.3e-10
 Identities = 22/44 (50%), Positives = 27/44 (61%)

Query:    52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
             C ICL EFE    + R+  C H+FH  CI+ WL+ N  TCP CR
Sbjct:   110 CPICLEEFEDGHEIIRINMCRHVFHRFCIDPWLNQN-LTCPNCR 152

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

---

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: fgenesh1_pm.C_scaffold_7000003 annotation not avaliable (144 aa) (Arabidopsis lyrata)

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	99
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	1e-09
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	5e-09
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	7e-09
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	8e-06
smart00184	40	smart00184, RING, Ring finger	9e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	2e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	4e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	4e-04
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	0.001
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.002

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

 Score = 53.1 bits (127), Expect = 1e-09
 Identities = 28/88 (31%), Positives = 42/88 (47%), Gaps = 3/88 (3%)

Query: 9   SRLFTAAIFFFSCILIPLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRL 68
            ++     F+ S   IP   TK ++      +    D  VE  C+IC+  F K D + R+
Sbjct: 285 IQINFDVGFYSSSEAIPTTTTKGSLKPLSIERAVEADKGVE--CAICMSNFIKNDRL-RV 341

Query: 69  TRCCHLFHADCIERWLDCNQFTCPVCRS 96
             C H FH  C+++WL      CPVCR+
Sbjct: 342 LPCDHRFHVGCVDKWLLGYSNKCPVCRT 369

Length = 374

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

 Score = 47.4 bits (113), Expect = 5e-09
 Identities = 20/47 (42%), Positives = 31/47 (65%), Gaps = 2/47 (4%)

Query: 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          + C ICL EFE  + V  +  C H+FH +C+++WL  +  TCP+CR+
Sbjct: 1  DECPICLDEFEPGEEV-VVLPCGHVFHKECLDKWLR-SSNTCPLCRA 45

Length = 46

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

 Score = 48.2 bits (115), Expect = 5e-09
 Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 10/57 (17%)

Query: 48 VEEICSICLMEFE---------KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
           +++C+IC   F+          +D       C H FH  CI RWL     TCP+CR
Sbjct: 18 EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRN-TCPLCR 73

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

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

 Score = 47.1 bits (112), Expect = 7e-09
 Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          C ICL EF +      L  C H+F   CI++WL   + TCP+CR+
Sbjct: 2  CPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43

Length = 45

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

 Score = 42.1 bits (99), Expect = 8e-06
 Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 6/65 (9%)

Query: 39  YQPEAEDSKVEEICSICLMEFEKEDVVSR----LTRCCHLFHADCIERWLDCNQFTCPVC 94
           Y+     SK +E C+IC+ +   +++ +     L+ C H+F  +CI+ W      TCPVC
Sbjct: 165 YEKLYNRSKDKE-CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-TCPVC 222

Query: 95  RSFFL 99
           R+ F+
Sbjct: 223 RTPFI 227

Length = 238

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

 Score = 39.0 bits (91), Expect = 9e-06
 Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 3/43 (6%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94
          C ICL E+ K+     +  C H F   CI +WL+    TCP+C
Sbjct: 1  CPICLEEYLKD---PVILPCGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 12/56 (21%)

Query: 51  ICSICLMEF----------EKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
            C+IC+ E             +    RL  C H+ H  C++ WL+  Q TCP+CR 
Sbjct: 289 TCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQ-TCPICRR 342

Length = 491

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

 Score = 37.3 bits (86), Expect = 4e-04
 Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 46   SKVEEICSIC---LMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFF 98
            S  EE C+IC   L   ++     R   C + FH  C+ +W     +  CP+CRS  
Sbjct: 1467 SGHEE-CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Length = 1525

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

 Score = 35.5 bits (82), Expect = 4e-04
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 11/61 (18%)

Query: 49 EEICSICLMEFEK---------EDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSF 97
          +++C IC + F+          +D      +C H FH  CI +WL    ++  CP+CR  
Sbjct: 21 DDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQT 80

Query: 98 F 98
          F
Sbjct: 81 F 81

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

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

 Score = 33.6 bits (77), Expect = 0.001
 Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 4/48 (8%)

Query: 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          E  C ICL       V   LT C H+F  +CI R+L      CP+CR+
Sbjct: 2  ELECPICLDLLRDPVV---LTPCGHVFCRECILRYLKKKS-KCPICRT 45

Length = 45

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

 Score = 33.2 bits (76), Expect = 0.002
 Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 3/43 (6%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94
          C ICL E +       +  C HLF + CI  WL+    TCP+C
Sbjct: 1  CPICLEEPK---DPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	99
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.77
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.77
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.66
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.64
PHA02929	238	N1R/p28-like protein; Provisional	99.64
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.57
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.55
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.55
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.53
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.52
PHA02926	242	zinc finger-like protein; Provisional	99.51
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.5
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.5
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.48
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.42
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.4
PF14634	44	zf-RING_5: zinc-RING finger domain	99.38
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.36
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.34
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.3
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.26
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.26
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	99.23
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.2
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	99.14
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	99.12
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	99.07
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	99.04
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	99.01
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.99
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.97
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.93
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.92
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.9
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.89
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.89
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.89
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.86
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.83
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.81
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.77
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.71
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.71
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.7
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.7
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.61
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.52
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	98.36
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	98.3
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	98.28
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.23
KOG0297	391	consensus TNF receptor-associated factor [Signal t	98.21
KOG0825	1134	consensus PHD Zn-finger protein [General function	98.19
PHA02825	162	LAP/PHD finger-like protein; Provisional	98.09
KOG1941	518	consensus Acetylcholine receptor-associated protei	98.03
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	98.01
PHA02862	156	5L protein; Provisional	98.0
COG5152	259	Uncharacterized conserved protein, contains RING a	97.89
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.87
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	97.82
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	97.82
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.8
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.77
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.76
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.74
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.74
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.74
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.74
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.71
KOG2660	331	consensus Locus-specific chromosome binding protei	97.69
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
PHA03096	284	p28-like protein; Provisional	97.68
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.6
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	97.58
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	97.54
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.53
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	97.43
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.42
KOG4739	233	consensus Uncharacterized protein involved in syna	97.4
PF04641	260	Rtf2: Rtf2 RING-finger	97.39
KOG1940	276	consensus Zn-finger protein [General function pred	97.36
KOG3002	299	consensus Zn finger protein [General function pred	97.34
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	97.21
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.16
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.15
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	97.07
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	97.05
KOG3053	293	consensus Uncharacterized conserved protein [Funct	97.01
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.95
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.91
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	96.79
KOG1001	674	consensus Helicase-like transcription factor HLTF/	96.61
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	96.59
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	96.5
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.48
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	96.37
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.37
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	96.37
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	96.3
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	96.03
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.95
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	95.82
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	95.8
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	95.47
KOG3899	381	consensus Uncharacterized conserved protein [Funct	95.23
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	95.06
KOG0298	1394	consensus DEAD box-containing helicase-like transc	94.99
KOG1609	323	consensus Protein involved in mRNA turnover and st	94.92
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	94.88
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	94.37
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.28
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	94.17
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	94.04
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	93.51
KOG3113	293	consensus Uncharacterized conserved protein [Funct	92.94
PLN02189	1040	cellulose synthase	92.93
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	92.78
KOG0825	1134	consensus PHD Zn-finger protein [General function	92.65
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	92.55
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	92.55
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	92.12
PLN02436	1094	cellulose synthase A	92.01
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	91.48
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	91.42
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	91.24
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	90.43
KOG1829	580	consensus Uncharacterized conserved protein, conta	90.32
KOG2068	327	consensus MOT2 transcription factor [Transcription	90.03
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	90.03
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	89.95
smart00064	68	FYVE Protein present in Fab1, YOTB, Vac1, and EEA1	89.85
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	89.83
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	89.8
PLN02638	1079	cellulose synthase A (UDP-forming), catalytic subu	89.71
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	89.58
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	89.47
PF10497	105	zf-4CXXC_R1: Zinc-finger domain of monoamine-oxida	89.44
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	89.25
cd00065	57	FYVE FYVE domain; Zinc-binding domain; targets pro	89.05
PLN02915	1044	cellulose synthase A [UDP-forming], catalytic subu	88.97
PLN02195	977	cellulose synthase A	88.78
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	88.71
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	88.59
KOG0269	839	consensus WD40 repeat-containing protein [Function	87.96
PLN02400	1085	cellulose synthase	87.61
PF06844	68	DUF1244: Protein of unknown function (DUF1244); In	87.54
KOG3005	276	consensus GIY-YIG type nuclease [General function	87.54
PF13717	36	zinc_ribbon_4: zinc-ribbon domain	87.11
PF02318	118	FYVE_2: FYVE-type zinc finger; InterPro: IPR003315	86.03
COG3813	84	Uncharacterized protein conserved in bacteria [Fun	85.55
PF04710	416	Pellino: Pellino; InterPro: IPR006800 Pellino is i	85.3
PF04216	290	FdhE: Protein involved in formate dehydrogenase fo	84.51
KOG2807	378	consensus RNA polymerase II transcription initiati	83.75
PF10083	158	DUF2321: Uncharacterized protein conserved in bact	83.54
COG5109	396	Uncharacterized conserved protein, contains RING Z	82.99
PF07649	30	C1_3: C1-like domain; InterPro: IPR011424 This sho	82.62
KOG3842	429	consensus Adaptor protein Pellino [Signal transduc	82.5
KOG3039	303	consensus Uncharacterized conserved protein [Funct	82.32
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	82.02
smart00647	64	IBR In Between Ring fingers. the domains occurs be	81.33

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=99.77  E-value=1.3e-19  Score=89.03  Aligned_cols=44  Identities=52%  Similarity=1.226  Sum_probs=38.0

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      ++|+||++++.+++.+..++ |||.||.+|+.+|++++. +||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~-~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNN-SCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSS-B-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCC-cCCccC
Confidence            46999999999888887776 999999999999999765 999997

...

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

Probab=99.77  E-value=1.1e-18  Score=116.78  Aligned_cols=48  Identities=42%  Similarity=1.018  Sum_probs=43.8

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+||+|+|..+|++++|| |+|.||..||+.|+.+.+..||+||+++
T Consensus       230 ~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcC
Confidence            58999999999999999986 9999999999999997765699999875

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

Probab=99.66  E-value=7.3e-17  Score=87.11  Aligned_cols=46  Identities=39%  Similarity=0.963  Sum_probs=35.3

Q ss_pred             cccccccccccccC---------CeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           49 EEICSICLMEFEKE---------DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        49 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      ++.|+||++++.++         +....+++|||.||..||.+|++.++ +||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence            44599999999432         23335557999999999999999666 999998

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 ....

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

Probab=99.64  E-value=6.1e-16  Score=103.75  Aligned_cols=55  Identities=36%  Similarity=0.884  Sum_probs=43.1

Q ss_pred             CCCCCcccccccccccccccCC----------eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKED----------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++-...|..|.||+|++-.++          ...++ +|||.+|..|++.|+++++ +||+||.++
T Consensus       280 ~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQ-TCPICr~p~  344 (491)
T COG5243         280 EEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQ-TCPICRRPV  344 (491)
T ss_pred             hhhhcCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhcc-CCCcccCcc
Confidence            4444567779999999953322          23355 5999999999999999887 999999985

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.64  E-value=1.6e-16  Score=102.18  Aligned_cols=51  Identities=33%  Similarity=0.864  Sum_probs=41.1

Q ss_pred             cccccccccccccccCC----eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKED----VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+.+|+||++.+.+++    ....+++|||.||.+||.+|++++. +||+||+++
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-tCPlCR~~~  226 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-TCPVCRTPF  226 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-CCCCCCCEe
Confidence            34578999999987643    2346668999999999999998554 999999875

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.57  E-value=2.6e-15  Score=93.49  Aligned_cols=51  Identities=37%  Similarity=0.709  Sum_probs=40.6

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---------------CCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---------------NQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---------------~~~~CP~CR~~~   98 (99)
                      .+..++.+|+||++.+.++    ++++|||.||..||..|+..               ++.+||+||+++
T Consensus        13 ~~~~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I   78 (193)
T PLN03208         13 VDSGGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV   78 (193)
T ss_pred             ccCCCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence            3444567899999998877    55679999999999999852               234799999875

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

Probab=99.55  E-value=1.7e-15  Score=98.53  Aligned_cols=47  Identities=34%  Similarity=0.805  Sum_probs=40.3

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+..|.+|+|...++    ..++|||.||.+||.+|...+. .||+||+.+
T Consensus       237 ~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~  283 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKA-ECPLCREKF  283 (293)
T ss_pred             CCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHcccc-CCCcccccC
Confidence            3446799999999888    6668999999999999999555 899999864

>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=99.55  E-value=3.9e-15  Score=74.88  Aligned_cols=45  Identities=38%  Similarity=0.829  Sum_probs=36.0

Q ss_pred             cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..|.||++...+.    .+.+|||. ||.+|+.+|++ ++..||+||+++
T Consensus         2 ~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i   47 (50)
T PF13920_consen    2 DEECPICFENPRDV----VLLPCGHLCFCEECAERLLK-RKKKCPICRQPI   47 (50)
T ss_dssp             HSB-TTTSSSBSSE----EEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-
T ss_pred             cCCCccCCccCCce----EEeCCCChHHHHHHhHHhcc-cCCCCCcCChhh
Confidence            56799999986653    55579999 99999999999 444999999976

...

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

Probab=99.53  E-value=6.7e-15  Score=96.51  Aligned_cols=50  Identities=38%  Similarity=0.864  Sum_probs=43.4

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      ..+|+|||+++...|+++.+| |.|.||..|++.|+..-+..||+||.+++
T Consensus       323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCC
Confidence            457999999999999987775 99999999999999854458999999874

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

Probab=99.52  E-value=1.1e-14  Score=79.69  Aligned_cols=51  Identities=35%  Similarity=0.884  Sum_probs=39.4

Q ss_pred             ccccccccccccccC---------CeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKE---------DVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~~~   98 (99)
                      +++.|.||..+|+..         +-......|+|.||..||.+|++++  +.+||+||+++
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            377899999998731         1123455799999999999999863  45899999975

>PHA02926 zinc finger-like protein; Provisional

Probab=99.51  E-value=9.7e-15  Score=92.22  Aligned_cols=52  Identities=31%  Similarity=0.731  Sum_probs=39.6

Q ss_pred             ccccccccccccccc-----CCeeeEecCCCCcccHHHHHHHHhcC-----CCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEK-----EDVVSRLTRCCHLFHADCIERWLDCN-----QFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~-----~~~~~~l~~C~H~fh~~Ci~~w~~~~-----~~~CP~CR~~~   98 (99)
                      ..+.+|+||+|..-.     +.....+++|+|.||..||+.|.+.+     ..+||+||..+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            345789999998632     22345777999999999999999743     23599999864

>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=99.50  E-value=3e-14  Score=69.43  Aligned_cols=45  Identities=42%  Similarity=1.013  Sum_probs=36.2

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +|+||++.+.++   ..+++|||.||..|++.|++.++..||.||..+
T Consensus         1 ~C~iC~~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCc---eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999998332   244469999999999999986466899999864

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

Probab=99.50  E-value=2.1e-14  Score=69.59  Aligned_cols=39  Identities=38%  Similarity=0.869  Sum_probs=30.2

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC---CcCccC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ---FTCPVC   94 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~---~~CP~C   94 (99)
                      |+||++.+.++    +.++|||+||.+||.+|++..+   ..||.|
T Consensus         1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999998    6668999999999999987643   369987

>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=99.48  E-value=3.4e-14  Score=67.90  Aligned_cols=39  Identities=44%  Similarity=0.999  Sum_probs=31.3

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      |+||++.+.++   .+.++|||.||.+|+.+|++. +.+||+|
T Consensus         1 C~iC~~~~~~~---~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP---VVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE---EEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCc---CEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            89999998774   345579999999999999997 5599998

>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=99.42  E-value=1.4e-13  Score=66.35  Aligned_cols=40  Identities=43%  Similarity=1.089  Sum_probs=33.9

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHh-cCCCcCccC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-CNQFTCPVC   94 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~-~~~~~CP~C   94 (99)
                      |+||++.+.++.   .+++|||.||..|+.+|++ .+...||.|
T Consensus         1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988772   3668999999999999998 455689998

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 ....

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

Probab=99.40  E-value=2e-13  Score=86.63  Aligned_cols=48  Identities=33%  Similarity=0.645  Sum_probs=39.2

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~~~   98 (99)
                      ...-+|.||+|.-+++    +++.|||.||+.||.+|++.+  ...||+||..+
T Consensus        45 ~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V   94 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV   94 (230)
T ss_pred             CCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence            4445899999998888    666799999999999999863  23589999754

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.38  E-value=4.4e-13  Score=65.62  Aligned_cols=44  Identities=34%  Similarity=0.936  Sum_probs=35.0

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .|+||++++.+.... .+++|||+||.+|+..+.. +...||+||+
T Consensus         1 ~C~~C~~~~~~~~~~-~l~~CgH~~C~~C~~~~~~-~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRP-RLTSCGHIFCEKCLKKLKG-KSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCe-EEcccCCHHHHHHHHhhcC-CCCCCcCCCC
Confidence            499999999444444 5667999999999999883 4458999985

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

Probab=99.36  E-value=3.8e-13  Score=95.79  Aligned_cols=49  Identities=41%  Similarity=1.008  Sum_probs=40.5

Q ss_pred             cccccccccccccccCCe--eeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           47 KVEEICSICLMEFEKEDV--VSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~--~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      ..++.|+||+|++..+..  ..++ +|||.||..|+++|+++++ +||+||..
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~q-tCP~CR~~  339 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQ-TCPTCRTV  339 (543)
T ss_pred             hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhC-cCCcchhh
Confidence            336789999999987543  3355 5999999999999999766 99999974

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

Probab=99.34  E-value=8.2e-13  Score=80.88  Aligned_cols=46  Identities=33%  Similarity=0.709  Sum_probs=37.3

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+|||+.+.....  .-++|||+||..||+..++... .||+||+.+
T Consensus       132 ~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~-~CP~C~kkI  177 (187)
T KOG0320|consen  132 YKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTN-KCPTCRKKI  177 (187)
T ss_pred             cCCCceecchhhccc--cccccchhHHHHHHHHHHHhCC-CCCCccccc
Confidence            579999999875533  3358999999999999999555 999999643

>smart00184 RING Ring finger

Probab=99.30  E-value=2.6e-12  Score=60.51  Aligned_cols=39  Identities=41%  Similarity=1.069  Sum_probs=31.2

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      |+||++...+.    ..++|||.||..|++.|++..+.+||.|
T Consensus         1 C~iC~~~~~~~----~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDP----VVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCc----EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999984433    4446999999999999998555579987

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)

>smart00504 Ubox Modified RING finger domain

Probab=99.26  E-value=8e-12  Score=65.36  Aligned_cols=44  Identities=23%  Similarity=0.360  Sum_probs=38.0

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+||.+.+.++    ...+|||+|+.+|+.+|++. +.+||.|++++
T Consensus         2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~   45 (63)
T smart00504        2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLS-HGTDPVTGQPL   45 (63)
T ss_pred             cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCC
Confidence            4699999999987    55579999999999999986 45899999864

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

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

Probab=99.26  E-value=4.8e-12  Score=61.41  Aligned_cols=40  Identities=33%  Similarity=0.839  Sum_probs=22.8

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHhcC---CCcCc
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN---QFTCP   92 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~---~~~CP   92 (99)
                      |+||.| +.+++...++++|||+|+++|++++...+   ...||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 77655544555699999999999998853   45687

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

Probab=99.23  E-value=1.6e-11  Score=79.62  Aligned_cols=55  Identities=25%  Similarity=0.666  Sum_probs=41.4

Q ss_pred             CCCCcccccccccccccccCC-------eeeEecCCCCcccHHHHHHHHhc-CCCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKED-------VVSRLTRCCHLFHADCIERWLDC-NQFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~-------~~~~l~~C~H~fh~~Ci~~w~~~-~~~~CP~CR~~~   98 (99)
                      +....++..|+||-..+..+.       +.-++ .|+|+||+.||+.|... ++.+||.|++.+
T Consensus       218 Ptkhl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekV  280 (328)
T KOG1734|consen  218 PTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKV  280 (328)
T ss_pred             CCCCCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHh
Confidence            445566778999999987654       44455 59999999999999643 333899998753

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.20  E-value=1.2e-11  Score=84.80  Aligned_cols=50  Identities=34%  Similarity=0.586  Sum_probs=41.1

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...+....|+||++.+.++    ++++|||.||..|+..|+... ..||.||..+
T Consensus        21 ~~Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~   70 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQ-PKCPLCRAED   70 (397)
T ss_pred             cccccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCC-CCCCCCCCcc
Confidence            3344556899999999887    556899999999999999854 4899999864

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

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

Probab=99.14  E-value=4.5e-12  Score=67.46  Aligned_cols=50  Identities=42%  Similarity=0.921  Sum_probs=37.6

Q ss_pred             cccccccccccccC---------CeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKE---------DVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~~   98 (99)
                      ++.|.||..+|+..         +-..++..|.|.||..||.+|+..  ++..||+||+.+
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~   80 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW   80 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence            34799999998632         222234479999999999999975  445799999975

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

Probab=99.12  E-value=4.9e-11  Score=64.04  Aligned_cols=48  Identities=35%  Similarity=0.798  Sum_probs=35.4

Q ss_pred             ccccccccccc-----------cCC-eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFE-----------KED-VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~-----------~~~-~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +.|+||...+.           +++ -.....-|+|.||..||.+|+.++. .||++|+++
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~-~CPld~q~w   80 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKG-VCPLDRQTW   80 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCC-CCCCCCcee
Confidence            45777776653           222 2334446999999999999999654 999999976

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

Probab=99.07  E-value=1.1e-10  Score=75.60  Aligned_cols=47  Identities=34%  Similarity=0.683  Sum_probs=38.4

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHH-HHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIER-WLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~-w~~~~~~~CP~CR~~~   98 (99)
                      .+..|+||++....+    ..++|||.||..||-. |-.++...||+||+..
T Consensus       214 ~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~  261 (271)
T COG5574         214 ADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV  261 (271)
T ss_pred             cccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence            366799999998877    5557999999999999 8775553599999864

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

Probab=99.04  E-value=1.1e-10  Score=81.26  Aligned_cols=46  Identities=33%  Similarity=0.756  Sum_probs=37.4

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC----CCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN----QFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~----~~~CP~CR~~~   98 (99)
                      +..||||+++...+    ..+.|||.||..||-+++...    -..||+||..|
T Consensus       186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I  235 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI  235 (513)
T ss_pred             CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence            67899999997766    666799999999999977643    23799999764

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

Probab=99.01  E-value=1.4e-10  Score=80.58  Aligned_cols=52  Identities=35%  Similarity=0.841  Sum_probs=39.5

Q ss_pred             ccccccccccccccC-----Ce-----e---eEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           48 VEEICSICLMEFEKE-----DV-----V---SRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~-----~~-----~---~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      ...+|+|||.+++-.     ..     +   -.++||.|.||..|+.+|.+..+..||.||.++.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            345799999987521     11     1   1345899999999999999965558999999874

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.99  E-value=4.7e-10  Score=74.60  Aligned_cols=50  Identities=16%  Similarity=0.485  Sum_probs=36.2

Q ss_pred             cccccccccc-cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLME-FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~-~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..||+|..+ +.+++......+|||.||.+|++..+..+...||.|+.++
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~l   53 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPL   53 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCcc
Confidence            4579999996 3344321112269999999999997765666899998764

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).

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

Probab=98.97  E-value=2.9e-10  Score=78.19  Aligned_cols=47  Identities=32%  Similarity=0.799  Sum_probs=37.3

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .+-.+||||+|.+++...-.....|.|.||..|+..|..   .+||+||.
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~  219 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRY  219 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhh
Confidence            444589999999987753333335999999999999976   48999985

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

Probab=98.93  E-value=1.5e-10  Score=61.88  Aligned_cols=50  Identities=26%  Similarity=0.555  Sum_probs=23.3

Q ss_pred             cccccccccccccCC-e-eeEe--cCCCCcccHHHHHHHHhc---CC-------CcCccCCCCC
Q 037626           49 EEICSICLMEFEKED-V-VSRL--TRCCHLFHADCIERWLDC---NQ-------FTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~-~-~~~l--~~C~H~fh~~Ci~~w~~~---~~-------~~CP~CR~~~   98 (99)
                      +.+|.||++...+++ . ....  ..|++.||..|+.+|+..   ++       .+||.|++++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            457999999876332 2 2223  279999999999999863   11       2599999875

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

Probab=98.92  E-value=4.8e-10  Score=75.02  Aligned_cols=45  Identities=31%  Similarity=0.682  Sum_probs=39.1

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      -..|.||.+-|..+    .+++|||+||.-||+..+. .+..||.|+.++
T Consensus        23 lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~-~~p~CP~C~~~~   67 (442)
T KOG0287|consen   23 LLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLS-YKPQCPTCCVTV   67 (442)
T ss_pred             HHHHhHHHHHhcCc----eeccccchHHHHHHHHHhc-cCCCCCceeccc
Confidence            34799999999988    7778999999999999998 555899998754

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

Probab=98.90  E-value=8.5e-10  Score=72.59  Aligned_cols=45  Identities=38%  Similarity=0.611  Sum_probs=39.0

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      ....|.||-+.+..+    ..++|||.||.-||+..+. .+..||+||.+
T Consensus        24 s~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~-~qp~CP~Cr~~   68 (391)
T COG5432          24 SMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLG-TQPFCPVCRED   68 (391)
T ss_pred             hHHHhhhhhheeecc----eecccccchhHHHHHHHhc-CCCCCcccccc
Confidence            345799999999888    7778999999999999999 55589999975

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

Probab=98.89  E-value=1.2e-09  Score=61.41  Aligned_cols=49  Identities=31%  Similarity=0.715  Sum_probs=37.5

Q ss_pred             cccccccccccc-------------cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFE-------------KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~-------------~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      -+.|+||...+-             ..+-......|+|.||.-||.+|+++++ .||+|.+++
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~-vCPLdn~eW  107 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRN-VCPLDNKEW  107 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcC-cCCCcCcce
Confidence            456999887652             1233445568999999999999999777 999998765

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

Probab=98.89  E-value=3.3e-10  Score=56.70  Aligned_cols=46  Identities=26%  Similarity=0.540  Sum_probs=36.4

Q ss_pred             cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++|.||+|...+.    ++-.|||. .|.+|-.+.++..+..||+||+++
T Consensus         7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            36799999986665    55569997 899998776665566899999875

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

Probab=98.89  E-value=1.9e-09  Score=58.09  Aligned_cols=47  Identities=28%  Similarity=0.378  Sum_probs=36.3

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+|+.+-|.++    +..++||+|.+++|.+|++++..+||++++++
T Consensus         3 ~~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l   49 (73)
T PF04564_consen    3 DEFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPL   49 (73)
T ss_dssp             GGGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred             cccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence            456799999999988    66679999999999999997566999998764

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 ....

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

Probab=98.86  E-value=2.9e-09  Score=53.07  Aligned_cols=43  Identities=35%  Similarity=0.887  Sum_probs=31.1

Q ss_pred             cccccccccccCCeeeEecCCC-----CcccHHHHHHHHhcC-CCcCccCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDCN-QFTCPVCR   95 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~~-~~~CP~CR   95 (99)
                      .|.||++...+++.+ ..| |.     |.+|.+|+.+|+..+ +.+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l-~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPL-VSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCee-Eec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            489999943344343 454 74     889999999999753 44799995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

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

Probab=98.83  E-value=1.3e-09  Score=71.57  Aligned_cols=47  Identities=36%  Similarity=0.759  Sum_probs=39.2

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      ...+...|+||++.+..+    .+++|||.||..|+..++. ....||.||.
T Consensus         9 ~~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             hccccccChhhHHHhhcC----ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            344566899999999998    5557999999999999987 5558999993

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

Probab=98.81  E-value=4.5e-09  Score=70.64  Aligned_cols=47  Identities=28%  Similarity=0.616  Sum_probs=37.3

Q ss_pred             cccccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..+|.||+++.++.    .++||.|. .|.+|.+...- +++.||+||+++
T Consensus       288 ~~gkeCVIClse~rdt----~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi  335 (349)
T KOG4265|consen  288 ESGKECVICLSESRDT----VVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPI  335 (349)
T ss_pred             cCCCeeEEEecCCcce----EEecchhhehhHhHHHHHHH-hhcCCCccccch
Confidence            4456899999997665    55579998 89999998764 334899999976

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

Probab=98.77  E-value=1.7e-09  Score=80.18  Aligned_cols=52  Identities=31%  Similarity=0.747  Sum_probs=38.6

Q ss_pred             cccccccccccccccCC---eeeEecCCCCcccHHHHHHHHhc-CCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKED---VVSRLTRCCHLFHADCIERWLDC-NQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~---~~~~l~~C~H~fh~~Ci~~w~~~-~~~~CP~CR~~~   98 (99)
                      ...++|+||+..+..-+   +-.+.+.|.|.||..|+..|++. ++.+||+||..+
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            34457999999876211   11245579999999999999986 345799999875

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

Probab=98.71  E-value=5.8e-09  Score=70.61  Aligned_cols=51  Identities=31%  Similarity=0.772  Sum_probs=39.1

Q ss_pred             cccccccccccccccCC----eeeEecCCCCcccHHHHHHHHhcCC------CcCccCCCC
Q 037626           47 KVEEICSICLMEFEKED----VVSRLTRCCHLFHADCIERWLDCNQ------FTCPVCRSF   97 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w~~~~~------~~CP~CR~~   97 (99)
                      ..+..|.||++......    ...++++|.|.||..|++.|....+      ..||.||.+
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~  219 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP  219 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence            45678999999875442    2345689999999999999984332      479999974

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

Probab=98.71  E-value=3.2e-09  Score=76.95  Aligned_cols=45  Identities=29%  Similarity=0.806  Sum_probs=39.2

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+.|-...++.    +++.|||.||..|++..+..++..||.|.+.|
T Consensus       644 LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF  688 (698)
T KOG0978|consen  644 LKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAF  688 (698)
T ss_pred             eeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence            3699999887766    66789999999999999998888999998865

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

Probab=98.70  E-value=6.6e-09  Score=70.62  Aligned_cols=46  Identities=26%  Similarity=0.881  Sum_probs=34.0

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC--CcCccCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ--FTCPVCR   95 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~--~~CP~CR   95 (99)
                      ..|.||-+-+.....+.....|||+||..|+.+|++...  ++||+||
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            469999444444444444446999999999999998632  4799998

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

Probab=98.70  E-value=6.7e-09  Score=68.51  Aligned_cols=47  Identities=28%  Similarity=0.419  Sum_probs=39.0

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...+|+||+....-+    +.+.|+|.||.-||..-...++.+||+||.+|
T Consensus         6 ~~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pi   52 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPI   52 (324)
T ss_pred             cCCcceeeeccCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCC
Confidence            356799999997766    45579999999999987776676899999986

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

Probab=98.61  E-value=6.7e-09  Score=53.91  Aligned_cols=42  Identities=33%  Similarity=0.773  Sum_probs=22.3

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      ..|++|.+.++.+   ..+..|+|.||..|+..-+.  . .||+|+.+
T Consensus         8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~-~CPvC~~P   49 (65)
T PF14835_consen    8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--S-ECPVCHTP   49 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--T-B-SSS--B
T ss_pred             cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--C-CCCCcCCh
Confidence            4699999999887   23458999999999987544  2 69999875

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

Probab=98.52  E-value=9.7e-09  Score=69.04  Aligned_cols=48  Identities=35%  Similarity=0.736  Sum_probs=39.6

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .+..|+||++-++..   ...+.|.|.||.+||..-++.....||.||+.+
T Consensus        42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l   89 (381)
T KOG0311|consen   42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL   89 (381)
T ss_pred             hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence            355799999998766   234489999999999998887666999999865

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

Probab=98.36  E-value=3e-07  Score=45.28  Aligned_cols=46  Identities=24%  Similarity=0.518  Sum_probs=24.1

Q ss_pred             ccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           52 CSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      |++|.++++..+.- ..| +||+..|..|...-++.....||-||+++
T Consensus         1 cp~C~e~~d~~d~~-~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKD-FYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT---SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCc-cccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            78999999555432 333 78999999999998875556899999875

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

Probab=98.30  E-value=4.2e-06  Score=54.92  Aligned_cols=53  Identities=23%  Similarity=0.531  Sum_probs=38.4

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      ......+.+|++|.+.-..|-.   ..+|||.||.-|+..-.... ..+||.|.++.
T Consensus       233 ss~~t~~~~C~~Cg~~PtiP~~---~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  233 SSTGTSDTECPVCGEPPTIPHV---IGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             cccccCCceeeccCCCCCCCee---eccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            3344556689999998776622   22699999999999865532 35899998764

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

Probab=98.28  E-value=7.7e-07  Score=61.12  Aligned_cols=48  Identities=33%  Similarity=0.856  Sum_probs=36.6

Q ss_pred             cccccccccccccCCe-eeEecCCCCcccHHHHHHHHhcC-CCcCccCCC
Q 037626           49 EEICSICLMEFEKEDV-VSRLTRCCHLFHADCIERWLDCN-QFTCPVCRS   96 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~   96 (99)
                      ..+|+||++.+..+.. -...+.|||.|..+|++.|+.+. ...||.|..
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~   53 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG   53 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence            4579999999876543 33445899999999999999632 236999964

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

Probab=98.24  E-value=1e-06  Score=60.98  Aligned_cols=48  Identities=31%  Similarity=0.724  Sum_probs=39.5

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      ..+.+|.||+..+.++    +.++|||.||..|+.+-+.++. .||.||..++
T Consensus        82 ~sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~-~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQET-ECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCC-CCcccccccc
Confidence            5566899999998888    5558999999999999777444 8999998763

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

Probab=98.23  E-value=9.9e-07  Score=45.26  Aligned_cols=45  Identities=29%  Similarity=0.641  Sum_probs=28.5

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-CCCcCcc
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-NQFTCPV   93 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-~~~~CP~   93 (99)
                      ...+..|||.+..+.+|  + +...|||+|-++.|.+|+++ +...||+
T Consensus         8 ~~~~~~CPiT~~~~~~P--V-~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDP--V-KSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSE--E-EESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhCC--c-CcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            34456799999999877  2 33379999999999999943 3446998

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

Probab=98.21  E-value=8.1e-07  Score=61.53  Aligned_cols=48  Identities=31%  Similarity=0.652  Sum_probs=40.4

Q ss_pred             CcccccccccccccccCCeeeEe-cCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRL-TRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .+++..|++|...+.++    .. +.|||.||..|+..|+.. +..||.||+.+
T Consensus        18 ~~~~l~C~~C~~vl~~p----~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~   66 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDP----VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQEL   66 (391)
T ss_pred             CcccccCccccccccCC----CCCCCCCCcccccccchhhcc-CcCCccccccc
Confidence            56677899999999888    33 379999999999999996 44899998754

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

Probab=98.19  E-value=3.1e-07  Score=67.42  Aligned_cols=46  Identities=35%  Similarity=0.730  Sum_probs=32.9

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .|++|+..+.+....... .|+|.||..|+..|-+..+ +||+||..|
T Consensus       125 ~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aq-TCPiDR~EF  170 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQ-TCPVDRGEF  170 (1134)
T ss_pred             hhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcc-cCchhhhhh
Confidence            355555555443322233 6999999999999998666 999999865

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=98.09  E-value=4e-06  Score=51.01  Aligned_cols=49  Identities=24%  Similarity=0.758  Sum_probs=34.4

Q ss_pred             CcccccccccccccccCCeeeEec-CCCC---cccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLT-RCCH---LFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H---~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      +..+..|-||.++-.+.    ..| .|..   ..|.+|+++|+..+ ..+||+|++++
T Consensus         5 s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y   58 (162)
T PHA02825          5 SLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY   58 (162)
T ss_pred             CCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence            45566899999885422    223 3444   46999999999864 34699998864

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

Probab=98.03  E-value=1.2e-06  Score=60.12  Aligned_cols=49  Identities=31%  Similarity=0.762  Sum_probs=37.2

Q ss_pred             cccccccccccccccCC-eeeEecCCCCcccHHHHHHHHhcC-CCcCccCCC
Q 037626           47 KVEEICSICLMEFEKED-VVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~   96 (99)
                      +.+..|..|-+.+...+ .+..+ +|.|+||..|+.+.++++ ..+||.||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqAL-pCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQAL-PCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCccccccc-chhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            34557999999986544 44344 699999999999998753 347999983

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

Probab=98.01  E-value=2.1e-06  Score=59.12  Aligned_cols=44  Identities=34%  Similarity=0.899  Sum_probs=33.0

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      -|-||-|.-++   + +.-+|||..|..|+..|-... ..+||.||..+
T Consensus       371 LCKICaendKd---v-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  371 LCKICAENDKD---V-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHhhccCCC---c-ccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            49999887332   3 444699999999999997543 33899999754

>PHA02862 5L protein; Provisional

Probab=98.00  E-value=5.3e-06  Score=49.68  Aligned_cols=45  Identities=22%  Similarity=0.734  Sum_probs=32.7

Q ss_pred             cccccccccccccCCeeeEecCCC-----CcccHHHHHHHHhcCC-CcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDCNQ-FTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~~~-~~CP~CR~~~   98 (99)
                      ++.|-||.++-+++    .- ||.     ...|++|+.+|++.++ ..||+|+.++
T Consensus         2 ~diCWIC~~~~~e~----~~-PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY   52 (156)
T PHA02862          2 SDICWICNDVCDER----NN-FCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY   52 (156)
T ss_pred             CCEEEEecCcCCCC----cc-cccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence            45799999985433    22 353     4589999999997533 3699999864

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

Probab=97.89  E-value=4.2e-06  Score=52.69  Aligned_cols=41  Identities=32%  Similarity=0.724  Sum_probs=34.9

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .|.||-++|..+    +.+.|||.||..|...-.+... .|-+|.+
T Consensus       198 ~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~-~C~~Cgk  238 (259)
T COG5152         198 LCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGD-ECGVCGK  238 (259)
T ss_pred             eehhchhhccch----hhhhcchhHHHHHHHHHhccCC-cceecch
Confidence            699999999998    7778999999999888777444 8999865

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

Probab=97.87  E-value=5.2e-06  Score=55.21  Aligned_cols=50  Identities=32%  Similarity=0.714  Sum_probs=39.2

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc----------------------CCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC----------------------NQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~----------------------~~~~CP~CR~~~   98 (99)
                      ...+|.||+--|.+++...+. .|-|.||..|+.+++..                      -+..||+||..+
T Consensus       114 p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i  185 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI  185 (368)
T ss_pred             CCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence            345799999999988877555 59999999999888741                      123699999875

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

Probab=97.82  E-value=1.1e-05  Score=53.77  Aligned_cols=48  Identities=29%  Similarity=0.774  Sum_probs=38.9

Q ss_pred             ccccccccccccCC--eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           50 EICSICLMEFEKED--VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        50 ~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      ..|-||-++|...+  ...+.+.|||.+|..|+...+......||.||.+
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~   53 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRET   53 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence            46999999998763  3334557999999999999888666679999986

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

Probab=97.82  E-value=3e-06  Score=56.08  Aligned_cols=41  Identities=27%  Similarity=0.764  Sum_probs=32.2

Q ss_pred             cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +.-|.||++...+-    .+++|||. -|..|-.+.     ..||+||+.+
T Consensus       300 ~~LC~ICmDaP~DC----vfLeCGHmVtCt~CGkrm-----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDC----VFLECGHMVTCTKCGKRM-----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcce----EEeecCcEEeehhhcccc-----ccCchHHHHH
Confidence            66799999987766    66689995 799996543     3799999854

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

Probab=97.80  E-value=2.1e-05  Score=38.75  Aligned_cols=42  Identities=33%  Similarity=0.871  Sum_probs=26.3

Q ss_pred             ccccccccccCCeeeEec-CCC---CcccHHHHHHHHhc-CCCcCccC
Q 037626           52 CSICLMEFEKEDVVSRLT-RCC---HLFHADCIERWLDC-NQFTCPVC   94 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~-~C~---H~fh~~Ci~~w~~~-~~~~CP~C   94 (99)
                      |-||++.-.+++.+ +.| .|.   ...|.+|+.+|+.. ++.+|++|
T Consensus         1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            67999987666533 333 333   36899999999875 34479987

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.77  E-value=1.4e-05  Score=54.07  Aligned_cols=53  Identities=19%  Similarity=0.386  Sum_probs=38.9

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++++.|+.|+|+++..|+--.--+||-..|.-|+....+.-+..||-||+.+
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            34455699999999877654333379999999998776554345899999753

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

Probab=97.76  E-value=1.7e-05  Score=62.18  Aligned_cols=55  Identities=29%  Similarity=0.755  Sum_probs=40.4

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC---------CCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN---------QFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~---------~~~CP~CR~~~   98 (99)
                      +...+.|+.|.||+.+--..-..+.+ .|+|.||..|.++.++.+         -.+||+|+.++
T Consensus      3480 ~tkQD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3480 ATKQDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             hhhcccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            34455677899999876555555455 699999999998877641         13799998865

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

Probab=97.74  E-value=3e-05  Score=49.83  Aligned_cols=51  Identities=27%  Similarity=0.708  Sum_probs=40.0

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-------CCCcCccCCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-------NQFTCPVCRSFFL   99 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-------~~~~CP~CR~~~~   99 (99)
                      +.+..|..|-..+..+|.+ ++. |=|.||.+|+.+|...       ...+||-|..+++
T Consensus        48 DY~pNC~LC~t~La~gdt~-RLv-CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF  105 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTT-RLV-CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF  105 (299)
T ss_pred             CCCCCCceeCCccccCcce-eeh-hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence            3344599999999988887 453 9999999999999753       1237999988775

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

Probab=97.74  E-value=8.4e-06  Score=54.01  Aligned_cols=42  Identities=29%  Similarity=0.573  Sum_probs=36.3

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      .|-||...|..+    +.+.|+|.||..|...-++.+. .|++|.+.
T Consensus       243 ~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~-~c~vC~~~  284 (313)
T KOG1813|consen  243 KCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGE-KCYVCSQQ  284 (313)
T ss_pred             cccccccccccc----hhhcCCceeehhhhccccccCC-cceecccc
Confidence            599999999998    7778999999999988777555 89999764

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

Probab=97.74  E-value=1.3e-05  Score=47.53  Aligned_cols=36  Identities=33%  Similarity=0.648  Sum_probs=28.7

Q ss_pred             cccccccccccccCCeeeEecCCC------CcccHHHHHHHHh
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCC------HLFHADCIERWLD   85 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~------H~fh~~Ci~~w~~   85 (99)
                      ..+|.||++.+.+.+.++.++ ||      |.||.+|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence            346999999999855565665 65      8899999999943

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.

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

Probab=97.74  E-value=3.6e-05  Score=51.42  Aligned_cols=44  Identities=27%  Similarity=0.618  Sum_probs=35.8

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      ..|+.|..-+.++-   +.+.|+|.||.+||..-+......||.|.+
T Consensus       275 LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCccc
Confidence            67999999887773   234799999999999987766778999943

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

Probab=97.71  E-value=1.8e-05  Score=56.44  Aligned_cols=52  Identities=31%  Similarity=0.606  Sum_probs=40.0

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc----CCCcCccCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC----NQFTCPVCRSF   97 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~----~~~~CP~CR~~   97 (99)
                      ...+..++.+|.+|.++-++.    ....|.|.||+-|+.++...    .+.+||.|...
T Consensus       529 ~~~enk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~  584 (791)
T KOG1002|consen  529 LPDENKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIG  584 (791)
T ss_pred             CCccccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence            344555667899999997766    55679999999999888753    44589999653

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

Probab=97.69  E-value=7.8e-06  Score=54.85  Aligned_cols=46  Identities=26%  Similarity=0.649  Sum_probs=37.2

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      ...+|.+|-.-+.++..   .+.|-|+||.+||-..++... .||.|...
T Consensus        14 ~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~-~CP~C~i~   59 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESK-YCPTCDIV   59 (331)
T ss_pred             cceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhc-cCCcccee
Confidence            34579999999887733   337999999999999999755 89999753

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

Probab=97.68  E-value=2.7e-05  Score=52.91  Aligned_cols=46  Identities=26%  Similarity=0.560  Sum_probs=31.0

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +....+.|.||+++..+.    ...+|||.-|  |..--..  ..+||+||+.+
T Consensus       301 ~~~~p~lcVVcl~e~~~~----~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI  346 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSA----VFVPCGHVCC--CTLCSKH--LPQCPVCRQRI  346 (355)
T ss_pred             ccCCCCceEEecCCccce----eeecCCcEEE--chHHHhh--CCCCchhHHHH
Confidence            334455799999997775    4457999855  4433222  23699999864

>PHA03096 p28-like protein; Provisional

Probab=97.68  E-value=2.3e-05  Score=52.23  Aligned_cols=47  Identities=30%  Similarity=0.551  Sum_probs=34.3

Q ss_pred             ccccccccccccC----CeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCC
Q 037626           50 EICSICLMEFEKE----DVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~   96 (99)
                      ..|.||++.....    .....++.|.|.||..|++.|...+  ..+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            6799999987542    2344677999999999999998642  224666654

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

Probab=97.60  E-value=3.5e-05  Score=57.29  Aligned_cols=48  Identities=31%  Similarity=0.867  Sum_probs=38.2

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC------CcCccCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ------FTCPVCRS   96 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~------~~CP~CR~   96 (99)
                      ..+|.||.+.++....+-....|=|+||..||+.|.+...      -.||.|+.
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            4579999999988877665556789999999999986411      25999973

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

Probab=97.58  E-value=3.3e-05  Score=44.03  Aligned_cols=37  Identities=24%  Similarity=0.495  Sum_probs=27.4

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHH
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIE   81 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~   81 (99)
                      .....++..|++|...+.++ ..... ||||.||..|++
T Consensus        72 ~v~i~~~~~C~vC~k~l~~~-~f~~~-p~~~v~H~~C~~  108 (109)
T PF10367_consen   72 SVVITESTKCSVCGKPLGNS-VFVVF-PCGHVVHYSCIK  108 (109)
T ss_pred             eEEECCCCCccCcCCcCCCc-eEEEe-CCCeEEeccccc
Confidence            33445566799999999874 33344 699999999975

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

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

Probab=97.54  E-value=2.7e-05  Score=53.72  Aligned_cols=46  Identities=24%  Similarity=0.569  Sum_probs=33.8

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-------CCCcCccCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-------NQFTCPVCR   95 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-------~~~~CP~CR   95 (99)
                      -..|.||+++.........+ +|+|+||..|+..+...       +...||-+.
T Consensus       184 lf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             cccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            34699999997665555455 69999999999999752       233677653

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

Probab=97.53  E-value=7.3e-05  Score=51.00  Aligned_cols=47  Identities=21%  Similarity=0.497  Sum_probs=37.7

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .+++.|+||...-.+.    +..+|+|.-|..||.+.+-..+ .|=.|+..+
T Consensus       420 sEd~lCpICyA~pi~A----vf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv  466 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINA----VFAPCSHRSCYGCITQHLMNCK-RCFFCKTTV  466 (489)
T ss_pred             cccccCcceecccchh----hccCCCCchHHHHHHHHHhcCC-eeeEeccee
Confidence            5667899998875555    5557999999999999988555 899998764

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

Probab=97.43  E-value=0.00095  Score=45.13  Aligned_cols=43  Identities=28%  Similarity=0.542  Sum_probs=33.3

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      ....|++|+....++..+   .--|-+||..|+-+++. +...||+=
T Consensus       299 ~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~-~~~~CPVT  341 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVV-NYGHCPVT  341 (357)
T ss_pred             ccccChhHHhccCCCceE---EecceEEeHHHHHHHHH-hcCCCCcc
Confidence            345799999998887433   23589999999999998 44489973

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.42  E-value=0.00018  Score=46.85  Aligned_cols=49  Identities=16%  Similarity=0.329  Sum_probs=42.8

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...|++|.+.+.+......+-+|||+|+.+|.+..++... .||+|-.++
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~pv~d~pl  269 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDPVTDKPL  269 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-cccCCCCcC
Confidence            4569999999999988888889999999999999988555 899997653

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

Probab=97.40  E-value=6.7e-05  Score=48.51  Aligned_cols=43  Identities=28%  Similarity=0.617  Sum_probs=30.2

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .|.-|...-. ++.. .++.|+|+||..|...-..   ..||+||+++
T Consensus         5 hCn~C~~~~~-~~~f-~LTaC~HvfC~~C~k~~~~---~~C~lCkk~i   47 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPF-FLTACRHVFCEPCLKASSP---DVCPLCKKSI   47 (233)
T ss_pred             EeccccccCC-CCce-eeeechhhhhhhhcccCCc---ccccccccee
Confidence            3676766544 4455 5668999999999775322   2899999864

>PF04641 Rtf2: Rtf2 RING-finger

Probab=97.39  E-value=0.0003  Score=46.44  Aligned_cols=50  Identities=24%  Similarity=0.475  Sum_probs=40.2

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .....|||...++........+.+|||+|...++.+.-  ....||+|-.++
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f  160 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPF  160 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCcc
Confidence            44457999999997766777777899999999999973  233799998765

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

Probab=97.36  E-value=0.00012  Score=48.60  Aligned_cols=45  Identities=27%  Similarity=0.634  Sum_probs=38.2

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .||||.+.+..........+|||.-|..|.+.....+ .+||+|..
T Consensus       160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            4999999987776665666899999999999998866 79999976

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

Probab=97.34  E-value=0.00012  Score=49.18  Aligned_cols=40  Identities=25%  Similarity=0.636  Sum_probs=32.1

Q ss_pred             ccccccccccccCCeeeEecCC--CCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRC--CHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C--~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .+||||.+.+..+    +. +|  ||.-|.+|-.+.   . ..||.||.++
T Consensus        49 leCPvC~~~l~~P----i~-QC~nGHlaCssC~~~~---~-~~CP~Cr~~~   90 (299)
T KOG3002|consen   49 LDCPVCFNPLSPP----IF-QCDNGHLACSSCRTKV---S-NKCPTCRLPI   90 (299)
T ss_pred             ccCchhhccCccc----ce-ecCCCcEehhhhhhhh---c-ccCCcccccc
Confidence            4799999999988    55 47  799999997642   2 3899999865

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

Probab=97.21  E-value=0.00034  Score=43.56  Aligned_cols=30  Identities=33%  Similarity=0.802  Sum_probs=24.1

Q ss_pred             cCCCCcccHHHHHHHHhc----CC------CcCccCCCCC
Q 037626           69 TRCCHLFHADCIERWLDC----NQ------FTCPVCRSFF   98 (99)
Q Consensus        69 ~~C~H~fh~~Ci~~w~~~----~~------~~CP~CR~~~   98 (99)
                      .+||..||.-|+..|++.    ++      ..||.|-.++
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi  227 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI  227 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence            479999999999999873    22      2699998765

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

Probab=97.16  E-value=0.00048  Score=47.04  Aligned_cols=48  Identities=25%  Similarity=0.431  Sum_probs=33.5

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh-cCCCcCccCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-CNQFTCPVCRSF   97 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~-~~~~~CP~CR~~   97 (99)
                      ++++..|.||-+.+.-.    .+.||+|..|..|.-+... -.+..||+||..
T Consensus        58 DEen~~C~ICA~~~TYs----~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          58 DEENMNCQICAGSTTYS----ARYPCGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccceeEEecCCceEE----EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence            34445799998886543    4557999999999765321 133389999975

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.15  E-value=0.00021  Score=36.07  Aligned_cols=41  Identities=27%  Similarity=0.540  Sum_probs=27.7

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .|..|...-..+    .+.+|||..+..|...+-   -+.||.|.+++
T Consensus         9 ~~~~~~~~~~~~----~~~pCgH~I~~~~f~~~r---YngCPfC~~~~   49 (55)
T PF14447_consen    9 PCVFCGFVGTKG----TVLPCGHLICDNCFPGER---YNGCPFCGTPF   49 (55)
T ss_pred             eEEEcccccccc----ccccccceeeccccChhh---ccCCCCCCCcc
Confidence            455555442222    455799999999988652   24799998765

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=97.07  E-value=0.00081  Score=33.91  Aligned_cols=35  Identities=26%  Similarity=0.577  Sum_probs=30.4

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~   82 (99)
                      ....|++|-+.+.+.+.+.+.+.||-.+|++|...
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            34569999999998888888999999999999765

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

Probab=97.05  E-value=0.00071  Score=41.31  Aligned_cols=34  Identities=21%  Similarity=0.563  Sum_probs=23.3

Q ss_pred             ccccccccccccccCCeeeEecCC------------CC-cccHHHHHHHHh
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRC------------CH-LFHADCIERWLD   85 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C------------~H-~fh~~Ci~~w~~   85 (99)
                      ++..|+||||..-+.    +|+-|            +- .-|..|+++..+
T Consensus         1 ed~~CpICme~PHNA----VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNA----VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCce----EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            356799999987665    33333            32 357899999864

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.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.01  E-value=0.0003  Score=46.07  Aligned_cols=55  Identities=27%  Similarity=0.798  Sum_probs=35.9

Q ss_pred             CCCcccccccccccccccCCeeeEecCC-----CCcccHHHHHHHHhcCC-------CcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRC-----CHLFHADCIERWLDCNQ-------FTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C-----~H~fh~~Ci~~w~~~~~-------~~CP~CR~~~   98 (99)
                      ++.+.+..|=||+..=++.....-.-||     .|-.|.+|+.+|..+++       .+||.|++.+
T Consensus        15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            3445566799999874433211112245     27799999999996532       2699998865

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

Probab=96.95  E-value=0.00061  Score=51.02  Aligned_cols=42  Identities=29%  Similarity=0.689  Sum_probs=32.5

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      ....|..|-..++-|  .+.. .|||.||..|+.   + +...||-|+.
T Consensus       839 q~skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~-~~~~CP~C~~  880 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---D-KEDKCPKCLP  880 (933)
T ss_pred             eeeeecccCCccccc--eeee-ecccHHHHHhhc---c-CcccCCccch
Confidence            346799999998877  2233 599999999998   2 5558999985

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

Probab=96.91  E-value=5.4e-05  Score=52.05  Aligned_cols=53  Identities=26%  Similarity=0.631  Sum_probs=40.3

Q ss_pred             CCCcccccccccccccccC-CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKE-DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ........|+||.+.++.. ++...+ .|||..|.+|++.|+.... .||.||+.+
T Consensus       191 ~~~slv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~-kl~~~~rel  244 (465)
T KOG0827|consen  191 PTSSLVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKR-KLPSCRREL  244 (465)
T ss_pred             chHHHHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHH-HhHHHHhhh
Confidence            3334456799999998765 444344 4999999999999998644 899998764

>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=96.79  E-value=0.0014  Score=43.60  Aligned_cols=47  Identities=21%  Similarity=0.627  Sum_probs=36.2

Q ss_pred             cccccccc-cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           51 ICSICLME-FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        51 ~C~IC~~~-~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      .|++|-.+ +.+++.....-+|+|..|.+|.+..+..+...||-|-..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~i   49 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVI   49 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccch
Confidence            48899875 445554333337999999999999998888899999654

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

Probab=96.61  E-value=0.00069  Score=50.14  Aligned_cols=43  Identities=30%  Similarity=0.794  Sum_probs=32.6

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCC-cCccCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQF-TCPVCRSF   97 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~-~CP~CR~~   97 (99)
                      ..|.||.+ .+..    ....|||.||.+|+..-++.... .||.||..
T Consensus       455 ~~c~ic~~-~~~~----~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~  498 (674)
T KOG1001|consen  455 HWCHICCD-LDSF----FITRCGHDFCVECLKKSIQQSENAPCPLCRNV  498 (674)
T ss_pred             cccccccc-cccc----eeecccchHHHHHHHhccccccCCCCcHHHHH
Confidence            68999999 3322    34469999999999998775433 59999864

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

Probab=96.59  E-value=0.014  Score=40.58  Aligned_cols=45  Identities=27%  Similarity=0.583  Sum_probs=36.8

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC--CcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ--FTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~--~~CP~CR~   96 (99)
                      .|||=.+.-.+.++...+. |||+...+-+.+..+.+.  ..||.|-.
T Consensus       336 ~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  336 ICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             ecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            6999888877767665664 999999999999988655  67999954

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

Probab=96.50  E-value=0.0099  Score=41.03  Aligned_cols=27  Identities=26%  Similarity=0.944  Sum_probs=20.6

Q ss_pred             CCcccHHHHHHHHhc------------CCCcCccCCCCC
Q 037626           72 CHLFHADCIERWLDC------------NQFTCPVCRSFF   98 (99)
Q Consensus        72 ~H~fh~~Ci~~w~~~------------~~~~CP~CR~~~   98 (99)
                      .-.+|.+|+.+|+-.            ++.+||+||+.+
T Consensus       312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F  350 (358)
T PF10272_consen  312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF  350 (358)
T ss_pred             cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence            356789999999853            234799999975

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

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=96.48  E-value=0.0019  Score=31.09  Aligned_cols=42  Identities=24%  Similarity=0.624  Sum_probs=21.7

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCC-cCccC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQF-TCPVC   94 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~-~CP~C   94 (99)
                      |.+|.+....+..-. ...|+=.+|..|++.+++.++. .||.|
T Consensus         1 C~~C~~iv~~G~~C~-~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCS-NRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-S-S--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCC-CCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            566777665552221 1158889999999999885443 59987

; PDB: 3NW0_A 2CT0_A.

>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=96.37  E-value=0.0014  Score=42.74  Aligned_cols=47  Identities=21%  Similarity=0.596  Sum_probs=36.1

Q ss_pred             cccccccccccc-ccCCe-eeEecCCCCcccHHHHHHHHhcCCCcCc--cC
Q 037626           48 VEEICSICLMEF-EKEDV-VSRLTRCCHLFHADCIERWLDCNQFTCP--VC   94 (99)
Q Consensus        48 ~~~~C~IC~~~~-~~~~~-~~~l~~C~H~fh~~Ci~~w~~~~~~~CP--~C   94 (99)
                      .+..||||..+. -+|+. +.+-|.|=|..|.+|.++-+..+...||  -|
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC   59 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGC   59 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccH
Confidence            345799999864 44543 3344569999999999999988888999  56

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

Probab=96.37  E-value=0.001  Score=40.86  Aligned_cols=29  Identities=34%  Similarity=0.802  Sum_probs=24.9

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccH
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHA   77 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~   77 (99)
                      ...+|.||+|++..++.+.++| |--+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            3458999999999999998886 9888885

>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=96.37  E-value=0.001  Score=32.56  Aligned_cols=29  Identities=24%  Similarity=0.754  Sum_probs=20.6

Q ss_pred             CCC-CcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           70 RCC-HLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        70 ~C~-H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      .|+ |..|..|+...+..+. .||+|..+++
T Consensus        17 ~C~dHYLCl~CLt~ml~~s~-~C~iC~~~LP   46 (50)
T PF03854_consen   17 KCSDHYLCLNCLTLMLSRSD-RCPICGKPLP   46 (50)
T ss_dssp             E-SS-EEEHHHHHHT-SSSS-EETTTTEE--
T ss_pred             eecchhHHHHHHHHHhcccc-CCCcccCcCc
Confidence            586 8999999999988555 8999988763

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

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

Probab=96.30  E-value=0.002  Score=44.90  Aligned_cols=37  Identities=35%  Similarity=0.831  Sum_probs=27.6

Q ss_pred             cccccccc-cccccCCeeeEecCCCCcccHHHHHHHHhc
Q 037626           49 EEICSICL-MEFEKEDVVSRLTRCCHLFHADCIERWLDC   86 (99)
Q Consensus        49 ~~~C~IC~-~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~   86 (99)
                      ..+|.||. +.....+... ...|+|.||.+|..+.++.
T Consensus       146 ~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             cccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhh
Confidence            45799999 4444444444 4479999999999998873

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

Probab=96.03  E-value=0.0024  Score=40.90  Aligned_cols=37  Identities=38%  Similarity=0.729  Sum_probs=26.3

Q ss_pred             ccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      |-.|.+.    .....+.||.|. +|..|-.. +    ..||+|+.+
T Consensus       161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~-~----~~CPiC~~~  198 (207)
T KOG1100|consen  161 CRKCGER----EATVLLLPCRHLCLCGICDES-L----RICPICRSP  198 (207)
T ss_pred             ceecCcC----CceEEeecccceEeccccccc-C----ccCCCCcCh
Confidence            8888776    222355579996 89999765 2    279999875

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

Probab=95.95  E-value=0.055  Score=32.31  Aligned_cols=51  Identities=22%  Similarity=0.386  Sum_probs=36.0

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~~   98 (99)
                      .-.+|.||.|.-.+..-+.----||-..|..|-...++.  -...||.|+.++
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF  131 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF  131 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence            556899999986554333222258999999998876653  235799999865

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

Probab=95.82  E-value=0.0049  Score=46.57  Aligned_cols=37  Identities=24%  Similarity=0.522  Sum_probs=27.5

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHH
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL   84 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~   84 (99)
                      .+.++.|.+|..++..... .+. +|||.||.+|+.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~~pF-~vf-~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPF-YVF-PCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcCcc-eee-eccchHHHHHHHHHH
Confidence            3556789999998865422 233 699999999997754

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

Probab=95.80  E-value=0.0033  Score=46.14  Aligned_cols=42  Identities=24%  Similarity=0.624  Sum_probs=32.3

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      ..|.||+..|......-+.+.|||+.|..|++.-..   .+|| |+
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp-~~   53 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP-TK   53 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC-CC
Confidence            469999998877655545668999999999998654   2788 43

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

Probab=95.47  E-value=0.03  Score=30.29  Aligned_cols=51  Identities=22%  Similarity=0.472  Sum_probs=22.8

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|-||-+++.   +++..+..-.|+--.|+.|.+-=.+..+..||.|++++
T Consensus         8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y   61 (80)
T PF14569_consen    8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY   61 (80)
T ss_dssp             SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred             CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence            4457999999874   34444444467778899999876665555899998764

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.23  E-value=0.012  Score=39.58  Aligned_cols=28  Identities=29%  Similarity=0.740  Sum_probs=21.5

Q ss_pred             CCCcccHHHHHHHHhc------------CCCcCccCCCCC
Q 037626           71 CCHLFHADCIERWLDC------------NQFTCPVCRSFF   98 (99)
Q Consensus        71 C~H~fh~~Ci~~w~~~------------~~~~CP~CR~~~   98 (99)
                      |...+|.+|+.+|+..            ++.+||+||+.+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f  364 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF  364 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence            4567899999999742            345899999865

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

Probab=95.06  E-value=0.017  Score=43.41  Aligned_cols=25  Identities=28%  Similarity=0.848  Sum_probs=21.3

Q ss_pred             ecCCCCcccHHHHHHHHhcCCCcCcc
Q 037626           68 LTRCCHLFHADCIERWLDCNQFTCPV   93 (99)
Q Consensus        68 l~~C~H~fh~~Ci~~w~~~~~~~CP~   93 (99)
                      ...|+|.-|.+|...|++.+. .||.
T Consensus      1045 Cg~C~Hv~H~sc~~eWf~~gd-~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGD-VCPS 1069 (1081)
T ss_pred             hccccccccHHHHHHHHhcCC-cCCC
Confidence            346999999999999999666 8885

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

Probab=94.99  E-value=0.0085  Score=47.02  Aligned_cols=42  Identities=33%  Similarity=0.778  Sum_probs=34.3

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .|.||++.+.+-..  +. .|||.+|..|...|+..+. .||.|+.
T Consensus      1155 ~c~ic~dil~~~~~--I~-~cgh~~c~~c~~~~l~~~s-~~~~~ks 1196 (1394)
T KOG0298|consen 1155 VCEICLDILRNQGG--IA-GCGHEPCCRCDELWLYASS-RCPICKS 1196 (1394)
T ss_pred             chHHHHHHHHhcCC--ee-eechhHhhhHHHHHHHHhc-cCcchhh
Confidence            69999999885433  22 5999999999999999555 8999964

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

Probab=94.92  E-value=0.021  Score=38.22  Aligned_cols=49  Identities=33%  Similarity=0.847  Sum_probs=32.9

Q ss_pred             cccccccccccccCCeeeEecCCC-----CcccHHHHHHHHhc-CCCcCccCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDC-NQFTCPVCRSF   97 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~-~~~~CP~CR~~   97 (99)
                      +..|-||.++...........+|.     +..|..|++.|... +...|.+|...
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~  132 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF  132 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence            357999999866443211222453     56799999999874 34479999764

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

Probab=94.88  E-value=0.03  Score=42.46  Aligned_cols=51  Identities=24%  Similarity=0.748  Sum_probs=35.3

Q ss_pred             cccccccccccccccCCeeeEec-CCC---CcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLT-RCC---HLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~-~C~---H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      +++..|-||..+-..++++ --| +|.   ...|++|+-+|+..+ ...|-+|+.++
T Consensus        10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~   65 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY   65 (1175)
T ss_pred             ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence            4446899999986666554 222 343   347999999999853 33599998753

>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=94.37  E-value=0.089  Score=26.05  Aligned_cols=44  Identities=27%  Similarity=0.597  Sum_probs=18.6

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHH----hcCCCcCccCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL----DCNQFTCPVCRSF   97 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~----~~~~~~CP~CR~~   97 (99)
                      ..|+|-...+..+  + +-..|.|.-|.+ ++.|+    +.+.-.||+|.++
T Consensus         3 L~CPls~~~i~~P--~-Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP--V-RGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE--E-EETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC--c-cCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            3588888887765  2 333799984422 33343    3344579999874

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.

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

Probab=94.28  E-value=0.024  Score=40.18  Aligned_cols=35  Identities=20%  Similarity=0.427  Sum_probs=29.1

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD   85 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~   85 (99)
                      +++..|+||..-|.++    +.++|+|..|..|.+.-+.
T Consensus         2 eeelkc~vc~~f~~ep----iil~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREP----IILPCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccCc----eEeecccHHHHHHHHhhcc
Confidence            3566799999999888    5556999999999987665

>smart00249 PHD PHD zinc finger

Probab=94.17  E-value=0.017  Score=27.35  Aligned_cols=31  Identities=19%  Similarity=0.440  Sum_probs=21.5

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      |.+|.... +++.....-.|+..||..|+..-
T Consensus         2 C~~C~~~~-~~~~~i~C~~C~~~~H~~C~~~~   32 (47)
T smart00249        2 CSVCGKPD-DGGELLQCDGCDRWYHQTCLGPP   32 (47)
T ss_pred             cccCCCcC-CCCCEEECCCCCchhhhhhCCCc
Confidence            77887776 33334344479999999998653

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

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

Probab=94.04  E-value=0.029  Score=38.06  Aligned_cols=43  Identities=26%  Similarity=0.730  Sum_probs=27.9

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|--|--++..-   .++.+|.|+||.+|.+.  ...+ .||.|-..+
T Consensus        91 HfCd~Cd~PI~IY---GRmIPCkHvFCl~CAr~--~~dK-~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIAIY---GRMIPCKHVFCLECARS--DSDK-ICPLCDDRV  133 (389)
T ss_pred             EeecccCCcceee---ecccccchhhhhhhhhc--Cccc-cCcCcccHH
Confidence            3576665554322   24447999999999875  2223 799996543

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

Probab=93.51  E-value=0.082  Score=26.38  Aligned_cols=43  Identities=26%  Similarity=0.514  Sum_probs=20.9

Q ss_pred             ccccccccccCC------eeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           52 CSICLMEFEKED------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        52 C~IC~~~~~~~~------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      |--|+.++..+.      ..-..+.|++.||.+|=.- +...--+||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f-iHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVF-IHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHT-TTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChh-hhccccCCcCCC
Confidence            445666665541      3345678999999999432 222223799884

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

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.94  E-value=0.19  Score=33.30  Aligned_cols=46  Identities=20%  Similarity=0.424  Sum_probs=36.6

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+|=.-+|........+.+|||+|-..-+.+.-   ..+|++|.+.+
T Consensus       112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y  157 (293)
T KOG3113|consen  112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAY  157 (293)
T ss_pred             eecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcc
Confidence            36999888888777776777899999998888753   34899998754

>PLN02189 cellulose synthase

Probab=92.93  E-value=0.15  Score=39.76  Aligned_cols=51  Identities=22%  Similarity=0.457  Sum_probs=36.8

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|.||-+++.   +++..+....|+--.|..|.+-=.+.++..||.|++.+
T Consensus        33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y   86 (1040)
T PLN02189         33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY   86 (1040)
T ss_pred             cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence            3457999999975   34455555578888999999654444555899998764

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

Probab=92.78  E-value=0.058  Score=28.23  Aligned_cols=38  Identities=16%  Similarity=0.330  Sum_probs=20.2

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHH
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL   84 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~   84 (99)
                      .+...|.+|..+|..-..-.....||+.||.+|.....
T Consensus         7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~   44 (69)
T PF01363_consen    7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI   44 (69)
T ss_dssp             GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred             CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence            34567999999997654444555799999999986543

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....

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

Probab=92.65  E-value=0.087  Score=40.00  Aligned_cols=50  Identities=10%  Similarity=0.157  Sum_probs=33.5

Q ss_pred             cccccccccccccccCCe-eeEe--cCCCCcccHHHHHHHHhc-----CCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDV-VSRL--TRCCHLFHADCIERWLDC-----NQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~-~~~l--~~C~H~fh~~Ci~~w~~~-----~~~~CP~CR~   96 (99)
                      .....|.+|.-++.+++. ...+  -.|+|.||..||..|..+     ..-.|++|..
T Consensus        94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~  151 (1134)
T KOG0825|consen   94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE  151 (1134)
T ss_pred             ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence            334568888887776332 2222  259999999999999874     2225788864

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

Probab=92.55  E-value=0.03  Score=41.60  Aligned_cols=45  Identities=27%  Similarity=0.671  Sum_probs=35.0

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSF   97 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~   97 (99)
                      ..+|+||...+..+    .++.|.|.|+..|+..-+..  ....||+|+..
T Consensus        21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~   67 (684)
T KOG4362|consen   21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD   67 (684)
T ss_pred             hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence            45699999999888    66689999999998775442  23379999854

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

Probab=92.55  E-value=0.077  Score=37.72  Aligned_cols=38  Identities=24%  Similarity=0.526  Sum_probs=29.6

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC   86 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~   86 (99)
                      ...+.+|.||.+.+..  .. ..+.|||.||..|+...+.+
T Consensus        67 ~~~~~~c~ic~~~~~~--~~-~~~~c~H~~c~~cw~~yl~~  104 (444)
T KOG1815|consen   67 KKGDVQCGICVESYDG--EI-IGLGCGHPFCPPCWTGYLGT  104 (444)
T ss_pred             CCccccCCcccCCCcc--hh-hhcCCCcHHHHHHHHHHhhh
Confidence            3445689999999875  22 34479999999999999874

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

Probab=92.12  E-value=0.077  Score=22.69  Aligned_cols=23  Identities=22%  Similarity=0.379  Sum_probs=13.2

Q ss_pred             cccccccccccCCeeeEecCCCCcc
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLF   75 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~f   75 (99)
                      .||-|...+...  ....+.|||.|
T Consensus         2 ~CP~C~~~V~~~--~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPES--AKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchhh--cCcCCCCCCCC
Confidence            467776665332  22455677776

Several members are annotated as putative helicases.

>PLN02436 cellulose synthase A

Probab=92.01  E-value=0.31  Score=38.28  Aligned_cols=51  Identities=22%  Similarity=0.458  Sum_probs=36.8

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|.||-+++.   +++..+..-.|+--.|..|.+-=.+.++..||.|++.+
T Consensus        35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y   88 (1094)
T PLN02436         35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY   88 (1094)
T ss_pred             CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence            3457999999973   45555555568888999999654444555899998764

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=91.48  E-value=0.1  Score=33.37  Aligned_cols=39  Identities=36%  Similarity=0.917  Sum_probs=27.4

Q ss_pred             ccccccccc-----cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           50 EICSICLME-----FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        50 ~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      ..|-+|.++     |+. +.+.....|+-.||..|..+      ..||-|.
T Consensus       153 fiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~------~~CpkC~  196 (202)
T PF13901_consen  153 FICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK------KSCPKCA  196 (202)
T ss_pred             CCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC------CCCCCcH
Confidence            357777753     122 34557778999999999873      2799994

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

Probab=91.42  E-value=0.0087  Score=31.79  Aligned_cols=39  Identities=23%  Similarity=0.549  Sum_probs=19.0

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..||.|..++....        +|..|..|-.....  ...||-|.+++
T Consensus         2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~--~a~CPdC~~~L   40 (70)
T PF07191_consen    2 NTCPKCQQELEWQG--------GHYHCEACQKDYKK--EAFCPDCGQPL   40 (70)
T ss_dssp             -B-SSS-SBEEEET--------TEEEETTT--EEEE--EEE-TTT-SB-
T ss_pred             CcCCCCCCccEEeC--------CEEECcccccccee--cccCCCcccHH
Confidence            46888888865542        56666666655332  23688887653

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

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

Probab=91.24  E-value=0.35  Score=24.52  Aligned_cols=44  Identities=27%  Similarity=0.627  Sum_probs=30.0

Q ss_pred             cccccccccccCCeeeEecCCC--CcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCC--HLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~--H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      .|-.|-.++..+......  |+  .+||.+|.+..+.   ..||.|...++
T Consensus         7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l~---~~CPNCgGelv   52 (57)
T PF06906_consen    7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETMLN---GVCPNCGGELV   52 (57)
T ss_pred             CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHhc---CcCcCCCCccc
Confidence            477777777655422222  65  4799999999874   37999976553

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

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=90.43  E-value=0.16  Score=23.45  Aligned_cols=26  Identities=31%  Similarity=0.685  Sum_probs=15.8

Q ss_pred             cccccccccccCCe-------eeEecCCCCccc
Q 037626           51 ICSICLMEFEKEDV-------VSRLTRCCHLFH   76 (99)
Q Consensus        51 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh   76 (99)
                      .||-|...|..++.       ..+.+.|+|.|.
T Consensus         4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~   36 (37)
T PF13719_consen    4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR   36 (37)
T ss_pred             ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence            57777777765432       234556777764

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

Probab=90.32  E-value=0.079  Score=38.86  Aligned_cols=40  Identities=35%  Similarity=0.876  Sum_probs=26.8

Q ss_pred             ccccccccc-----cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           50 EICSICLME-----FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        50 ~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      ..|.+|..+     |. .+.++....|++.||..|+.+    ++..||.|
T Consensus       512 fiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r----~s~~CPrC  556 (580)
T KOG1829|consen  512 FICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR----KSPCCPRC  556 (580)
T ss_pred             eeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc----cCCCCCch
Confidence            357777432     11 234456667999999999876    44359999

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=90.03  E-value=0.24  Score=33.90  Aligned_cols=47  Identities=26%  Similarity=0.514  Sum_probs=35.0

Q ss_pred             ccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+||.++....+.. .+| +||+..|..|...-.. +..+||.||.+.
T Consensus       250 ~s~p~~~~~~~~~d~~-~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~  297 (327)
T KOG2068|consen  250 PSCPICYEDLDLTDSN-FLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPY  297 (327)
T ss_pred             CCCCCCCCcccccccc-cccccccccchhhhhhcccc-cCCCCCccCCcc
Confidence            5799999988655544 333 6898888888877666 556899999764

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

Probab=90.03  E-value=0.16  Score=38.41  Aligned_cols=43  Identities=28%  Similarity=0.417  Sum_probs=29.8

Q ss_pred             CCCcccccccccccccccCC----eeeEecCCCCcccHHHHHHHHhcC
Q 037626           44 EDSKVEEICSICLMEFEKED----VVSRLTRCCHLFHADCIERWLDCN   87 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w~~~~   87 (99)
                      .....+..|.-|.++..+..    .+.+. .|||.||..|+..-..++
T Consensus       779 v~v~~e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~  825 (846)
T KOG2066|consen  779 VLVSVEERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRN  825 (846)
T ss_pred             eeEeehhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhc
Confidence            33444557999999876433    33344 699999999998766533

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

Probab=89.95  E-value=0.16  Score=35.57  Aligned_cols=43  Identities=23%  Similarity=0.398  Sum_probs=29.5

Q ss_pred             cccccccccccccCC--eeeEecCCCCcccHHHHHHHHhcCCCcCcc
Q 037626           49 EEICSICLMEFEKED--VVSRLTRCCHLFHADCIERWLDCNQFTCPV   93 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~   93 (99)
                      -..|+.|.-.+.-.+  ...+.. |||.||..|...|...+. .|..
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~-~~~~  350 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNG-ECYE  350 (384)
T ss_pred             cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCc-cccC
Confidence            346999988765433  223444 999999999999987444 4533

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

Probab=89.85  E-value=0.3  Score=25.36  Aligned_cols=37  Identities=19%  Similarity=0.353  Sum_probs=27.3

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD   85 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~   85 (99)
                      ...|..|...|..-..-.....||++||..|......
T Consensus        10 ~~~C~~C~~~F~~~~rk~hCr~CG~i~C~~C~~~~~~   46 (68)
T smart00064       10 VSNCMGCGKEFNLTKRRHHCRNCGRIFCSKCSSKKAP   46 (68)
T ss_pred             CCcCcccCccccCcccccccccCCCCcChHHcCCeee
Confidence            3569999998875433334457999999999887653

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

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

Probab=89.83  E-value=0.14  Score=25.05  Aligned_cols=44  Identities=20%  Similarity=0.615  Sum_probs=28.6

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHh-----cCCCcCccCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-----CNQFTCPVCR   95 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~-----~~~~~CP~CR   95 (99)
                      .|.||...- +++....--.|+..||..|+..-..     ...-.||.|+
T Consensus         1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~   49 (51)
T PF00628_consen    1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR   49 (51)
T ss_dssp             EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred             eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence            388998843 3334445557899999999865432     1244688875

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

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

Probab=89.80  E-value=0.043  Score=36.74  Aligned_cols=49  Identities=22%  Similarity=0.562  Sum_probs=36.5

Q ss_pred             ccccccccccccccC--CeeeEecC--------CCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           48 VEEICSICLMEFEKE--DVVSRLTR--------CCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~--~~~~~l~~--------C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .+..|.||...++..  ..+..+..        |||..|..|+..-+.+....||.||.
T Consensus       206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~  264 (296)
T KOG4185|consen  206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW  264 (296)
T ss_pred             HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence            446799999999832  22223334        99999999999987755468999986

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

Probab=89.71  E-value=0.78  Score=36.18  Aligned_cols=51  Identities=18%  Similarity=0.406  Sum_probs=35.7

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|-||-+++.   +++..+..-.|+--.|+.|.+-=.+.++..||.|++.+
T Consensus        16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY   69 (1079)
T PLN02638         16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY   69 (1079)
T ss_pred             CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence            3457999999974   34455555578888999999543333444899998754

>TIGR00622 ssl1 transcription factor ssl1

Probab=89.58  E-value=0.49  Score=27.53  Aligned_cols=47  Identities=23%  Similarity=0.390  Sum_probs=32.5

Q ss_pred             cccccccccccccCC----------eeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           49 EEICSICLMEFEKED----------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      +..|--|+.+|....          ..-..+.|++.||.+|-.-+-+.=+ +||-|..
T Consensus        55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh-~CPGC~~  111 (112)
T TIGR00622        55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLH-CCPGCIH  111 (112)
T ss_pred             CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhcc-CCcCCCC
Confidence            346999999886431          1123568999999999666655333 7999964

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

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

Probab=89.47  E-value=0.23  Score=31.98  Aligned_cols=44  Identities=25%  Similarity=0.584  Sum_probs=33.7

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      .-..|.+|.+-.-.+   +....||-.+|..|+...+++ ...||.|.
T Consensus       180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~-~~~cphc~  223 (235)
T KOG4718|consen  180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQR-RDICPHCG  223 (235)
T ss_pred             HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcc-cCcCCchh
Confidence            345799999876554   244468888999999999985 55899993

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

Probab=89.44  E-value=0.65  Score=26.66  Aligned_cols=49  Identities=18%  Similarity=0.474  Sum_probs=28.5

Q ss_pred             ccccccccccccccCCee----eEecCC---CCcccHHHHHHHHhc--------CCCcCccCCC
Q 037626           48 VEEICSICLMEFEKEDVV----SRLTRC---CHLFHADCIERWLDC--------NQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~----~~l~~C---~H~fh~~Ci~~w~~~--------~~~~CP~CR~   96 (99)
                      ....|.-|...-.+....    .....|   .=.||..||..+...        ..-.||.||.
T Consensus         6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg   69 (105)
T PF10497_consen    6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG   69 (105)
T ss_pred             CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence            344577776643322110    012356   567999999888653        2236999985

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

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

Probab=89.25  E-value=0.49  Score=21.18  Aligned_cols=36  Identities=25%  Similarity=0.665  Sum_probs=22.8

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      |..|.+.+.+.+....  .=+..||.+|         ..|..|+.++
T Consensus         2 C~~C~~~i~~~~~~~~--~~~~~~H~~C---------f~C~~C~~~L   37 (39)
T smart00132        2 CAGCGKPIRGGELVLR--ALGKVWHPEC---------FKCSKCGKPL   37 (39)
T ss_pred             ccccCCcccCCcEEEE--eCCccccccC---------CCCcccCCcC
Confidence            7788888776533222  2367788887         3577776654

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

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

Probab=89.05  E-value=0.31  Score=24.34  Aligned_cols=36  Identities=17%  Similarity=0.367  Sum_probs=26.2

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD   85 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~   85 (99)
                      ..|.+|...|..-..-.....||+.||.+|......
T Consensus         3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~   38 (57)
T cd00065           3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP   38 (57)
T ss_pred             CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence            458899888876443334457999999999877643

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

Probab=88.97  E-value=0.87  Score=35.81  Aligned_cols=51  Identities=18%  Similarity=0.340  Sum_probs=36.3

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|-||-++..   +++..+..-.|+--.|+.|.+-=.+.++..||.|++++
T Consensus        14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y   67 (1044)
T PLN02915         14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRY   67 (1044)
T ss_pred             CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence            4457999999974   34455555578888999999544444554899998764

>PLN02195 cellulose synthase A

Probab=88.78  E-value=0.8  Score=35.76  Aligned_cols=51  Identities=18%  Similarity=0.376  Sum_probs=36.1

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|.||-++..   +++..+..-.|+--.|+.|.+-=.+.++..||.|++.+
T Consensus         5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Y   58 (977)
T PLN02195          5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPY   58 (977)
T ss_pred             CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcc
Confidence            3457999999875   34455555578888999999543343444799998764

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

Probab=88.71  E-value=0.22  Score=36.37  Aligned_cols=43  Identities=35%  Similarity=1.070  Sum_probs=32.2

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      .+..+.|.||+++. ..    +..+|.   |..|++.|+..+. .||.|+..
T Consensus       476 ~~~~~~~~~~~~~~-~~----~~~~~~---~~~~l~~~~~~~~-~~pl~~~~  518 (543)
T KOG0802|consen  476 REPNDVCAICYQEM-SA----RITPCS---HALCLRKWLYVQE-VCPLCHTY  518 (543)
T ss_pred             hcccCcchHHHHHH-Hh----cccccc---chhHHHhhhhhcc-ccCCCchh
Confidence            34456799999998 22    333577   9999999998555 89999764

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

Probab=88.59  E-value=0.22  Score=33.55  Aligned_cols=33  Identities=24%  Similarity=0.582  Sum_probs=27.1

Q ss_pred             ccccccccccccCCeeeEecCC----CCcccHHHHHHHHhc
Q 037626           50 EICSICLMEFEKEDVVSRLTRC----CHLFHADCIERWLDC   86 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C----~H~fh~~Ci~~w~~~   86 (99)
                      ..|.+|.|.+++...+    +|    +|.||..|-++-+++
T Consensus       269 LcCTLC~ERLEDTHFV----QCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  269 LCCTLCHERLEDTHFV----QCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             eeehhhhhhhccCcee----ecCCCcccceecccCHHHHHh
Confidence            4699999999887444    45    699999999998874

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

Probab=87.96  E-value=0.77  Score=34.88  Aligned_cols=40  Identities=18%  Similarity=0.380  Sum_probs=28.6

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCcc
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPV   93 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~   93 (99)
                      .|.+|-..+..-  ......|||.-|.+++.+|+...+ .||.
T Consensus       781 ~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s-~ca~  820 (839)
T KOG0269|consen  781 KCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKAS-PCAK  820 (839)
T ss_pred             Cceeecceeeee--EeecccccccccHHHHHHHHhcCC-CCcc
Confidence            577887665422  224457999999999999998544 6765

>PLN02400 cellulose synthase

Probab=87.61  E-value=0.76  Score=36.24  Aligned_cols=51  Identities=24%  Similarity=0.477  Sum_probs=35.6

Q ss_pred             ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|-||-+++.   +++..+..-.|+--.|+.|.+-=.+.++..||.|++.+
T Consensus        35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrY   88 (1085)
T PLN02400         35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRY   88 (1085)
T ss_pred             CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcc
Confidence            3457999999974   44555555578888999998543333444799998764

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

Probab=87.54  E-value=0.41  Score=25.10  Aligned_cols=11  Identities=27%  Similarity=1.162  Sum_probs=8.4

Q ss_pred             ccHHHHHHHHh
Q 037626           75 FHADCIERWLD   85 (99)
Q Consensus        75 fh~~Ci~~w~~   85 (99)
                      ||+.|+..|..
T Consensus        12 FCRNCLskWy~   22 (68)
T PF06844_consen   12 FCRNCLSKWYR   22 (68)
T ss_dssp             --HHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999985

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

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

Probab=87.54  E-value=0.56  Score=31.30  Aligned_cols=48  Identities=27%  Similarity=0.471  Sum_probs=33.8

Q ss_pred             ccccccccccccCCeeeE---ecCCCCcccHHHHHHHHhc--------CCCcCccCCCC
Q 037626           50 EICSICLMEFEKEDVVSR---LTRCCHLFHADCIERWLDC--------NQFTCPVCRSF   97 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~---l~~C~H~fh~~Ci~~w~~~--------~~~~CP~CR~~   97 (99)
                      ..|.+|.+++...+..+.   -+.|+-.+|..|+..-+..        -...||.|++.
T Consensus       183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~  241 (276)
T KOG3005|consen  183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF  241 (276)
T ss_pred             hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence            579999999965544332   2368889999999984432        12379999874

>PF13717 zinc_ribbon_4: zinc-ribbon domain

Probab=87.11  E-value=0.46  Score=21.79  Aligned_cols=26  Identities=31%  Similarity=0.768  Sum_probs=15.6

Q ss_pred             cccccccccccCCe-------eeEecCCCCccc
Q 037626           51 ICSICLMEFEKEDV-------VSRLTRCCHLFH   76 (99)
Q Consensus        51 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh   76 (99)
                      +|+=|...|..++.       ..+.+.|||.|+
T Consensus         4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~   36 (36)
T PF13717_consen    4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF   36 (36)
T ss_pred             ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence            57777777765432       124456777763

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

Probab=86.03  E-value=0.37  Score=28.08  Aligned_cols=35  Identities=20%  Similarity=0.144  Sum_probs=23.4

Q ss_pred             ccccccccccccccCC-eeeEecCCCCcccHHHHHH
Q 037626           48 VEEICSICLMEFEKED-VVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~   82 (99)
                      .+..|.+|..+|..-. .-.....|+|.+|..|-..
T Consensus        53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~   88 (118)
T PF02318_consen   53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY   88 (118)
T ss_dssp             CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred             CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence            5568999999874322 2246678999999999654

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

>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.55  E-value=0.95  Score=24.23  Aligned_cols=24  Identities=38%  Similarity=0.612  Sum_probs=19.4

Q ss_pred             CCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           72 CHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        72 ~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .|+||.+|...-+.   ..||.|-..+
T Consensus        28 EcTFCadCae~~l~---g~CPnCGGel   51 (84)
T COG3813          28 ECTFCADCAENRLH---GLCPNCGGEL   51 (84)
T ss_pred             eeehhHhHHHHhhc---CcCCCCCchh
Confidence            58999999998776   4799996554

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

Probab=85.30  E-value=0.26  Score=34.57  Aligned_cols=28  Identities=29%  Similarity=0.667  Sum_probs=0.0

Q ss_pred             EecCCCCcccHHHHHHHHhc-----CCCcCccCCCC
Q 037626           67 RLTRCCHLFHADCIERWLDC-----NQFTCPVCRSF   97 (99)
Q Consensus        67 ~l~~C~H~fh~~Ci~~w~~~-----~~~~CP~CR~~   97 (99)
                      +-+.|||++..   ..|...     +..+||+||+.
T Consensus       305 VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~  337 (416)
T PF04710_consen  305 VYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV  337 (416)
T ss_dssp             ------------------------------------
T ss_pred             eeccccceeee---cccccccccccccccCCCcccc
Confidence            34479998763   345321     23479999863

; PDB: 3EGB_B 3EGA_A.

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

Probab=84.51  E-value=0.28  Score=32.94  Aligned_cols=49  Identities=16%  Similarity=0.253  Sum_probs=20.2

Q ss_pred             cccccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .....||||-..-.-......-. .=.|.+|.-|-.+|--.+ ..||.|-.
T Consensus       170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-~~Cp~Cg~  219 (290)
T PF04216_consen  170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-IKCPYCGN  219 (290)
T ss_dssp             TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-TS-TTT--
T ss_pred             ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-CCCcCCCC
Confidence            44468999988754321100000 113568888999996633 48999954

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

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=83.75  E-value=1.6  Score=30.12  Aligned_cols=47  Identities=23%  Similarity=0.464  Sum_probs=31.7

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      +..|-.|.++....... +...|.|.||.+|-.--=+ .-..||-|...
T Consensus       330 ~~~Cf~C~~~~~~~~~y-~C~~Ck~~FCldCDv~iHe-sLh~CpgCeh~  376 (378)
T KOG2807|consen  330 SRFCFACQGELLSSGRY-RCESCKNVFCLDCDVFIHE-SLHNCPGCEHK  376 (378)
T ss_pred             CcceeeeccccCCCCcE-EchhccceeeccchHHHHh-hhhcCCCcCCC
Confidence            34599997776655444 4557999999999543322 22279999653

>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454

Probab=83.54  E-value=0.59  Score=28.69  Aligned_cols=41  Identities=22%  Similarity=0.447  Sum_probs=24.7

Q ss_pred             ccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           54 ICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        54 IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ||++--...+....-+.=.+.||..|-.+-..    .||.|..++
T Consensus         9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~----~Cp~C~~~I   49 (158)
T PF10083_consen    9 ICLNGHVITDSYDKNPELREKFCSKCGAKTIT----SCPNCSTPI   49 (158)
T ss_pred             HccCccccccccccCchHHHHHHHHhhHHHHH----HCcCCCCCC
Confidence            45544333332223333346699999888766    799998765

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.

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

Probab=82.99  E-value=1.3  Score=30.51  Aligned_cols=46  Identities=20%  Similarity=0.458  Sum_probs=32.7

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~   96 (99)
                      -.||+=-+.-.+.+.. ..+.|||+.-.+-+++..+.+  ++.||.|-.
T Consensus       337 FiCPVlKe~~t~ENpP-~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~  384 (396)
T COG5109         337 FICPVLKELCTDENPP-VMLECGHVISKEALSVLSQNGVLSFKCPYCPE  384 (396)
T ss_pred             eeccccHhhhcccCCC-eeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence            3698866665544444 455799999999999877643  346999953

>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines

Probab=82.62  E-value=1.4  Score=19.10  Aligned_cols=29  Identities=21%  Similarity=0.495  Sum_probs=10.8

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHH
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCI   80 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci   80 (99)
                      .|.+|.++... +..-....|.-.+|.+|+
T Consensus         2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca   30 (30)
T PF07649_consen    2 RCDACGKPIDG-GWFYRCSECDFDLHEECA   30 (30)
T ss_dssp             --TTTS----S---EEE-TTT-----HHHH
T ss_pred             cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence            47888888766 334455678888999885

The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.

>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]

Probab=82.50  E-value=1.7  Score=29.98  Aligned_cols=55  Identities=16%  Similarity=0.456  Sum_probs=34.3

Q ss_pred             CCCcccccccccccccc---------------cCCeeeEecCCCCcccHHHHHHHHhc--------CCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFE---------------KEDVVSRLTRCCHLFHADCIERWLDC--------NQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~---------------~~~~~~~l~~C~H~fh~~Ci~~w~~~--------~~~~CP~CR~~~   98 (99)
                      +....+.+||+|+..-.               .+-......+|||.--+.-..-|.+.        =+..||.|-+.+
T Consensus       336 ~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L  413 (429)
T KOG3842|consen  336 NTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL  413 (429)
T ss_pred             ccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence            33445668999987521               11111123379999888888888763        123699996643

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.32  E-value=1.6  Score=29.05  Aligned_cols=36  Identities=22%  Similarity=0.269  Sum_probs=29.4

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD   85 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~   85 (99)
                      ..+-+.|+.|+.+..+|    +..+=||.|+++||.+++.
T Consensus        40 iK~FdcCsLtLqPc~dP----vit~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   40 IKPFDCCSLTLQPCRDP----VITPDGYLFDREAILEYIL   75 (303)
T ss_pred             cCCcceeeeecccccCC----ccCCCCeeeeHHHHHHHHH
Confidence            34446799999999988    6666899999999988764

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

Probab=82.02  E-value=1.5  Score=21.63  Aligned_cols=9  Identities=22%  Similarity=0.881  Sum_probs=4.3

Q ss_pred             CCCcccHHH
Q 037626           71 CCHLFHADC   79 (99)
Q Consensus        71 C~H~fh~~C   79 (99)
                      -|..||.+|
T Consensus        18 ~~~~~H~~C   26 (58)
T PF00412_consen   18 MGKFWHPEC   26 (58)
T ss_dssp             TTEEEETTT
T ss_pred             CCcEEEccc
Confidence            344455544

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....

>smart00647 IBR In Between Ring fingers

Probab=81.33  E-value=0.33  Score=24.60  Aligned_cols=20  Identities=20%  Similarity=0.453  Sum_probs=15.5

Q ss_pred             eeeEecCCCCcccHHHHHHH
Q 037626           64 VVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        64 ~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      .....+.|||.||..|...|
T Consensus        39 ~~v~C~~C~~~fC~~C~~~~   58 (64)
T smart00647       39 NRVTCPKCGFSFCFRCKVPW   58 (64)
T ss_pred             CeeECCCCCCeECCCCCCcC
Confidence            33455579999999998887

the domains occurs between pairs og RING fingers

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	99
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		3e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		6e-05
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		3e-04

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/53 (45%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          A D  VE  C++CL E E  +    L RC H FHA+C++ WL  +  TCP+CR
Sbjct: 1  AMDDGVE--CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG-SHSTCPLCR 50

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 37/58 (63%), Gaps = 3/58 (5%)
Query: 39 YQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          + P    S+ + +C +C+ +FE   ++ R+  C H FHA C+++WL  N+ TCP+CR+
Sbjct: 14 FNPNNHQSE-QTLCVVCMCDFESRQLL-RVLPCNHEFHAKCVDKWLKANR-TCPICRA 68

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/50 (46%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
          E  C IC  E+ K DV + L  C H FH  C+  WL     TCPVCR  F
Sbjct: 40 EMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ-KSGTCPVCRCMF 87

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 29/44 (65%), Gaps = 2/44 (4%)
Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          C+ICL   E+ + V RL  C HLFH  C+++WL  N+  CP+CR
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNK-KCPICR 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	99
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	8e-16
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-14
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-14
2ect_A	78	Ring finger protein 126; metal binding protein, st	2e-14
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-14
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-12
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	8e-12
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-11
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	9e-10
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-09
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-08
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-08
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	4e-08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	7e-08
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	1e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-07
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	9e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-06
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	2e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	5e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	6e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	1e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	1e-04
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	2e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-04
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	4e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	4e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	8e-04

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

 Score = 64.5 bits (158), Expect = 8e-16
 Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 1/45 (2%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          C++CL E E  +    L RC H FHA+C++ WL  +  TCP+CR 
Sbjct: 8  CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS-TCPLCRL 51

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

 Score = 62.4 bits (152), Expect = 1e-14
 Identities = 22/57 (38%), Positives = 27/57 (47%), Gaps = 2/57 (3%)

Query: 39 YQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
             +      E  C IC  E+ K DV + L  C H FH  C+  WL  +  TCPVCR
Sbjct: 30 VTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSG-TCPVCR 84

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

 Score = 61.2 bits (149), Expect = 2e-14
 Identities = 24/54 (44%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          E  +   EE C+ICL   E+ + V RL  C HLFH  C+++WL  N+  CP+CR
Sbjct: 7  EGTEEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNK-KCPICR 58

>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 = 61.7 bits (150), Expect = 2e-14
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          E       C +C  ++   + V +L  C HLFH  CI  WL+ +  +CPVCR
Sbjct: 10 EHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHD-SCPVCR 59

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

 Score = 61.2 bits (149), Expect = 3e-14
 Identities = 19/55 (34%), Positives = 33/55 (60%), Gaps = 2/55 (3%)

Query: 42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
                 + +C +C+ +FE   ++ R+  C H FHA C+++WL  N+ TCP+CR+
Sbjct: 16 PNNHQSEQTLCVVCMCDFESRQLL-RVLPCNHEFHAKCVDKWLKANR-TCPICRA 68

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

 Score = 60.6 bits (147), Expect = 4e-14
 Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          + ++  + E+C++CL +F+  D +     C H FH  C+ +WL+  +  CP+C 
Sbjct: 8  KVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRK-VCPLCN 59

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

 Score = 56.4 bits (136), Expect = 2e-12
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
           + C  C  E ++ED V     C H FH  C+  W+  N   CP+C+
Sbjct: 26 MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNN-RCPLCQ 71

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

 Score = 54.2 bits (131), Expect = 8e-12
 Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          C ICL +     VV+ +  C HL H  C E  L    + CP+C 
Sbjct: 8  CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEML-KEGYRCPLCS 50

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

 Score = 53.9 bits (130), Expect = 2e-11
 Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 6/60 (10%)

Query: 36 AMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          + G     +    EE C IC+           +  C H F   CI++W D ++  CP+CR
Sbjct: 2  SSGSSGRVKQLTDEEECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHR-NCPICR 55

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

 Score = 51.3 bits (123), Expect = 2e-10
 Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          + V E C ICL +       S    C H F   CI RW+  N  TCP+C+ 
Sbjct: 2  ATVAERCPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNP-TCPLCKV 48

>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 = 52.8 bits (126), Expect = 9e-10
 Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 39  YQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           Y+   E     ++C IC    +      ++  C HL    C+  W +     CP CR 
Sbjct: 322 YELYCEMGSTFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRC 375

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

 Score = 48.8 bits (116), Expect = 1e-09
 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)

Query: 52 CSICLMEFEKEDVVSR---LTRCCHLFHADCIERWLDCNQFTCPVCR 95
          C IC+  + +     R    T C H+F + C+   L     TCP CR
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCR 63

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

 Score = 49.5 bits (117), Expect = 2e-09
 Identities = 18/66 (27%), Positives = 24/66 (36%), Gaps = 18/66 (27%)

Query: 49 EEICSICLMEFE--------------KEDVVSRLTRCCHLFHADCIERWL----DCNQFT 90
          EE C IC+ +                   VV RLT+C H FH  C+              
Sbjct: 25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQ 84

Query: 91 CPVCRS 96
          CP C++
Sbjct: 85 CPSCKT 90

>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 = 47.2 bits (112), Expect = 1e-08
 Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 3/45 (6%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          C IC+ +            C  L    CI RWL   +  CP CR+
Sbjct: 25 CFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRA 66

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

 Score = 46.3 bits (110), Expect = 1e-08
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 4/48 (8%)

Query: 52 CSICLMEFEKEDVVSR---LTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          C IC+  + +     R    T C H+F + C+   L     TCP CR 
Sbjct: 6  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRK 52

>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 = 45.2 bits (107), Expect = 4e-08
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 4/48 (8%)

Query: 52 CSICLMEFEKEDVVSR---LTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          C IC+  + +     R    T C H+F + C+   L     TCP CR 
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRK 59

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

 Score = 45.6 bits (107), Expect = 7e-08
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 1/52 (1%)

Query: 44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
              +   C         E+       C H FH  CI RWL   Q  CP+  
Sbjct: 46 HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLDN 96

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

 Score = 45.2 bits (106), Expect = 1e-07
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 1/52 (1%)

Query: 44  EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
               +   C         E+       C H FH  CI RWL   Q  CP+  
Sbjct: 57  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLDN 107

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

 Score = 44.1 bits (104), Expect = 2e-07
 Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 5/58 (8%)

Query: 38 GYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          G    +E+ ++   C IC   F +  VV   T+C H F   C           C +C 
Sbjct: 4  GSSGGSEEEEIPFRCFICRQAF-QNPVV---TKCRHYFCESCALEHFRATP-RCYICD 56

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

 Score = 43.2 bits (102), Expect = 3e-07
 Identities = 15/60 (25%), Positives = 20/60 (33%), Gaps = 4/60 (6%)

Query: 36 AMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          + G      +     +CSIC            +T C H F   CI R    +   CP C 
Sbjct: 2  SSGSSGNLSELTPYILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYYSN-RCPKCN 57

>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 = 43.0 bits (101), Expect = 9e-07
 Identities = 16/74 (21%), Positives = 22/74 (29%), Gaps = 4/74 (5%)

Query: 25 PLLETKRAIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL 84
           L   K        +Q      +    C  C        +    T C H    DC++R  
Sbjct: 28 VLASLKDRPASGSPFQLFLSKVEETFQCICCQELV-FRPIT---TVCQHNVCKDCLDRSF 83

Query: 85 DCNQFTCPVCRSFF 98
              F+CP CR   
Sbjct: 84 RAQVFSCPACRYDL 97

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

 Score = 41.4 bits (97), Expect = 1e-06
 Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 5/60 (8%)

Query: 36 AMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          + G       S     C+ICL              C H+F   C++      +  C +CR
Sbjct: 2  SSGSSGNTAPSLTVPECAICLQTCVH----PVSLPCKHVFCYLCVKGASWLGK-RCALCR 56

>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 = 42.7 bits (100), Expect = 1e-06
 Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 4/67 (5%)

Query: 32  AIYKAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTC 91
            +   +      +  +   +C  C         V+  T C H    DC++R      F+C
Sbjct: 61  VLSHLVEGPNFLKKLEQSFMCVCCQELVY--QPVT--TECFHNVCKDCLQRSFKAQVFSC 116

Query: 92  PVCRSFF 98
           P CR   
Sbjct: 117 PACRHDL 123

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

 Score = 40.7 bits (95), Expect = 2e-06
 Identities = 10/50 (20%), Positives = 19/50 (38%), Gaps = 4/50 (8%)

Query: 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCRSFF 98
          +IC+IC     +         C    H  C+ ++     +  CP C  ++
Sbjct: 16 KICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

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

 Score = 42.9 bits (100), Expect = 2e-06
 Identities = 18/89 (20%), Positives = 32/89 (35%), Gaps = 15/89 (16%)

Query: 23  LIPLLETKRAIYKAMGYQPEAEDSKVEEI-CSICLMEF----EKEDVVSRLTRCCHLFHA 77
           L+ + +            P+ ++   EE+ C+IC        E   V     +C    HA
Sbjct: 281 LLRMFDLCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHA 340

Query: 78  DCIERWL----------DCNQFTCPVCRS 96
            C+E W           + +   CP C++
Sbjct: 341 VCLEEWFKTLMDGKTFLEVSFGQCPFCKA 369

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

 Score = 40.8 bits (96), Expect = 3e-06
 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 2/46 (4%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWL--DCNQFTCPVCR 95
          C IC+  F +E +  +L  C H     C+E+ L    N   CP C 
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63

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

 Score = 42.0 bits (98), Expect = 3e-06
 Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 5/59 (8%)

Query: 40  QPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
               +  + E  C IC   F +    +    C H F + CI  W+      CP+CR   
Sbjct: 55  SHMNDVLENELQCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKI-ECPICRKDI 108

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

 Score = 40.5 bits (94), Expect = 4e-06
 Identities = 11/56 (19%), Positives = 18/56 (32%)

Query: 41 PEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
             +  +    C +C+   E +D+      C +     C  R        CP CR 
Sbjct: 3  RSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

>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 = 38.6 bits (90), Expect = 3e-05
 Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
            +C +C   F      + +  C H F   CI R+L+ ++  CP+C 
Sbjct: 15 HLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSK-YCPICD 57

>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 = 38.0 bits (88), Expect = 5e-05
 Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 4/60 (6%)

Query: 36 AMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          +M    +A  S  E  C IC+    +         C H     C +  ++     CP CR
Sbjct: 2  SMALPKDAIPSLSECQCGICMEILVE----PVTLPCNHTLCKPCFQSTVEKASLCCPFCR 57

>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 = 38.6 bits (89), Expect = 6e-05
 Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 6/60 (10%)

Query: 38 GYQPEAEDSKVEE--ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          G+      +K+E   +CS C     +        +C H + + C+   L      C  C 
Sbjct: 18 GFSKTLLGTKLEAKYLCSACRNVLRR----PFQAQCGHRYCSFCLASILSSGPQNCAACV 73

>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 = 1e-04
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 51  ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
           +C ICL   +  + ++    C H F ADCI   L      CP CR   
Sbjct: 56  MCPICLDMLK--NTMT-TKECLHRFCADCIITALRSGNKECPTCRKKL 100

>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 = 36.3 bits (84), Expect = 1e-04
 Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 6/59 (10%)

Query: 41 PEAEDSKVEE--ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-CNQFTCPVCRS 96
             ED  + +  +C IC       D V  +  C + +  +CI   L   ++ TCP C  
Sbjct: 5  SSGEDDPIPDELLCLICKDIMT--DAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQ 60

>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 = 37.2 bits (86), Expect = 1e-04
 Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 6/56 (10%)

Query: 41 PEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
             +  +    CS C       + V  L  C H+F ++C+   +      CPVC +
Sbjct: 14 AALDRLEKLLRCSRCTNILR--EPVC-LGGCEHIFCSNCVSDCIGTG---CPVCYT 63

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

 Score = 36.7 bits (85), Expect = 1e-04
 Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 4/48 (8%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
           C IC  E+    ++  + +C H + + CI ++L   +  CP C    
Sbjct: 24 RCGICF-EYFNIAMI--IPQCSHNYCSLCIRKFLS-YKTQCPTCCVTV 67

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 80

 Score = 36.0 bits (83), Expect = 2e-04
 Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 4/63 (6%)

Query: 40 QPEAEDSKVEEICSICLMEFEKEDVVSRLTRC---CHLFHADCIERWLD-CNQFTCPVCR 95
             +     ++IC IC  E + E  +     C    H  H  C+++W+   +   C +C+
Sbjct: 6  SGTSITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65

Query: 96 SFF 98
            F
Sbjct: 66 YEF 68

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

 Score = 37.1 bits (85), Expect = 2e-04
 Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 1/61 (1%)

Query: 35  KAMGYQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94
           K          +    IC     E  +   +   T C H+F + C+   L  N  TCP C
Sbjct: 61  KRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTC 119

Query: 95  R 95
           R
Sbjct: 120 R 120

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

 Score = 35.5 bits (81), Expect = 6e-04
 Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 43 AEDSKVEEICSICLMEFEKEDVVSRL---TRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
                   C IC+  + +     RL   T C H+F + C+   L  N  TCP CR   
Sbjct: 1  GAMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKI 58

>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 = 36.7 bits (85), Expect = 2e-04
 Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 4/46 (8%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           C ICLM   +    +  T C H F   CI + +      CPV   
Sbjct: 20 ECPICLMALRE----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNE 61

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

 Score = 35.1 bits (81), Expect = 3e-04
 Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 4/45 (8%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
           C  C +         + T C H F   C+   L  +   C  C+
Sbjct: 17 KCEKCHLVLCSP----KQTECGHRFCESCMAALLSSSSPKCTACQ 57

>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 = 36.0 bits (83), Expect = 4e-04
 Identities = 18/45 (40%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
           C IC       D V   T C HLF   CI R L      CP CR
Sbjct: 25 SCQICEHILA--DPVE--TSCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 36.6 bits (84), Expect = 4e-04
 Identities = 14/48 (29%), Positives = 18/48 (37%), Gaps = 4/48 (8%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
           C ICLM   +    +  T C H F   CI + +      CPV     
Sbjct: 20 ECPICLMALRE----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL 63

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

 Score = 35.1 bits (81), Expect = 4e-04
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 4/60 (6%)

Query: 41 PEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFFL 99
           E +    E +C IC       D V  +  C + +  +CI   L  + + TCP C    +
Sbjct: 5  SEDDPIPDELLCLICKDIMT--DAVV-IPCCGNSYCDECIRTALLESDEHTCPTCHQNDV 61

>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 = 35.7 bits (81), Expect = 8e-04
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 4/53 (7%)

Query: 42  EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPV 93
           + E  K+E  C I    +E         +C H+F  D I+ +L       CP 
Sbjct: 174 QIEGGKIELTCPITCKPYEAP---LISRKCNHVFDRDGIQNYLQGYTTRDCPQ 223

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	99
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.8
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.78
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.78
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.77
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.77
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.77
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.76
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.76
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.74
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.73
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.72
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.71
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.71
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.71
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.71
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.7
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.7
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.7
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.69
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.68
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.68
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.68
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.67
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.66
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.66
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.66
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.65
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.64
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.64
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.64
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.64
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.64
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.63
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.62
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.62
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.61
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.61
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.61
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.59
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.58
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.57
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.56
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.56
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.56
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.55
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.53
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.52
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.51
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.5
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.5
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.48
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.48
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.46
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.44
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.43
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.43
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.42
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.41
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.41
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.34
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.34
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.32
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.31
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.3
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.29
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	99.26
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.24
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.11
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	99.06
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.94
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.9
3nw0_A	238	Non-structural maintenance of chromosomes element	98.6
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.01
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.83
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.65
1we9_A	64	PHD finger family protein; structural genomics, PH	96.39
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	95.89
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	95.48
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	95.31
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	95.24
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	94.94
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	94.76
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	94.74
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	94.46
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	94.33
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	94.32
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	94.26
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	94.11
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	94.01
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	93.85
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	93.68
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	93.25
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	93.21
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	93.14
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	93.11
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	92.74
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	92.64
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	92.5
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	92.47
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	92.44
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	92.37
2yt5_A	66	Metal-response element-binding transcription facto	92.31
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	92.27
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	92.24
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	92.18
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	91.96
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	91.88
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	91.81
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	91.7
1z60_A	59	TFIIH basal transcription factor complex P44 subun	91.64
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	91.41
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	91.27
1wem_A	76	Death associated transcription factor 1; structura	91.21
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	91.1
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	90.93
1zbd_B	134	Rabphilin-3A; G protein, effector, RABCDR, synapti	90.52
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	90.23
1weu_A	91	Inhibitor of growth family, member 4; structural g	89.6
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	89.27
1wee_A	72	PHD finger family protein; structural genomics, PH	89.24
1dvp_A	220	HRS, hepatocyte growth factor-regulated tyrosine k	88.69
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	88.54
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	87.94
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	87.8
2cor_A	79	Pinch protein; LIM domain, particularly interestin	87.6
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	87.56
2co8_A	82	NEDD9 interacting protein with calponin homology a	87.3
3c6w_A	59	P28ING5, inhibitor of growth protein 5; chromatin,	86.8
2vnf_A	60	ING 4, P29ING4, inhibitor of growth protein 4; ace	86.53
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	86.29
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	86.09
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	85.88
3mpx_A	434	FYVE, rhogef and PH domain-containing protein 5; s	85.85
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	85.82
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	85.29
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	84.96
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	84.92
2zet_C	153	Melanophilin; complex, GTP-binding protein, GTPase	84.27
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	84.14
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	84.05
2o35_A	105	Hypothetical protein DUF1244; helix bundle, struct	83.97
3kqi_A	75	GRC5, PHD finger protein 2; metal-binding, zinc-fi	83.84
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	83.82
3fyb_A	104	Protein of unknown function (DUF1244); hydrocar de	83.73
2g6q_A	62	Inhibitor of growth protein 2; protein-peptide com	83.65
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	83.53
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	83.12
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	82.72
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	82.45
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	82.24
3a1b_A	159	DNA (cytosine-5)-methyltransferase 3A, histone H3;	82.15
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	81.3
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	80.83
3mjh_B	34	Early endosome antigen 1; protein-zinc finger comp	80.77
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	80.76
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	80.49
3o7a_A	52	PHD finger protein 13 variant; PHF13, zinc finger,	80.29
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	80.18

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

Probab=99.80  E-value=2.5e-20  Score=94.72  Aligned_cols=52  Identities=38%  Similarity=0.876  Sum_probs=44.3

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      +++.+|+||++++.+++....++.|||.||.+|+.+|++++ .+||+||++++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC-CSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcC-CcCcCCCCEeE
Confidence            34567999999999887776776699999999999999854 49999999874

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

Probab=99.78  E-value=2.3e-19  Score=96.22  Aligned_cols=55  Identities=29%  Similarity=0.870  Sum_probs=46.1

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...+...+..|+||++.+.+++.+..+ +|||.||..|+.+|++.+. +||+||+++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~~~~~-~CP~Cr~~~   62 (74)
T 2ep4_A            8 KVKELNLHELCAVCLEDFKPRDELGIC-PCKHAFHRKCLIKWLEVRK-VCPLCNMPV   62 (74)
T ss_dssp             CCCCCCCSCBCSSSCCBCCSSSCEEEE-TTTEEEEHHHHHHHHHHCS-BCTTTCCBC
T ss_pred             ccccCCCCCCCcCCCcccCCCCcEEEc-CCCCEecHHHHHHHHHcCC-cCCCcCccc
Confidence            334455667899999999988877666 4999999999999999665 999999976

>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=99.78  E-value=3.2e-19  Score=94.48  Aligned_cols=54  Identities=43%  Similarity=0.966  Sum_probs=44.5

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+...+..|+||++.+..++.+..+ +|||.||..|+.+|++.+. +||+||+++
T Consensus         8 ~~~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~~~-~CP~Cr~~~   61 (69)
T 2kiz_A            8 GTEEDTEEKCTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLITNK-KCPICRVDI   61 (69)
T ss_dssp             CCSTTCCCSBTTTTBCCCSSSCEEEC-TTSCEEEHHHHHHHHHHCS-BCTTTCSBS
T ss_pred             cCcCCCCCCCeeCCccccCCCcEEEe-CCCCHHHHHHHHHHHHcCC-CCcCcCccc
Confidence            34455567899999999877776556 5999999999999999665 899999876

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

Probab=99.77  E-value=2.4e-19  Score=96.48  Aligned_cols=51  Identities=37%  Similarity=1.032  Sum_probs=44.1

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++..|+||++++.+++.++.++ |||.||..|+.+|++.+. +||+||+++
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~-~CP~Cr~~~   70 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANR-TCPICRADS   70 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCS-SCTTTCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCC-cCcCcCCcC
Confidence            445668999999999988876775 999999999999998665 999999976

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

Probab=99.77  E-value=2.7e-19  Score=97.73  Aligned_cols=50  Identities=32%  Similarity=0.793  Sum_probs=40.8

Q ss_pred             cccccccccccccc-----------CCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEK-----------EDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~-----------~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++.|+||++++.+           ++.++.+++|||.||.+||++|+++++ +||+||+++
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~~   74 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNN-RCPLCQQDW   74 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCC-BCTTTCCBC
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCC-CCCCcCCCc
Confidence            45678888888854           344566768999999999999999665 999999986

>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=99.77  E-value=4.3e-19  Score=90.08  Aligned_cols=51  Identities=31%  Similarity=0.705  Sum_probs=42.2

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+..|+||++++.+++.....++|||.||.+|+.+|++.+ .+||+||+++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~   53 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPS   53 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT-CCCTTSCCSS
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC-CcCCCCCCcC
Confidence            34567999999997755544566799999999999999966 4999999976

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

Probab=99.76  E-value=4.6e-19  Score=95.93  Aligned_cols=55  Identities=35%  Similarity=0.797  Sum_probs=45.3

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .......+..|+||++.+.+++.+..+ +|||.||..|+.+|++.+ .+||+||+++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~-~C~H~fc~~Ci~~~~~~~-~~CP~Cr~~~   62 (78)
T 2ect_A            8 TEEHVGSGLECPVCKEDYALGESVRQL-PCNHLFHDSCIVPWLEQH-DSCPVCRKSL   62 (78)
T ss_dssp             CCTTSSSSCCCTTTTSCCCTTSCEEEC-TTSCEEETTTTHHHHTTT-CSCTTTCCCC
T ss_pred             CcccCCCCCCCeeCCccccCCCCEEEe-CCCCeecHHHHHHHHHcC-CcCcCcCCcc
Confidence            344455667899999999988777556 599999999999999855 4999999876

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

Probab=99.76  E-value=8.8e-19  Score=97.54  Aligned_cols=52  Identities=44%  Similarity=0.968  Sum_probs=44.3

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....+..|+||++.+.+++.+..++ |||.||..|+..|++.+. +||+||+++
T Consensus        36 ~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~   87 (91)
T 2l0b_A           36 AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSG-TCPVCRCMF   87 (91)
T ss_dssp             SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTC-BCTTTCCBS
T ss_pred             ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCC-cCcCcCccC
Confidence            3455678999999999888776775 999999999999998554 999999876

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

Probab=99.74  E-value=2e-18  Score=91.16  Aligned_cols=56  Identities=25%  Similarity=0.552  Sum_probs=43.4

Q ss_pred             CCCCCcccccccccccccccC---CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKE---DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ......++..|+||++.+.++   ......++|||.||..|+.+|++.+. +||+||+++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~   66 (69)
T 2ea6_A            8 TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI   66 (69)
T ss_dssp             CCCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCS-SCTTTCCCC
T ss_pred             cccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCC-CCCCCCCcc
Confidence            344455667899999999765   22224457999999999999998654 899999876

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

Probab=99.73  E-value=2.4e-18  Score=91.43  Aligned_cols=53  Identities=26%  Similarity=0.598  Sum_probs=41.9

Q ss_pred             CCcccccccccccccccC---CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKE---DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+++..|+||++.+.++   ......++|||.||..|+.+|++.+. +||+||+++
T Consensus         6 ~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~   61 (71)
T 3ng2_A            6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI   61 (71)
T ss_dssp             CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCS-BCTTTCCBC
T ss_pred             CCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCC-CCCCCCCcc
Confidence            344567899999999764   23334557999999999999998665 999999875

>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=99.72  E-value=4.9e-18  Score=97.85  Aligned_cols=51  Identities=35%  Similarity=0.799  Sum_probs=40.0

Q ss_pred             ccccccccccccccCC--------------eeeEecCCCCcccHHHHHHHHhc----CCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKED--------------VVSRLTRCCHLFHADCIERWLDC----NQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~--------------~~~~l~~C~H~fh~~Ci~~w~~~----~~~~CP~CR~~~   98 (99)
                      .+..|+||++++..+.              .+..+++|||.||..||..|+..    .+.+||+||+.+
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~   92 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCcc
Confidence            3458999999996643              33446689999999999999952    345899999875

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

Probab=99.71  E-value=9.4e-18  Score=88.12  Aligned_cols=52  Identities=19%  Similarity=0.482  Sum_probs=42.2

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .....++..|+||++.+.++    ..++|||.||..|+.+|++.++.+||+||+++
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (66)
T 2ecy_A            9 VKTVEDKYKCEKCHLVLCSP----KQTECGHRFCESCMAALLSSSSPKCTACQESI   60 (66)
T ss_dssp             CCSCCCCEECTTTCCEESSC----CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCC
T ss_pred             hhcCCcCCCCCCCChHhcCe----eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCC
Confidence            34445567899999999877    33579999999999999964555899999875

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

Probab=99.71  E-value=1.6e-17  Score=88.59  Aligned_cols=53  Identities=26%  Similarity=0.540  Sum_probs=42.6

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..+.+++..|+||++.+.++   ..+++|||.||..|+.+|++.+ .+||+||+++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~   60 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYYS-NRCPKCNIVV   60 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHHC-SSCTTTCCCC
T ss_pred             hHhhcCCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHcC-CcCCCcCccc
Confidence            444556677899999999876   2334799999999999999864 4899999875

>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=99.71  E-value=8.3e-18  Score=95.95  Aligned_cols=50  Identities=30%  Similarity=0.660  Sum_probs=39.9

Q ss_pred             ccccccccccccccC--------------CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKE--------------DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~--------------~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++.|+||++.+..+              +....+++|||.||..||.+|+.++ .+||+||+++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-~~CP~Cr~~~   99 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-QVCPLDNREW   99 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-SBCSSSCSBC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC-CcCcCCCCcc
Confidence            456799999998754              1123455799999999999999954 4999999975

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

Probab=99.71  E-value=6.4e-18  Score=89.98  Aligned_cols=50  Identities=24%  Similarity=0.393  Sum_probs=40.7

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....++..|+||++.+.++    +.++|||.||..|+.+|+..+ .+||+||+.+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~   59 (71)
T 2d8t_A           10 APSLTVPECAICLQTCVHP----VSLPCKHVFCYLCVKGASWLG-KRCALCRQEI   59 (71)
T ss_dssp             CSSSSCCBCSSSSSBCSSE----EEETTTEEEEHHHHHHCTTCS-SBCSSSCCBC
T ss_pred             ccCCCCCCCccCCcccCCC----EEccCCCHHHHHHHHHHHHCC-CcCcCcCchh
Confidence            3445566899999998776    444699999999999999855 4999999875

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

Probab=99.70  E-value=2.4e-17  Score=88.45  Aligned_cols=53  Identities=25%  Similarity=0.464  Sum_probs=43.1

Q ss_pred             CCCCCcccccccccccccccCCeeeEecC-CCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTR-CCHLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~-C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      +.....++..|+||++.+.++    +.++ |||.||..||.+|++.+ ..+||+||+++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   62 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   62 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTC----EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSS
T ss_pred             ccccCCCCCCCcCCChHHhCC----eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcC
Confidence            344556677899999999887    5556 99999999999999854 24899999875

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

Probab=99.70  E-value=2.3e-17  Score=89.85  Aligned_cols=52  Identities=23%  Similarity=0.561  Sum_probs=42.0

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++...+..|+||++.+.++    +.++|||.||..|+.+|++.+. +||+||+++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~-~CP~Cr~~~   59 (81)
T 2csy_A            8 GSEEEEIPFRCFICRQAFQNP----VVTKCRHYFCESCALEHFRATP-RCYICDQPT   59 (81)
T ss_dssp             CSSCCCCCSBCSSSCSBCCSE----EECTTSCEEEHHHHHHHHHHCS-BCSSSCCBC
T ss_pred             CcccCCCCCCCcCCCchhcCe----eEccCCCHhHHHHHHHHHHCCC-cCCCcCccc
Confidence            334445566899999999776    4557999999999999998544 899999875

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

Probab=99.70  E-value=3.1e-17  Score=90.33  Aligned_cols=56  Identities=25%  Similarity=0.636  Sum_probs=44.1

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~~~   98 (99)
                      .+...++..|+||++.+.+.+...+.++|||.||..|+.+|++.+  ..+||+||+++
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   66 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT   66 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCB
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcc
Confidence            344555678999999998865433555799999999999999864  35899999864

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

Probab=99.69  E-value=1.8e-17  Score=86.76  Aligned_cols=50  Identities=16%  Similarity=0.480  Sum_probs=41.2

Q ss_pred             ccccccccc-ccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLM-EFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~-~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..|+||++ .+.++.....+++|||.||..|+.+|+.+++.+||+||+++
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   53 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcc
Confidence            467999999 78777654455579999999999999876666899999875

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

Probab=99.68  E-value=4.4e-17  Score=86.93  Aligned_cols=51  Identities=31%  Similarity=0.665  Sum_probs=41.1

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~~   98 (99)
                      ....++..|+||++.+.++    +.++|||.||..|+..|++.  ++.+||+||+++
T Consensus        15 ~~~~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   67 (73)
T 2ysl_A           15 NKLQEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV   67 (73)
T ss_dssp             CCCCCCCBCTTTCSBCSSE----EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCC
T ss_pred             HhCccCCEeccCCcccCCe----EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcC
Confidence            4445567899999999866    44479999999999999973  445899999875

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

Probab=99.68  E-value=2.6e-17  Score=85.65  Aligned_cols=50  Identities=28%  Similarity=0.642  Sum_probs=39.5

Q ss_pred             ccccccccccccccC---CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKE---DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++.+|+||++.+.++   ......++|||.||.+|+.+|++++. +||+||+++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~   54 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI   54 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCS-BCTTTCCBC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCC-CCCCCCccC
Confidence            356799999999764   22224446999999999999998654 999999875

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

Probab=99.68  E-value=4.4e-17  Score=88.64  Aligned_cols=58  Identities=24%  Similarity=0.646  Sum_probs=45.0

Q ss_pred             CCCCCCCCcccccccccccccccCCeeeEecCCC-----CcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           39 YQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        39 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      +........++..|.||++++.+++.+ .+ +|+     |.||.+||++|+..+ +.+||+||+.+
T Consensus         5 ~s~~s~~~~~~~~C~IC~~~~~~~~~l-~~-pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~   68 (80)
T 2d8s_A            5 SSGTSITPSSQDICRICHCEGDDESPL-IT-PCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF   68 (80)
T ss_dssp             CCCCCCCCTTSCCCSSSCCCCCSSSCE-EC-SSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBC
T ss_pred             cCCCCCCCCCCCCCeEcCccccCCCee-Ee-ccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCee
Confidence            344455556667899999999876665 44 586     999999999999864 35899999876

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

Probab=99.67  E-value=3.8e-17  Score=86.15  Aligned_cols=48  Identities=38%  Similarity=0.774  Sum_probs=39.2

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +.+..|+||++.+.++  . ..++|||.||..|+.+|++++. +||+||+++
T Consensus         3 ~~~~~C~IC~~~~~~~--~-~~~~C~H~fc~~Ci~~~~~~~~-~CP~Cr~~~   50 (68)
T 1chc_A            3 TVAERCPICLEDPSNY--S-MALPCLHAFCYVCITRWIRQNP-TCPLCKVPV   50 (68)
T ss_dssp             CCCCCCSSCCSCCCSC--E-EETTTTEEESTTHHHHHHHHSC-STTTTCCCC
T ss_pred             CCCCCCeeCCccccCC--c-EecCCCCeeHHHHHHHHHhCcC-cCcCCChhh
Confidence            3456799999998754  2 4457999999999999998665 999999875

>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=5.6e-17  Score=87.63  Aligned_cols=49  Identities=20%  Similarity=0.401  Sum_probs=41.2

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++..|+||++.+.++    +.++|||.||..||.+|+..++.+||+||+++
T Consensus         5 ~~~~~~C~IC~~~~~~P----v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~   53 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             CSSSSSCTTTSCCCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             CcccCCCCCccccccCC----EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCC
Confidence            45567899999999877    44479999999999999986566899999875

>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=99.66  E-value=4e-17  Score=92.22  Aligned_cols=48  Identities=33%  Similarity=0.754  Sum_probs=40.6

Q ss_pred             cccccccccccccccCCeeeEe-cCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRL-TRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .++..|+||++.+.++    +. ++|||.||..||.+|+..++.+||+||+++
T Consensus        20 ~~~~~C~IC~~~~~~p----~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   68 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDA----RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL   68 (100)
T ss_dssp             HHHTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCccCCccccCc----cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcC
Confidence            3456799999999876    44 689999999999999997645899999875

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

Probab=99.66  E-value=2.9e-17  Score=97.61  Aligned_cols=46  Identities=33%  Similarity=0.761  Sum_probs=38.7

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++    +.++|||.||..|+..|+..+ .+||+||+++
T Consensus        52 ~~~~C~iC~~~~~~~----~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~   97 (138)
T 4ayc_A           52 NELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRK-IECPICRKDI   97 (138)
T ss_dssp             HHSBCTTTCSBCSSE----EEETTSCEEEHHHHHHHTTTC-SBCTTTCCBC
T ss_pred             ccCCCcccCcccCCc----eECCCCCCccHHHHHHHHHcC-CcCCCCCCcC
Confidence            345799999999876    445799999999999999854 4899999875

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

Probab=99.65  E-value=3.3e-17  Score=88.63  Aligned_cols=52  Identities=25%  Similarity=0.492  Sum_probs=42.1

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC------CCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN------QFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~------~~~CP~CR~~~   98 (99)
                      .....++..|+||++.+.++    +.++|||.||..|+.+|++.+      ..+||+||+++
T Consensus         6 ~~~~~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~   63 (79)
T 2egp_A            6 SGNVQEEVTCPICLELLTEP----LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY   63 (79)
T ss_dssp             SCCCCCCCEETTTTEECSSC----CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCC
T ss_pred             HhhcccCCCCcCCCcccCCe----eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcC
Confidence            34455667899999999877    445799999999999999852      45899999875

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

Probab=99.64  E-value=2.6e-16  Score=87.41  Aligned_cols=53  Identities=25%  Similarity=0.464  Sum_probs=42.8

Q ss_pred             CCCCCcccccccccccccccCCeeeEecC-CCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTR-CCHLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~-C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      +.....++..|+||++.+.++    +.++ |||.||..||..|+..+ ..+||+||+++
T Consensus         6 ~~~~~~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A            6 EDDPIPDELLCLICKDIMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             SCCCCCTTTEETTTTEECSSC----EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             ccccCCcCCCCCCCChhhcCc----eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            334455667899999999987    5557 99999999999999743 35899999875

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

Probab=99.64  E-value=3.5e-16  Score=81.32  Aligned_cols=48  Identities=33%  Similarity=0.697  Sum_probs=38.8

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVC   94 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~C   94 (99)
                      .+...++..|+||++.+.++    +.++|||.||..|+.+|++.  ++.+||+|
T Consensus        14 ~~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           14 VNKLQEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCBCTTTCSBCSSC----EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHhCccCCCCCcCCchhCCe----EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            34455667899999999877    44579999999999999984  34489998

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

Probab=99.64  E-value=2.6e-17  Score=87.28  Aligned_cols=50  Identities=34%  Similarity=0.767  Sum_probs=40.1

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .....++..|+||++.+.+    ..+ +|||.||..|+.+|++. +.+||+||+++
T Consensus         9 ~~~~~~~~~C~IC~~~~~~----~~~-~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~   58 (70)
T 2ecn_A            9 VKQLTDEEECCICMDGRAD----LIL-PCAHSFCQKCIDKWSDR-HRNCPICRLQM   58 (70)
T ss_dssp             CCCCCCCCCCSSSCCSCCS----EEE-TTTEEECHHHHHHSSCC-CSSCHHHHHCT
T ss_pred             hhcCCCCCCCeeCCcCccC----ccc-CCCCcccHHHHHHHHHC-cCcCCCcCCcc
Confidence            3444556789999999876    244 69999999999999984 45999999865

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

Probab=99.64  E-value=4.3e-16  Score=85.07  Aligned_cols=51  Identities=35%  Similarity=0.643  Sum_probs=41.8

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-----CCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-----QFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-----~~~CP~CR~~~   98 (99)
                      ....++..|+||++.+.++    ..++|||.||..|+..|+...     ...||.||+++
T Consensus        14 ~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKEP----VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY   69 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSSC----EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCC
T ss_pred             HhCccCCCCcCCChhhCcc----eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcC
Confidence            3445567899999999887    455799999999999999862     55899999875

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

Probab=99.64  E-value=2e-17  Score=95.71  Aligned_cols=50  Identities=32%  Similarity=0.656  Sum_probs=0.9

Q ss_pred             ccccccccccccccCC--------------eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKED--------------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~--------------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .++.|+||++++.++.              ..+..++|+|.||..||.+|++.+. +||+||+++
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~-~CP~Cr~~~  110 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLDNREW  110 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCC-cCCCCCCee
Confidence            3568999999997531              1223357999999999999999654 999999874

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

Probab=99.63  E-value=3.1e-16  Score=80.12  Aligned_cols=49  Identities=39%  Similarity=0.912  Sum_probs=38.9

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVC   94 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~C   94 (99)
                      ..+...++..|+||++.+.++    +.++|||.||..|+.+|++.  ++.+||+|
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            8 ALENLQVEASCSVCLEYLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSSCSCCCCBCSSSCCBCSSC----CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             HhhccccCCCCccCCcccCcc----EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            344455667899999999887    44579999999999999653  44589998

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

Probab=99.62  E-value=3.5e-16  Score=84.72  Aligned_cols=54  Identities=20%  Similarity=0.384  Sum_probs=40.5

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+++.+|+||++++..++......+|||.||..|+.++++.....||.||+++
T Consensus         7 ~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~   60 (78)
T 1e4u_A            7 AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   60 (78)
T ss_dssp             CCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBC
T ss_pred             ccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCcc
Confidence            345567899999998654332211249999999999999865566899999875

>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=99.62  E-value=2e-16  Score=92.36  Aligned_cols=48  Identities=27%  Similarity=0.534  Sum_probs=40.4

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .++..|+||++.+.++    +.++|||.||..|+..|+..+..+||+||+++
T Consensus        50 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   97 (124)
T 3fl2_A           50 EETFQCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL   97 (124)
T ss_dssp             HHHTBCTTTSSBCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             ccCCCCCcCChHHcCc----EEeeCCCcccHHHHHHHHhHCcCCCCCCCccC
Confidence            3456799999999877    54579999999999999986555899999875

>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=99.61  E-value=1.2e-16  Score=92.15  Aligned_cols=52  Identities=25%  Similarity=0.496  Sum_probs=42.9

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .....++..|+||++.+.++    +.++|||.||..|+.+|+..++.+||+||+.+
T Consensus         9 ~~~~~~~~~C~iC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (115)
T 3l11_A            9 AIPSLSECQCGICMEILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV   60 (115)
T ss_dssp             CCCCHHHHBCTTTCSBCSSC----EECTTSCEECHHHHCCCCCTTTSBCTTTCCBC
T ss_pred             ccCCCCCCCCccCCcccCce----eEcCCCCHHhHHHHHHHHhHCcCCCCCCCccc
Confidence            34445567899999999877    45579999999999999986566899999875

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

Probab=99.61  E-value=8.2e-16  Score=83.93  Aligned_cols=51  Identities=29%  Similarity=0.587  Sum_probs=41.2

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-----CCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-----NQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-----~~~~CP~CR~~~   98 (99)
                      ....++..|+||++.+.++    ..++|||.||..|+..|+..     +...||.||+.+
T Consensus        14 ~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQP----LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY   69 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSC----BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSS
T ss_pred             HHccCCCCCCCCCcccCCc----eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCcc
Confidence            3445567899999999876    44479999999999999975     245899999875

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

Probab=99.61  E-value=2.9e-16  Score=92.11  Aligned_cols=51  Identities=27%  Similarity=0.621  Sum_probs=40.6

Q ss_pred             cccccccccccccccC---CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKE---DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .++..|+||++.+.++   ....+.++|||.||.+||.+|++.+. +||+||+.+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~   58 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI   58 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCS-BCTTTCCBC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCC-CCCCCCCcC
Confidence            4556899999999765   23334446999999999999998555 999999875

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

Probab=99.59  E-value=5.9e-16  Score=87.13  Aligned_cols=47  Identities=26%  Similarity=0.609  Sum_probs=38.7

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++   ..+++|||.||..|+..|+..+ .+||+||+++
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~   67 (99)
T 2y43_A           21 DLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYK-TQCPTCCVTV   67 (99)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTC-CBCTTTCCBC
T ss_pred             CCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHCC-CCCCCCCCcC
Confidence            346799999999875   2333799999999999999954 4999999875

>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=99.58  E-value=1.3e-15  Score=87.02  Aligned_cols=48  Identities=27%  Similarity=0.663  Sum_probs=39.6

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .++..|+||++.+.++   ..+++|||.||..|+..|+..+ .+||+||+.+
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~   60 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETS-KYCPICDVQV   60 (108)
T ss_dssp             GGGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTSC-SBCTTTCCBS
T ss_pred             CCcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHhC-CcCcCCCccc
Confidence            4566899999999875   2343799999999999999855 5999999875

>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=99.57  E-value=1.5e-15  Score=87.98  Aligned_cols=51  Identities=27%  Similarity=0.532  Sum_probs=42.2

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....++..|+||++.+.++    +.++|||.||..|+..|+..+..+||+||+++
T Consensus        13 ~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (118)
T 3hct_A           13 PPLESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             cCCCCCCCCCcCChhhcCe----EECCcCChhhHHHHHHHHhhCCCCCCCCCCCc
Confidence            3445567899999999877    44579999999999999986555899999875

>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=99.56  E-value=1.4e-15  Score=91.55  Aligned_cols=47  Identities=28%  Similarity=0.620  Sum_probs=40.1

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++    +.++|||.||..|+..|+..+..+||+||+++
T Consensus        77 ~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  123 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDL  123 (150)
T ss_dssp             HHTBCTTTSSBCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             cCCEeecCChhhcCC----EEcCCCCchhHHHHHHHHHhCCCcCCCCCccC
Confidence            345799999999877    44579999999999999996655899999875

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

Probab=99.56  E-value=3.7e-15  Score=79.68  Aligned_cols=52  Identities=21%  Similarity=0.616  Sum_probs=41.0

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      .-.+...+|+||.+.+..++.   ...|+|.||..|+.+|++++ +.+||+||+++
T Consensus        10 ~y~~~i~~C~IC~~~i~~g~~---C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w   62 (74)
T 2ct0_A           10 TYPDAVKICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW   62 (74)
T ss_dssp             CCSSSSCBCSSSCCBCSSSEE---CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCC
T ss_pred             hccCCCCcCcchhhHcccCCc---cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcC
Confidence            334445679999999986643   33799999999999999865 24899999876

>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=99.56  E-value=1.5e-15  Score=92.48  Aligned_cols=48  Identities=35%  Similarity=0.704  Sum_probs=39.9

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++   ..+++|||.||..|+..|+..++..||+||.++
T Consensus        53 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  100 (165)
T 2ckl_B           53 SELMCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKL  100 (165)
T ss_dssp             HHHBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCCCcccChHhhCc---CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcC
Confidence            445899999999875   234479999999999999996566899999875

>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=99.55  E-value=1.9e-15  Score=87.20  Aligned_cols=48  Identities=33%  Similarity=0.508  Sum_probs=40.4

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .++..|+||++.+.++    +.++|||.||..|+.+|+..+..+||+||+++
T Consensus        21 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   68 (116)
T 1rmd_A           21 VKSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (116)
T ss_dssp             HHHTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             cCCCCCCCCCcHhcCc----EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCC
Confidence            3456899999999876    44579999999999999987555899999875

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

Probab=99.53  E-value=3.1e-15  Score=85.65  Aligned_cols=46  Identities=28%  Similarity=0.647  Sum_probs=38.2

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC--CcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ--FTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~--~~CP~CR~~~   98 (99)
                      +..|+||++.+.++    ..++|||.||..|+..|+..+.  .+||+||+++
T Consensus        21 ~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (112)
T 1jm7_A           21 ILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (112)
T ss_dssp             HTSCSSSCCCCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             CCCCcccChhhcCe----EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcC
Confidence            45799999999877    4457999999999999998532  4799999875

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

Probab=99.52  E-value=5.6e-15  Score=86.55  Aligned_cols=51  Identities=27%  Similarity=0.621  Sum_probs=40.5

Q ss_pred             cccccccccccccccC---CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKE---DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++..|+||++.+.++   ......++|||.||..|+++|++.+. +||+||+++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~  123 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI  123 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCS-BCTTTCCBC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCC-CCCCCCCcC
Confidence            4456799999998764   22234457999999999999999665 999999875

>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=99.51  E-value=7e-15  Score=76.74  Aligned_cols=47  Identities=28%  Similarity=0.528  Sum_probs=38.0

Q ss_pred             cccccccccccccccCCeeeEec--CCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLT--RCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~--~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +++..|+||++...+.    .+.  +|||. ||.+|+.+|.+.+. .||+||+++
T Consensus         6 ~~~~~C~IC~~~~~~~----~~~~~pCgH~~~C~~C~~~~~~~~~-~CPiCR~~i   55 (64)
T 2vje_A            6 NAIEPCVICQGRPKNG----CIVHGKTGHLMACFTCAKKLKKRNK-PCPVCRQPI   55 (64)
T ss_dssp             GGGSCCTTTSSSCSCE----EEEETTEEEEEECHHHHHHHHHTTC-CCTTTCCCC
T ss_pred             CCcCCCCcCCCCCCCE----EEECCCCCChhhHHHHHHHHHHcCC-cCCCcCcch
Confidence            3556799999987655    333  79999 89999999998554 899999976

>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=99.50  E-value=1e-14  Score=75.92  Aligned_cols=50  Identities=22%  Similarity=0.426  Sum_probs=38.5

Q ss_pred             CcccccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .+.+..|+||++...+.  +....+|||. ||.+|+.+|.+.+ ..||+||+++
T Consensus         4 ~~~~~~C~IC~~~~~~~--~~~~~pCgH~~~C~~C~~~~~~~~-~~CPiCR~~i   54 (63)
T 2vje_B            4 QNLLKPCSLCEKRPRDG--NIIHGRTGHLVTCFHCARRLKKAG-ASCPICKKEI   54 (63)
T ss_dssp             GGGGSBCTTTSSSBSCE--EEEETTEEEEEECHHHHHHHHHTT-CBCTTTCCBC
T ss_pred             CCcCCCCcccCCcCCCe--EEEecCCCCHhHHHHHHHHHHHhC-CcCCCcCchh
Confidence            34456899999986654  2122379998 9999999998855 4899999976

>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=99.50  E-value=3.3e-15  Score=89.09  Aligned_cols=50  Identities=18%  Similarity=0.413  Sum_probs=41.5

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+++..|+||++.+.++    +.++|||.||..||.+|+..+..+||+||.++
T Consensus        27 ~l~~~~~C~IC~~~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRP----FQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             cCCcCcCCCCCChhhcCc----EECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            345567899999999887    44579999999999999986655899999853

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

Probab=99.48  E-value=5.6e-15  Score=75.16  Aligned_cols=45  Identities=24%  Similarity=0.566  Sum_probs=36.7

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +.++..|+||++.+.++    +.++|||.||..|+..|    ..+||+||+++
T Consensus         3 e~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~   47 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS----GMQCPICQAPW   47 (56)
T ss_dssp             SCCCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS----SSSCSSCCSSS
T ss_pred             cccCCCceEeCCccCCe----EEcCCCCcccHHHHccC----CCCCCcCCcEe
Confidence            34556799999999887    45579999999999873    34899999875

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

Probab=99.48  E-value=6e-14  Score=77.00  Aligned_cols=49  Identities=16%  Similarity=0.004  Sum_probs=41.5

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...++..|+||++.|.++    +..+|||+|+..||..|+.. +.+||+||+++
T Consensus        10 ~~p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l   58 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDP----VRLPSGTVMDRSIILRHLLN-SPTDPFNRQML   58 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHH-CSBCTTTCCBC
T ss_pred             cCchheECcccCchhcCC----eECCCCCEECHHHHHHHHhc-CCCCCCCcCCC
Confidence            344567899999999988    66679999999999999985 45999999875

>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=99.46  E-value=3e-14  Score=96.50  Aligned_cols=45  Identities=27%  Similarity=0.801  Sum_probs=38.4

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+||++.+.++    +.++|||.||..|+..|+..+..+||+||+++
T Consensus       333 ~~C~ICle~~~~p----v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i  377 (389)
T 2y1n_A          333 QLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI  377 (389)
T ss_dssp             SBCTTTSSSBCCE----EEETTCCEECHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCccCcCCCCe----EEeCCCChhhHHHHHHHHhcCCCCCCCCCCcc
Confidence            5799999998765    55579999999999999985455899999875

>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=99.44  E-value=7.7e-14  Score=85.26  Aligned_cols=51  Identities=27%  Similarity=0.532  Sum_probs=42.1

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....++..|+||++.+.++    +.++|||.||..|+.+|+..+..+||+||.++
T Consensus        13 ~~~~~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (170)
T 3hcs_A           13 PPLESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             cCCCCCCCCCCCChhhcCc----EECCCCCHHHHHHHHHHHHhCCCCCCCCccCc
Confidence            3445667899999999877    44579999999999999986555899999875

>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=99.43  E-value=1.5e-13  Score=77.21  Aligned_cols=48  Identities=19%  Similarity=0.018  Sum_probs=41.0

Q ss_pred             CcccccccccccccccCCeeeEecCCC-CcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCC-HLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~-H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++..|+||++.|.+|    +.++|| |+|++.||..|+.. +.+||+||+++
T Consensus        19 ~p~~~~CpI~~~~m~dP----V~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l   67 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPL   67 (98)
T ss_dssp             CCTTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBC
T ss_pred             CcHhcCCcCccccccCC----eECCCCCeEECHHHHHHHHHh-CCCCCCCCCCC
Confidence            34566899999999988    666799 99999999999985 45899999875

>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=99.43  E-value=1.2e-13  Score=77.97  Aligned_cols=48  Identities=15%  Similarity=-0.048  Sum_probs=40.8

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++..|+||++.|.+|    +.++|||+|+..||..|+.. +.+||.||+++
T Consensus        26 ~p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l   73 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDP----VRLPSGTIMDRSIILRHLLN-SPTDPFNRQTL   73 (100)
T ss_dssp             CSTTTBCTTTCSBCSSE----EEETTTEEEEHHHHHHHTTS-CSBCSSSCCBC
T ss_pred             CcHhhCCcCccCcccCC----eECCCCCEEchHHHHHHHHc-CCCCCCCCCCC
Confidence            34456899999999988    55579999999999999984 55999999875

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

Probab=99.42  E-value=3.1e-14  Score=76.24  Aligned_cols=42  Identities=29%  Similarity=0.630  Sum_probs=35.4

Q ss_pred             ccccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++    .+++|||. ||..|+..|     ..||+||+++
T Consensus        23 ~~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i   65 (74)
T 4ic3_A           23 EEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEAV-----DKCPMCYTVI   65 (74)
T ss_dssp             HHTBCTTTSSSBCCE----EEETTCCBCCCHHHHTTC-----SBCTTTCCBC
T ss_pred             cCCCCCCCCCCCCCE----EEcCCCChhHHHHhhhcC-----ccCCCcCcCc
Confidence            345799999998766    55579999 999999998     3899999875

>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=99.41  E-value=3.3e-13  Score=87.53  Aligned_cols=52  Identities=19%  Similarity=0.080  Sum_probs=43.2

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..+...+..|+||++.+.+|    +.++|||+||..||..|+..+..+||+||.++
T Consensus       202 ~~~~~~~~~c~i~~~~~~dP----v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~  253 (281)
T 2c2l_A          202 KRDIPDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPL  253 (281)
T ss_dssp             CCCCCSTTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             CCCCCcccCCcCcCCHhcCC----eECCCCCEECHHHHHHHHHHCCCCCcCCCCCC
Confidence            34445567899999999988    66679999999999999986554699999875

>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=99.41  E-value=2.5e-14  Score=82.72  Aligned_cols=44  Identities=25%  Similarity=0.540  Sum_probs=37.7

Q ss_pred             ccccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++    +.+ +|||.||..|+..|+.   ..||+||+++
T Consensus        21 ~~~~C~IC~~~~~~p----v~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~   65 (117)
T 1jm7_B           21 KLLRCSRCTNILREP----VCLGGCEHIFCSNCVSDCIG---TGCPVCYTPA   65 (117)
T ss_dssp             HTTSCSSSCSCCSSC----BCCCSSSCCBCTTTGGGGTT---TBCSSSCCBC
T ss_pred             hCCCCCCCChHhhCc----cEeCCCCCHHHHHHHHHHhc---CCCcCCCCcC
Confidence            345799999999887    544 7999999999999987   4899999875

>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=99.34  E-value=8e-13  Score=73.71  Aligned_cols=48  Identities=25%  Similarity=0.483  Sum_probs=39.1

Q ss_pred             CcccccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcC-----CCcCcc--CCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCN-----QFTCPV--CRSF   97 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~-----~~~CP~--CR~~   97 (99)
                      ...+..|+||++.|.+|    +.. .|||+|+..||..|+..+     ..+||+  |++.
T Consensus         4 ~~~~~~CPI~~~~~~dP----V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKP----VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CSSCCBCTTTCSBCSSE----EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CCcEeECcCcCchhcCC----EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            34566899999999987    554 599999999999999753     358999  9854

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

Probab=99.34  E-value=1.1e-12  Score=69.15  Aligned_cols=46  Identities=24%  Similarity=0.555  Sum_probs=36.6

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....++..|.||++...+.    ++++|||. ||..|+..    . ..||+||+++
T Consensus        10 ~~~~~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~----~-~~CP~CR~~i   56 (68)
T 2ea5_A           10 PSEENSKDCVVCQNGTVNW----VLLPCRHTCLCDGCVKY----F-QQCPMCRQFV   56 (68)
T ss_dssp             CSCCCSSCCSSSSSSCCCC----EETTTTBCCSCTTHHHH----C-SSCTTTCCCC
T ss_pred             ccCCCCCCCCCcCcCCCCE----EEECCCChhhhHHHHhc----C-CCCCCCCcch
Confidence            3344456899999997766    67789999 99999984    2 3899999976

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

Probab=99.32  E-value=2.5e-13  Score=90.49  Aligned_cols=53  Identities=26%  Similarity=0.569  Sum_probs=39.3

Q ss_pred             CcccccccccccccccCCee----eEecCCCCcccHHHHHHHHhcCC----------CcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVV----SRLTRCCHLFHADCIERWLDCNQ----------FTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~----~~l~~C~H~fh~~Ci~~w~~~~~----------~~CP~CR~~~   98 (99)
                      ++...+|+||++.+.++..+    -..+.|||.||..|+.+|++...          .+||.||+++
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pI  371 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKL  371 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEE
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcC
Confidence            34456899999998773222    12347999999999999997421          3699999875

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

Probab=99.31  E-value=5.4e-13  Score=71.48  Aligned_cols=41  Identities=29%  Similarity=0.664  Sum_probs=33.7

Q ss_pred             cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..|+||++.+.++    ++++|||. ||..|+..    . ..||+||+++
T Consensus        25 ~~~C~IC~~~~~~~----~~~pCgH~~~C~~C~~~----~-~~CP~Cr~~i   66 (75)
T 2ecg_A           25 EKLCKICMDRNIAI----VFVPCGHLVTCKQCAEA----V-DKCPMCYTVI   66 (75)
T ss_dssp             HHSCSSSCSSCCCB----CCSSSCCCCBCHHHHHH----C-SBCTTTCCBC
T ss_pred             CCCCCcCCCCCCCE----EEecCCCHHHHHHHhhC----C-CCCccCCcee
Confidence            45799999998776    55679999 99999964    2 3899999875

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

Probab=99.30  E-value=2.8e-12  Score=79.00  Aligned_cols=51  Identities=18%  Similarity=0.062  Sum_probs=42.5

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .....+..||||++.|.+|    +.++|||+|+..||..|+..+..+||+||.++
T Consensus       101 ~~ip~~f~CPI~~elm~DP----V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l  151 (179)
T 2f42_A          101 REIPDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFDPVTRSPL  151 (179)
T ss_dssp             CCCCGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             cCCcHhhcccCccccCCCC----eECCCCCEECHHHHHHHHHhCCCCCCCCcCCC
Confidence            3445667899999999988    66679999999999999986443799999875

>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=99.29  E-value=2.1e-12  Score=71.86  Aligned_cols=49  Identities=22%  Similarity=0.683  Sum_probs=38.7

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc----C---CCcCcc--CCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC----N---QFTCPV--CRSF   97 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~----~---~~~CP~--CR~~   97 (99)
                      +..+|+||++++..++.+ .+.+|||.||.+|+.++++.    +   ..+||.  ||..
T Consensus         4 ~~~~C~IC~~~~~~~~~~-~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEE-EETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccce-EcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            456799999998877554 34469999999999999863    1   247999  9986

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

Probab=99.26  E-value=6.2e-12  Score=64.64  Aligned_cols=50  Identities=22%  Similarity=0.578  Sum_probs=36.2

Q ss_pred             CcccccccccccccccCCeeeEec-CCCC---cccHHHHHHHHhc-CCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLT-RCCH---LFHADCIERWLDC-NQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H---~fh~~Ci~~w~~~-~~~~CP~CR~~~   98 (99)
                      ++++..|.||+++..+  .+ ..| .|.|   .||.+|+.+|+.. ++.+||+||.++
T Consensus         3 ~~~~~~CrIC~~~~~~--~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~   57 (60)
T 1vyx_A            3 DEDVPVCWICNEELGN--ER-FRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             TCSCCEETTTTEECSC--CC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCEeEEeecCCCC--ce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCee
Confidence            3455689999998432  23 343 2445   8999999999975 455899999876

>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=99.24  E-value=1.2e-12  Score=70.89  Aligned_cols=42  Identities=29%  Similarity=0.630  Sum_probs=34.4

Q ss_pred             ccccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++...+.    .+.+|||. ||..|+..|     ..||+||+++
T Consensus        17 ~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i   59 (79)
T 2yho_A           17 EAMLCMVCCEEEINS----TFCPCGHTVCCESCAAQL-----QSCPVCRSRV   59 (79)
T ss_dssp             HHTBCTTTSSSBCCE----EEETTCBCCBCHHHHTTC-----SBCTTTCCBC
T ss_pred             CCCEeEEeCcccCcE----EEECCCCHHHHHHHHHhc-----CcCCCCCchh
Confidence            345799999987765    55579999 999999876     2899999875

>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=99.11  E-value=3.9e-11  Score=77.48  Aligned_cols=49  Identities=29%  Similarity=0.618  Sum_probs=38.7

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCcc--CCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPV--CRSFF   98 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~--CR~~~   98 (99)
                      ..+..||||++.|.+|  + +...|||.|++.||..|++.+ ..+||+  ||+.+
T Consensus       179 ~~el~CPIcl~~f~DP--V-ts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l  230 (267)
T 3htk_C          179 KIELTCPITCKPYEAP--L-ISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVV  230 (267)
T ss_dssp             BCCSBCTTTSSBCSSE--E-EESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEE
T ss_pred             ceeeECcCccCcccCC--e-eeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcC
Confidence            3445799999999887  2 234799999999999999753 347999  99854

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

Probab=99.06  E-value=1.8e-11  Score=82.13  Aligned_cols=41  Identities=27%  Similarity=0.726  Sum_probs=35.0

Q ss_pred             cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..|+||++.+.++    +.++|||. ||..|+..|     ..||+||+++
T Consensus       295 ~~~C~IC~~~~~~~----v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i  336 (345)
T 3t6p_A          295 ERTCKVCMDKEVSV----VFIPCGHLVVCQECAPSL-----RKCPICRGII  336 (345)
T ss_dssp             TCBCTTTSSSBCCE----EEETTCCEEECTTTGGGC-----SBCTTTCCBC
T ss_pred             CCCCCccCCcCCce----EEcCCCChhHhHHHHhcC-----CcCCCCCCCc
Confidence            45799999998776    55579999 999999988     3899999875

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

Probab=98.94  E-value=3.6e-10  Score=58.15  Aligned_cols=44  Identities=14%  Similarity=0.289  Sum_probs=37.6

Q ss_pred             ccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+|+++.+.++    +.. ++||+|.++||.+|++.+. +||+.++++
T Consensus         4 ~~CpIs~~~m~dP----V~~~~sG~~yer~~I~~~l~~~~-~cP~t~~~L   48 (61)
T 2bay_A            4 MLCAISGKVPRRP----VLSPKSRTIFEKSLLEQYVKDTG-NDPITNEPL   48 (61)
T ss_dssp             CCCTTTCSCCSSE----EEETTTTEEEEHHHHHHHHHHHS-BCTTTCCBC
T ss_pred             EEecCCCCCCCCC----EEeCCCCcEEcHHHHHHHHHhCC-CCcCCcCCC
Confidence            4699999999977    444 7999999999999998654 799999865

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

Probab=98.90  E-value=1.2e-09  Score=60.82  Aligned_cols=45  Identities=22%  Similarity=0.451  Sum_probs=35.3

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .|++|--++..-  .+.. +|+|+||.+|+..|.+++..+||.||.++
T Consensus         3 fC~~C~~Pi~iy--gRmI-PCkHvFCydCa~~~~~~~~k~Cp~C~~~V   47 (101)
T 3vk6_A            3 FCDKCGLPIKVY--GRMI-PCKHVFCYDCAILHEKKGDKMCPGCSDPV   47 (101)
T ss_dssp             BCTTTCSBCSEE--EEEE-TTCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             ecCccCCCeEEE--eeec-cccccHHHHHHHHHHhccCCCCcCcCCee
Confidence            477887776533  3344 69999999999999876666899999876

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

Probab=98.60  E-value=3.7e-08  Score=63.12  Aligned_cols=47  Identities=23%  Similarity=0.696  Sum_probs=38.2

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~   98 (99)
                      -..|.||.+....+   ...+.|+|.||..|+..|++.+ +.+||.|+.++
T Consensus       180 i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W  227 (238)
T 3nw0_A          180 VKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW  227 (238)
T ss_dssp             CCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBC
T ss_pred             CCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCC
Confidence            45799999998866   3445699999999999999753 34899999875

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

Probab=97.01  E-value=0.00036  Score=38.59  Aligned_cols=35  Identities=14%  Similarity=0.425  Sum_probs=25.3

Q ss_pred             cccccccccccc-ccCCeeeEecCCCCcccHHHHHH-HH
Q 037626           48 VEEICSICLMEF-EKEDVVSRLTRCCHLFHADCIER-WL   84 (99)
Q Consensus        48 ~~~~C~IC~~~~-~~~~~~~~l~~C~H~fh~~Ci~~-w~   84 (99)
                      ++..|+||.+.+ .++  +...+.|+|.||..|++. |.
T Consensus         2 ee~~C~~C~~~~~~~a--v~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDA--VKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBC--CEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCc--eEECCcCChHHhHHHCHHHhc
Confidence            346799999864 333  223357999999999998 43

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

Probab=96.65  E-value=0.0016  Score=33.52  Aligned_cols=47  Identities=23%  Similarity=0.383  Sum_probs=32.5

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ...+..|.||.+.    ..+...-.|...||..|++..+..   +.-.||.|+.
T Consensus         9 ~~~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~   58 (66)
T 2lri_C            9 LAPGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSG   58 (66)
T ss_dssp             CCTTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTT
T ss_pred             CCCCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccC
Confidence            3445679999753    334345578899999999877653   2236999975

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=96.39  E-value=0.00038  Score=35.55  Aligned_cols=51  Identities=22%  Similarity=0.521  Sum_probs=35.0

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh----cCCCcCccCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD----CNQFTCPVCRS   96 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~----~~~~~CP~CR~   96 (99)
                      ++++..|++|..++.+....+..-.|..-||..|+.--..    .....||.|+.
T Consensus         3 ~~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            3 SGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             CSSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            3455679999998865554445557888999999864321    14457999954

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=95.89  E-value=0.026  Score=30.60  Aligned_cols=51  Identities=20%  Similarity=0.398  Sum_probs=36.5

Q ss_pred             cccccccccccccc---CCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEK---EDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|.||-+++..   ++..+..-.|+--.|+.|.+-=.+..+..||.|++++
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrY   68 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRY   68 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcc
Confidence            44689999999643   3333334467778899999876665555899998764

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=95.48  E-value=0.02  Score=30.23  Aligned_cols=49  Identities=20%  Similarity=0.590  Sum_probs=32.3

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHh----cCCCcCccCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD----CNQFTCPVCRSF   97 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~----~~~~~CP~CR~~   97 (99)
                      +...| ||..+.++....+..-.|..-||..|+.--..    .....||.|+..
T Consensus        11 ~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~   63 (79)
T 1wep_A           11 VPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             CccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccc
Confidence            33456 99988764444445557888899999853211    144579999753

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=95.31  E-value=0.015  Score=29.69  Aligned_cols=36  Identities=25%  Similarity=0.422  Sum_probs=26.1

Q ss_pred             CcccccccccccccccCCeeeEec-CCCCcccHHHHH
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLT-RCCHLFHADCIE   81 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~   81 (99)
                      +.....|++|..++.+++..+..- .|.--||..|..
T Consensus         5 ~~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            5 SDPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ----CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            344567999999988776666666 788889999973

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=95.24  E-value=0.0039  Score=38.33  Aligned_cols=48  Identities=21%  Similarity=0.569  Sum_probs=34.0

Q ss_pred             ccccccccccccCCe---eeEecCCCCcccHHHHHHH------Hh----cCCCcCccCCCC
Q 037626           50 EICSICLMEFEKEDV---VSRLTRCCHLFHADCIERW------LD----CNQFTCPVCRSF   97 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~---~~~l~~C~H~fh~~Ci~~w------~~----~~~~~CP~CR~~   97 (99)
                      ..|+||...+.+++.   .+..-.|..-||..|..--      +.    .....||.|+..
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            469999999987762   4455678999999997321      11    014689999864

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

Probab=94.94  E-value=0.013  Score=29.52  Aligned_cols=49  Identities=16%  Similarity=0.586  Sum_probs=32.7

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRSF   97 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~~   97 (99)
                      +...+..|.+|.+.    ..+...-.|...||..|+..-+..   +.-.||.|++.
T Consensus         7 ~~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            7 ETDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SSCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             cCCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            34556679999873    233344478889999999874332   23369999653

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

Probab=94.76  E-value=0.013  Score=30.65  Aligned_cols=51  Identities=20%  Similarity=0.330  Sum_probs=33.5

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      +..+...|.||..... ++..+..-.|.-.||..|+..-...   ....||.|+.
T Consensus        14 ~~~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~   67 (75)
T 2k16_A           14 WGNQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCAN   67 (75)
T ss_dssp             SSCEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHH
T ss_pred             cCCCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccC
Confidence            3344557999988754 3333345578889999999754332   2346999964

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=94.74  E-value=0.053  Score=30.50  Aligned_cols=48  Identities=23%  Similarity=0.505  Sum_probs=30.7

Q ss_pred             cccccccccccc-----ccCCeeeEecCCCCcccHHHHHH------HHhcCCCcCccCC
Q 037626           48 VEEICSICLMEF-----EKEDVVSRLTRCCHLFHADCIER------WLDCNQFTCPVCR   95 (99)
Q Consensus        48 ~~~~C~IC~~~~-----~~~~~~~~l~~C~H~fh~~Ci~~------w~~~~~~~CP~CR   95 (99)
                      ....|.+|+..-     ..++.+.....|+..||..|+..      ......-.||.|+
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   62 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECK   62 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTC
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCC
Confidence            455799998753     22345556668999999999952      2233333566664

>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=94.46  E-value=0.057  Score=29.00  Aligned_cols=39  Identities=26%  Similarity=0.623  Sum_probs=25.1

Q ss_pred             CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      .+....|+.|.||-.- ...+.. ..--|+-+||..|+++.
T Consensus         9 ~e~~~~D~~C~VC~~~-t~~~l~-pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A            9 REPVVNDEMCDVCEVW-TAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCCSCCCTTTCCC-CSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             ccCCCCCcccCccccc-ccccee-ccccccccccHhhcccc
Confidence            3445577889999633 222111 11148899999999996

>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=94.33  E-value=0.12  Score=27.43  Aligned_cols=40  Identities=20%  Similarity=0.342  Sum_probs=29.6

Q ss_pred             CcccccccccccccccCCeeeEec-CCCCcccHHHHHHHHhc
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDC   86 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~   86 (99)
                      ......|.+|.+.+++..-+ ..| .=+|.||..|-+..++.
T Consensus        12 ~~a~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHH
T ss_pred             CCCeeEeecchhhhccCcee-eCCCccCCeeeccccHHHHHh
Confidence            34456799999999887554 333 12699999999998874

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=94.32  E-value=0.0082  Score=37.40  Aligned_cols=48  Identities=25%  Similarity=0.582  Sum_probs=32.5

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      +...++.|.+|.+.    ..+...-.|...||..|+..-+..   +.-.||.|+.
T Consensus         3 ~d~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~   53 (207)
T 3u5n_A            3 DDPNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRD   53 (207)
T ss_dssp             CCSSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSC
T ss_pred             CCCCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeC
Confidence            34556779999854    234344578899999999765442   2236999975

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=94.26  E-value=0.011  Score=28.75  Aligned_cols=45  Identities=16%  Similarity=0.346  Sum_probs=30.4

Q ss_pred             cccccccccccCCeeeEec-CCCCcccHHHHHHH---HhcCCCcCccCC
Q 037626           51 ICSICLMEFEKEDVVSRLT-RCCHLFHADCIERW---LDCNQFTCPVCR   95 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w---~~~~~~~CP~CR   95 (99)
                      .|.+|..++.+++..+..- .|.--||..|+.--   .......||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            4789988886555554555 58888999997532   122556899985

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=94.11  E-value=0.013  Score=32.86  Aligned_cols=49  Identities=18%  Similarity=0.416  Sum_probs=31.6

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCR   95 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR   95 (99)
                      ..+++.|.||.+.-+.. .+.....|+..||..|+......   ..-.||.|+
T Consensus         4 ~~~~~~C~~C~~~g~~~-~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLL-DQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCCSCBTTTCCCCCTT-TSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCCcCCCCCCCCc-CCeECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            45667899998874322 22344579999999999876532   223466553

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=94.01  E-value=0.0086  Score=30.18  Aligned_cols=49  Identities=20%  Similarity=0.482  Sum_probs=31.7

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRSF   97 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~~   97 (99)
                      +..++..|.+|.+.   + .+...-.|...||..|+..-+..   ..-.||.|+..
T Consensus         5 ~d~~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            5 SDHHMEFCRVCKDG---G-ELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCSSCTTTCCC---S-SCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             ccCCCCcCCCCCCC---C-CEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            34456679999863   2 23233468889999999853332   22359999764

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=93.85  E-value=0.012  Score=35.51  Aligned_cols=49  Identities=22%  Similarity=0.635  Sum_probs=32.7

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHh----cCCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD----CNQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~----~~~~~CP~CR~   96 (99)
                      .+...| +|..+..+.......-.|...||..|+.--..    .....||.|+.
T Consensus         6 ~~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~   58 (174)
T 2ri7_A            6 DTKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS   58 (174)
T ss_dssp             -CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHH
T ss_pred             CCCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcc
Confidence            445578 99988765544445557888999999853211    23457999964

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

Probab=93.68  E-value=0.14  Score=30.19  Aligned_cols=49  Identities=27%  Similarity=0.506  Sum_probs=33.5

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh----------cCCCcCccCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD----------CNQFTCPVCRSF   97 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~----------~~~~~CP~CR~~   97 (99)
                      +...++.|.+|.+-    ..+.-.-.|-..||..|+..-+.          ...-.||.|+..
T Consensus        59 ~Dg~~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~~  117 (142)
T 2lbm_A           59 SDGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHPE  117 (142)
T ss_dssp             TTSCBCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCCC
T ss_pred             CCCCCCeecccCCC----CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccCc
Confidence            45566789999875    33334446888999999996542          133369999753

>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=93.25  E-value=0.19  Score=29.13  Aligned_cols=50  Identities=26%  Similarity=0.513  Sum_probs=32.6

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHH------h----cCCCcCccCCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL------D----CNQFTCPVCRSF   97 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~------~----~~~~~CP~CR~~   97 (99)
                      +++..++.|.||.+.    ..+.-.-.|-..||.+|+..-+      +    ...=.|+.|+..
T Consensus        52 d~Dg~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~~  111 (129)
T 3ql9_A           52 DSDGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPE  111 (129)
T ss_dssp             CTTSCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCCG
T ss_pred             CCCCCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCCH
Confidence            335556679999865    3333334688999999999642      1    123369999753

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=93.21  E-value=0.047  Score=26.19  Aligned_cols=46  Identities=26%  Similarity=0.586  Sum_probs=29.6

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRSF   97 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~~   97 (99)
                      .|.||...-.. +.+...-.|...||..|+..=+..   +.-.||.|+..
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~~   50 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQPA   50 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSCC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCcccc
Confidence            48888876433 333344578889999999753332   22359999753

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=93.14  E-value=0.015  Score=35.54  Aligned_cols=45  Identities=24%  Similarity=0.612  Sum_probs=30.9

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      +++.|.+|.+.   + .+...-.|...||..|+..-+..   +.-.||.|+.
T Consensus         3 ~~~~C~~C~~~---g-~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~   50 (184)
T 3o36_A            3 NEDWCAVCQNG---G-ELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRD   50 (184)
T ss_dssp             SCSSCTTTCCC---S-SCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSC
T ss_pred             CCCccccCCCC---C-eeeecCCCCcccCccccCCCCCCCCCCCEECccccC
Confidence            45679999854   3 23344478889999998765442   2236999975

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=93.11  E-value=0.024  Score=30.65  Aligned_cols=52  Identities=21%  Similarity=0.390  Sum_probs=32.7

Q ss_pred             CCccccccccccccc-ccCCeeeEecCCCCcccHHHHHHHHh-cCCCcCccCCC
Q 037626           45 DSKVEEICSICLMEF-EKEDVVSRLTRCCHLFHADCIERWLD-CNQFTCPVCRS   96 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~-~~~~~~~~l~~C~H~fh~~Ci~~w~~-~~~~~CP~CR~   96 (99)
                      ..+++..|.||.+.- .+++.+...-.|.-.||..|+..-.. .+.-.||.|+.
T Consensus        21 ~~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~   74 (88)
T 2l43_A           21 LIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   74 (88)
T ss_dssp             CCCCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHH
T ss_pred             cCCCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccC
Confidence            345567899998763 23334444557888999999974221 12335888743

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=92.74  E-value=0.043  Score=29.75  Aligned_cols=51  Identities=22%  Similarity=0.486  Sum_probs=34.1

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ......++..|.+|.+.   + .+.....|.-.||..|+..=+..   +.-.||.|+.
T Consensus        18 ~~~~d~n~~~C~vC~~~---g-~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~   71 (88)
T 1fp0_A           18 FGTLDDSATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   71 (88)
T ss_dssp             CCSSSSSSSCCSSSCSS---S-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred             ccccCCCCCcCcCcCCC---C-CEEECCCCCCceecccCCCCCCCCcCCCcCCccccC
Confidence            44555666789999865   2 33344468889999999764432   2235999974

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=92.64  E-value=0.0065  Score=30.04  Aligned_cols=48  Identities=27%  Similarity=0.718  Sum_probs=31.3

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ...++..|.+|.+.    ..+...-.|...||..|+..-+..   ..-.||.|+.
T Consensus         5 ~~~~~~~C~vC~~~----g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            5 SSGHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CCSSCCSCSSSCCS----SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             cCCCCCCCccCCCC----CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            34556679999875    233344478889999999854332   2225888854

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=92.50  E-value=0.03  Score=31.66  Aligned_cols=34  Identities=18%  Similarity=0.419  Sum_probs=23.6

Q ss_pred             ccccccccccc------cCCeeeEecCCCCcccHHHHHHH
Q 037626           50 EICSICLMEFE------KEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        50 ~~C~IC~~~~~------~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +.|.+|+..-.      +++.+.....|+..||..|+...
T Consensus         2 ~~C~~C~~~~~~n~k~g~~~~Li~C~~C~~~~H~~Cl~~~   41 (114)
T 2kwj_A            2 SYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFT   41 (114)
T ss_dssp             CCCSSSCCBTTBCTTTCCCCCCEECSSSCCEECTTTTTCC
T ss_pred             CcCccCCCCccccccCCCCCCCeEeCCCCCccchhhCCCh
Confidence            45899987541      23345555579999999998743

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=92.47  E-value=0.059  Score=29.65  Aligned_cols=45  Identities=20%  Similarity=0.501  Sum_probs=29.6

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~   96 (99)
                      ..| ||......+. .+..-.|.-.||..|+..-...  ....||.|+.
T Consensus        29 vrC-iC~~~~~~~~-mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           29 TRC-ICGFTHDDGY-MICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CCC-TTSCCSCSSC-EEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             EEe-ECCCccCCCc-EEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            457 8987755443 3355578889999998652221  2347999974

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

Probab=92.44  E-value=0.092  Score=28.00  Aligned_cols=36  Identities=17%  Similarity=0.289  Sum_probs=26.7

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +...|.+|...|..-..-...-.||++||..|....
T Consensus        20 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           20 DAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             TCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             CCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            345799999999765443345579999999997653

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

Probab=92.37  E-value=0.083  Score=28.05  Aligned_cols=34  Identities=24%  Similarity=0.513  Sum_probs=25.6

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~   82 (99)
                      ...|.+|...|..-..-...-.||.+||..|...
T Consensus        19 ~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   52 (82)
T 2yw8_A           19 ATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSN   52 (82)
T ss_dssp             CCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCE
T ss_pred             CCcccCcCCcccCccccccCCCCCCEEChHHhCC
Confidence            3469999999976543334558999999999764

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=92.31  E-value=0.063  Score=27.15  Aligned_cols=51  Identities=20%  Similarity=0.501  Sum_probs=33.0

Q ss_pred             Ccccccccccccccc-cCCeeeEecCCCCcccHHHHHHHH------hcCCCcCccCCC
Q 037626           46 SKVEEICSICLMEFE-KEDVVSRLTRCCHLFHADCIERWL------DCNQFTCPVCRS   96 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~-~~~~~~~l~~C~H~fh~~Ci~~w~------~~~~~~CP~CR~   96 (99)
                      +.++..|.||..... +++.+.....|.-.||..|+..-+      ....-.||.|+.
T Consensus         3 ~~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~   60 (66)
T 2yt5_A            3 SGSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVF   60 (66)
T ss_dssp             CCCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcC
Confidence            455678999998643 233444555788999999987532      123336888853

>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=92.27  E-value=0.11  Score=27.99  Aligned_cols=36  Identities=19%  Similarity=0.368  Sum_probs=26.0

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~   82 (99)
                      .+...|.+|...|..-..-...-.||++||..|...
T Consensus         7 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   42 (88)
T 1wfk_A            7 GMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSF   42 (88)
T ss_dssp             CCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCE
T ss_pred             CcCCCCcCcCCcccCccccccCCCCCCEEChhHcCC
Confidence            344579999999876544334557999999998654

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}

Probab=92.24  E-value=0.015  Score=29.97  Aligned_cols=51  Identities=20%  Similarity=0.423  Sum_probs=32.2

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh--cCCCcCccCCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD--CNQFTCPVCRS   96 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~--~~~~~CP~CR~   96 (99)
                      ....+...| ||..+.. ++..+..-.|..-||..|+.--..  .....||.|+.
T Consensus        14 ~~~~~~~~C-iC~~~~~-~~~MIqCd~C~~WfH~~Cvgi~~~~~~~~~~C~~C~~   66 (68)
T 3o70_A           14 LYFQGLVTC-FCMKPFA-GRPMIECNECHTWIHLSCAKIRKSNVPEVFVCQKCRD   66 (68)
T ss_dssp             CTTTTCCCS-TTCCCCT-TCCEEECTTTCCEEETTTTTCCTTSCCSSCCCHHHHT
T ss_pred             CCCCCceEe-ECCCcCC-CCCEEECCCCCccccccccCcCcccCCCcEECCCCCC
Confidence            334445568 9988765 333335556888999999864221  13457998865

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=92.18  E-value=0.03  Score=31.54  Aligned_cols=46  Identities=26%  Similarity=0.545  Sum_probs=30.8

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      .|.||.+.-.+++.+...-.|...||..|+..-+..   +.-.||.||.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            588888753344444445578999999999754432   2236999975

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=91.96  E-value=0.1  Score=29.96  Aligned_cols=35  Identities=20%  Similarity=0.411  Sum_probs=26.2

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      ...|.+|...|..-..-...-.||++||..|....
T Consensus        69 ~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~~  103 (125)
T 1joc_A           69 VQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN  103 (125)
T ss_dssp             CCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             CCCCcCcCCccccccccccCCCCCeEEChHHhCCc
Confidence            35799999998755433345589999999997543

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=91.88  E-value=0.19  Score=27.16  Aligned_cols=36  Identities=19%  Similarity=0.377  Sum_probs=26.7

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +...|.+|...|..-..-.....||++||..|....
T Consensus        19 ~~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~   54 (90)
T 3t7l_A           19 EAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRK   54 (90)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             cCCcCcCCCCcccchhhCccccCCCCEECCcccCCe
Confidence            345799999998755433345589999999997654

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

Probab=91.81  E-value=0.1  Score=27.02  Aligned_cols=33  Identities=18%  Similarity=0.405  Sum_probs=24.9

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~   82 (99)
                      ..|.+|...|..-..-...-.||.+||..|...
T Consensus        12 ~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           12 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             CcccCCCCccCCccccccCCCCCEEEcccccCC
Confidence            479999999876543334457999999999753

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=91.70  E-value=0.23  Score=25.64  Aligned_cols=51  Identities=22%  Similarity=0.417  Sum_probs=32.5

Q ss_pred             CCccccccccccccc-ccCCeeeEecCCCCcccHHHHHHHH-hcCCCcCccCC
Q 037626           45 DSKVEEICSICLMEF-EKEDVVSRLTRCCHLFHADCIERWL-DCNQFTCPVCR   95 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~-~~~~~~~~l~~C~H~fh~~Ci~~w~-~~~~~~CP~CR   95 (99)
                      ...++..|.||.+.- .+++.+...-.|.-.||..|+..-. ..+.-.||.|+
T Consensus        12 ~~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~   64 (71)
T 2ku3_A           12 LIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCL   64 (71)
T ss_dssp             CCCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCc
Confidence            344566799998764 2344444555788999999987422 11233588775

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=91.64  E-value=0.12  Score=25.87  Aligned_cols=42  Identities=26%  Similarity=0.562  Sum_probs=28.8

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      .|--|...+.+.. .-..+.|++.||.+|=.- +...-.+||-|
T Consensus        17 ~C~~C~~~~~~~~-~y~C~~C~~~FC~dCD~f-iHe~Lh~CPgC   58 (59)
T 1z60_A           17 FCYGCQGELKDQH-VYVCAVCQNVFCVDCDVF-VHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEECTTSE-EECCTTTTCCBCHHHHHT-TTTTSCSSSTT
T ss_pred             cccccCcccCCCc-cEECCccCcCcccchhHH-HHhhccCCcCC
Confidence            4999999985432 234678999999999443 22222379988

>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=91.41  E-value=0.28  Score=37.23  Aligned_cols=49  Identities=14%  Similarity=0.050  Sum_probs=39.2

Q ss_pred             CCcccccccccccccccCCeeeEecCCC-CcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCC-HLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~-H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..++-.|||=++.+.+|    +.++-| +++-+..|.+|+..+ .+||.=|+++
T Consensus       887 ~iP~~F~cPIs~~lM~DP----VilpsG~~TydR~~I~~wl~~~-~tdP~Tr~~L  936 (968)
T 3m62_A          887 DVPDEFLDPLMYTIMKDP----VILPASKMNIDRSTIKAHLLSD-STDPFNRMPL  936 (968)
T ss_dssp             CSCGGGBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHHTTC-CBCTTTCCBC
T ss_pred             CCcHHhCCcchhhHHhCC----eEcCCCCEEECHHHHHHHHhcC-CCCCCCCCCC
Confidence            344556799999999988    666677 689999999999854 4999877754

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=91.27  E-value=0.12  Score=27.55  Aligned_cols=34  Identities=18%  Similarity=0.310  Sum_probs=25.0

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~   82 (99)
                      ...|.+|...|..-..-...-.||.+||..|...
T Consensus        14 ~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A           14 FGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             CCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            3479999999865543334457999999999654

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=91.21  E-value=0.09  Score=27.41  Aligned_cols=45  Identities=27%  Similarity=0.613  Sum_probs=29.2

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHH--------hcCCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL--------DCNQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~--------~~~~~~CP~CR~   96 (99)
                      ..| ||......... +..-.|..-||..|+.--.        ......||.|+.
T Consensus        17 ~~C-~C~~~~~~~~M-I~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~   69 (76)
T 1wem_A           17 LYC-ICRQPHNNRFM-ICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             CCS-TTCCCCCSSCE-EECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CEE-ECCCccCCCCE-EEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcC
Confidence            457 89888654333 3445688899999984211        124567999964

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=91.10  E-value=0.16  Score=26.21  Aligned_cols=48  Identities=23%  Similarity=0.589  Sum_probs=28.9

Q ss_pred             CCcccccccccccccccCCeeeEecC--CC-CcccHHHHHHHHhc---CCCcCccCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTR--CC-HLFHADCIERWLDC---NQFTCPVCRSF   97 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~--C~-H~fh~~Ci~~w~~~---~~~~CP~CR~~   97 (99)
                      +..+...| ||..... ++ .+..-.  |. ..||..|+.  +..   +.-.||.|+..
T Consensus        12 d~~~~~~C-~C~~~~~-g~-MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~   65 (71)
T 1wen_A           12 DPNEPTYC-LCHQVSY-GE-MIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQE   65 (71)
T ss_dssp             CTTSCCCS-TTCCCSC-SS-EECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCCCCCEE-ECCCCCC-CC-EeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCcc
Confidence            33444567 8988643 32 222334  55 589999997  332   33469999753

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=90.93  E-value=0.093  Score=30.03  Aligned_cols=46  Identities=20%  Similarity=0.392  Sum_probs=28.2

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      +...|..|...|..-..-...-.||..||..|....... ...|-.|
T Consensus        18 ~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~-vRVC~~C   63 (120)
T 1y02_A           18 LEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNG-PRLCLLC   63 (120)
T ss_dssp             --CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-----CCEEHHH
T ss_pred             ccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCC-ceECHHH
Confidence            345799999998754433345589999999997654432 2245444

>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: g.50.1.1

Probab=90.52  E-value=0.12  Score=30.11  Aligned_cols=35  Identities=11%  Similarity=0.168  Sum_probs=25.9

Q ss_pred             cccccccccccccc-cCCeeeEecCCCCcccHHHHH
Q 037626           47 KVEEICSICLMEFE-KEDVVSRLTRCCHLFHADCIE   81 (99)
Q Consensus        47 ~~~~~C~IC~~~~~-~~~~~~~l~~C~H~fh~~Ci~   81 (99)
                      ..+..|.+|..++. ....-+....|+|.+|..|-.
T Consensus        53 ~~~~~C~~C~~~~g~l~~~g~~C~~C~~~VC~~C~~   88 (134)
T 1zbd_B           53 DGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGV   88 (134)
T ss_dssp             CSSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEE
T ss_pred             CCCccccccCCCcccccCCCCCCCCCCcccccccCC
Confidence            45678999999994 333334666899999999854

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=90.23  E-value=0.15  Score=28.34  Aligned_cols=47  Identities=19%  Similarity=0.459  Sum_probs=31.5

Q ss_pred             ccccccccccccCCeeeEec-CCCCcccHHHHHHHH---h------cCCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWL---D------CNQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~---~------~~~~~CP~CR~   96 (99)
                      ..|+||..++.+.+.....- .|.--||..|+.---   +      .....||.|+.
T Consensus         4 ~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~   60 (105)
T 2xb1_A            4 YPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLK   60 (105)
T ss_dssp             CBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHH
T ss_pred             CCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccC
Confidence            46999999986665554554 688889999974211   0      13346999864

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=89.60  E-value=0.2  Score=27.22  Aligned_cols=45  Identities=22%  Similarity=0.584  Sum_probs=27.4

Q ss_pred             ccccccccccccccCCeeeEecC--CC-CcccHHHHHHHHhc---CCCcCccCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTR--CC-HLFHADCIERWLDC---NQFTCPVCRSF   97 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~--C~-H~fh~~Ci~~w~~~---~~~~CP~CR~~   97 (99)
                      +...| ||..... ++. +..-.  |. ..||..|+.  +..   .+..||.|+..
T Consensus        35 e~~yC-iC~~~~~-g~M-I~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~   85 (91)
T 1weu_A           35 EPTYC-LCHQVSY-GEM-IGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQE   85 (91)
T ss_dssp             CCBCS-TTCCBCC-SCC-CCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCC
T ss_pred             CCcEE-ECCCCCC-CCE-eEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCc
Confidence            34457 9988643 322 22224  55 579999997  332   33469999753

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=89.27  E-value=0.38  Score=24.86  Aligned_cols=29  Identities=14%  Similarity=0.244  Sum_probs=19.7

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHH
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      .....|.-|-+.+... .   +..-+..||.+|
T Consensus        13 ~~~~~C~~C~~~I~~~-~---~~a~~~~~H~~C   41 (79)
T 1x62_A           13 QKLPMCDKCGTGIVGV-F---VKLRDRHRHPEC   41 (79)
T ss_dssp             CCCCCCSSSCCCCCSS-C---EECSSCEECTTT
T ss_pred             CCCCccccCCCCccCc-E---EEECcceeCcCc
Confidence            4456799999988753 2   223567888877

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=89.24  E-value=0.24  Score=25.47  Aligned_cols=51  Identities=18%  Similarity=0.275  Sum_probs=32.7

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh---cCCCcCccCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD---CNQFTCPVCRS   96 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~---~~~~~CP~CR~   96 (99)
                      +......| ||..+..+++..+..-.|..-||..|+.--..   .....||.|+.
T Consensus        12 ~~~~~~~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~   65 (72)
T 1wee_A           12 VDNWKVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE   65 (72)
T ss_dssp             SCSSEECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHH
T ss_pred             CCCcceEe-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccC
Confidence            34445578 79887655544445557888899999864321   13457998854

>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1

Probab=88.69  E-value=0.17  Score=31.62  Aligned_cols=34  Identities=21%  Similarity=0.592  Sum_probs=26.1

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIER   82 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~   82 (99)
                      +..|.+|...|..-..-...-.||+.||..|...
T Consensus       161 ~~~C~~C~~~F~~~~rrhhCr~CG~v~C~~Cs~~  194 (220)
T 1dvp_A          161 GRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK  194 (220)
T ss_dssp             CSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCccCCCCCccCCcccccccCCcCCEEChHHhCC
Confidence            4689999999875544345558999999999754

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=88.54  E-value=0.52  Score=24.54  Aligned_cols=40  Identities=20%  Similarity=0.508  Sum_probs=25.8

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      ......|+-|-+.+.+.+.+.   .=+..||.+|         ++|-.|+.+
T Consensus        12 ~~~~~~C~~C~~~I~~~~~v~---a~~~~wH~~C---------F~C~~C~~~   51 (80)
T 2dj7_A           12 IRGPSHCAGCKEEIKHGQSLL---ALDKQWHVSC---------FKCQTCSVI   51 (80)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEE---ETTEEECTTT---------CBCSSSCCB
T ss_pred             CCCCCCCcCcCCeeCCCeEEE---ECCccccccc---------CCcCcCCCC
Confidence            344567999999887665443   2456788777         356666554

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B

Probab=87.94  E-value=0.1  Score=26.90  Aligned_cols=46  Identities=26%  Similarity=0.569  Sum_probs=28.2

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhc---C-CCcCccCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---N-QFTCPVCRSF   97 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~-~~~CP~CR~~   97 (99)
                      .|.||...-.. +.+...-.|...||..|+..=+..   + .=.||.|+..
T Consensus        20 ~C~~C~~~~~~-~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~~   69 (70)
T 3asl_A           20 ACHLCGGRQDP-DKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND   69 (70)
T ss_dssp             SBTTTCCCSCG-GGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSCC
T ss_pred             CCcCCCCcCCC-CCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccCc
Confidence            46677754222 333344478899999999853332   2 3369999753

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=87.80  E-value=0.5  Score=29.72  Aligned_cols=35  Identities=20%  Similarity=0.536  Sum_probs=26.6

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +..|.+|...|..-..-.....||+.||..|....
T Consensus       164 ~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~~  198 (226)
T 3zyq_A          164 AEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKY  198 (226)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCEE
T ss_pred             CCCCcCcCCCCCccccccccCCCcCEeChhhcCCc
Confidence            45899999998765443455689999999997643

>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His protein, LIM and senescent cell antigen-like domains 1, structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=87.60  E-value=0.78  Score=23.70  Aligned_cols=38  Identities=24%  Similarity=0.475  Sum_probs=22.4

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ....|+-|.+.+... .   +..-+..||.+|         ++|-.|+.++
T Consensus        14 ~~~~C~~C~~~I~~~-~---v~a~~~~~H~~C---------F~C~~C~~~L   51 (79)
T 2cor_A           14 GKYICQKCHAIIDEQ-P---LIFKNDPYHPDH---------FNCANCGKEL   51 (79)
T ss_dssp             CCCBCTTTCCBCCSC-C---CCCSSSCCCTTT---------SBCSSSCCBC
T ss_pred             CCCCCccCCCEecce-E---EEECcceeCCCC---------CEeCCCCCcc
Confidence            345688888877732 2   223566777766         3566665543

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.56  E-value=0.11  Score=27.33  Aligned_cols=45  Identities=24%  Similarity=0.601  Sum_probs=29.1

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhc---C-CCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---N-QFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~-~~~CP~CR~   96 (99)
                      .|.||...-.. +.+...-.|...||..|+..=+..   + .=.||.|+.
T Consensus        28 ~C~vC~~~~~~-~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   76 (77)
T 2e6s_A           28 SCRVCGGKHEP-NMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT   76 (77)
T ss_dssp             SCSSSCCCCCS-TTEEECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTCC
T ss_pred             CCcCcCCcCCC-CCEEEcCCCCccccccccCCCccCCCCCCCcCCcCccC
Confidence            68888865333 333344478899999999853332   2 236999975

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=87.30  E-value=0.84  Score=23.76  Aligned_cols=31  Identities=19%  Similarity=0.535  Sum_probs=21.4

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHH
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ......|.-|.+.+...+.+.   .=+..||.+|
T Consensus        12 ~~~~~~C~~C~~~I~~~e~v~---a~~~~wH~~C   42 (82)
T 2co8_A           12 AGAGDLCALCGEHLYVLERLC---VNGHFFHRSC   42 (82)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCC---BTTBCCBTTT
T ss_pred             CCCCCCCcccCCCcccceEEE---ECCCeeCCCc
Confidence            344567999999986655443   2466788887

>3c6w_A P28ING5, inhibitor of growth protein 5; chromatin, PHD, ING, epigenetics, alternative splicing, metal-binding, phosphoprotein, zinc; HET: M3L; 1.75A {Homo sapiens} PDB: 2pnx_A*

Probab=86.80  E-value=0.12  Score=25.70  Aligned_cols=45  Identities=22%  Similarity=0.578  Sum_probs=27.3

Q ss_pred             cccccccccccccccCCeeeEecC--CC-CcccHHHHHHHHhc---CCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTR--CC-HLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~--C~-H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      .+...| ||.+.. .+ ..+..-.  |. ..||..|+.  +..   ++-.||.|++
T Consensus         7 ~e~~yC-~C~~~~-~g-~mi~CD~~~C~~~wfH~~Cvg--l~~~p~~~w~Cp~C~~   57 (59)
T 3c6w_A            7 NEPTYC-LCHQVS-YG-EMIGCDNPDCPIEWFHFACVD--LTTKPKGKWFCPRCVQ   57 (59)
T ss_dssp             -CCEET-TTTEEC-CS-EEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHC
T ss_pred             CCCcEE-ECCCCC-CC-CeeEeeCCCCCCCCEecccCC--cccCCCCCEECcCccC
Confidence            344557 898864 23 2333335  65 589999998  332   2346998864

>2vnf_A ING 4, P29ING4, inhibitor of growth protein 4; acetylation, alternative splicing, anti-oncogene, cell cycle, coiled C nucleus, zinc, zinc-finger, ING4; HET: M3L; 1.76A {Homo sapiens} SCOP: g.50.1.2 PDB: 2k1j_A 2jmq_A 2qic_A*

Probab=86.53  E-value=0.12  Score=25.78  Aligned_cols=45  Identities=22%  Similarity=0.585  Sum_probs=26.5

Q ss_pred             cccccccccccccccCCeeeEecC--CC-CcccHHHHHHHHhc---CCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTR--CC-HLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~--C~-H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      .+...| ||..... + ..+..-.  |. ..||..|+.  +..   +.-.||.|++
T Consensus         8 ~e~~~C-~C~~~~~-g-~mi~CD~cdC~~~wfH~~Cvg--l~~~p~g~w~C~~C~~   58 (60)
T 2vnf_A            8 NEPTYC-LCHQVSY-G-EMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQ   58 (60)
T ss_dssp             -CCEET-TTTEECC-S-EEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHC
T ss_pred             CCCCEE-ECCCcCC-C-CEEEeCCCCCCCceEehhcCC--CCcCCCCCEECcCccC
Confidence            334457 8988632 3 2323334  55 579999997  332   3346998864

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=86.29  E-value=1.3  Score=23.38  Aligned_cols=29  Identities=21%  Similarity=0.430  Sum_probs=18.4

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHH
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ....|.-|-+.+.+.+.+.   .-+..||.+|
T Consensus        14 ~~~~C~~C~~~I~~~~~v~---a~~~~~H~~C   42 (91)
T 2d8y_A           14 ARETCVECQKTVYPMERLL---ANQQVFHISC   42 (91)
T ss_dssp             SSCBCTTTCCBCCTTSEEE---CSSSEEETTT
T ss_pred             CCCcCccCCCccCCceeEE---ECCCEECCCC
Confidence            3456888888877655432   3456677666

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=86.09  E-value=0.1  Score=32.03  Aligned_cols=44  Identities=25%  Similarity=0.620  Sum_probs=28.9

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ++.|.+|.+.   + .+.....|...||..|+..=+..   +.-.||.|+.
T Consensus         2 ~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~   48 (189)
T 2ro1_A            2 ATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   48 (189)
T ss_dssp             CCCBTTTCCC---S-SCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSC
T ss_pred             CCcCccCCCC---C-ceeECCCCCchhccccCCCCcccCCCCCCCCcCccC
Confidence            4569999855   2 23234467889999999754332   2336999975

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*

Probab=85.88  E-value=0.44  Score=26.63  Aligned_cols=46  Identities=20%  Similarity=0.440  Sum_probs=27.4

Q ss_pred             CCCcccccccccccccccCCeeeEec--CCCCcccHHHHHHHHhc---CCCcCccCC
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLT--RCCHLFHADCIERWLDC---NQFTCPVCR   95 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~--~C~H~fh~~Ci~~w~~~---~~~~CP~CR   95 (99)
                      .+..+++.|.+|.+.    ..+...-  .|-..||..|+.  +..   +.-.||.|+
T Consensus        10 ~~~~~~~~C~~C~~~----G~ll~CD~~~Cp~~fH~~Cl~--L~~~P~g~W~Cp~c~   60 (107)
T 4gne_A           10 PKQMHEDYCFQCGDG----GELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQ   60 (107)
T ss_dssp             CCCSSCSSCTTTCCC----SEEEECCSTTCCCEECTGGGT--CSSCCSSCCCCGGGB
T ss_pred             CcCCCCCCCCcCCCC----CcEeEECCCCCCcccccccCc--CCcCCCCCEECCCCC
Confidence            334556679999842    2332332  477899999997  332   122477654

>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural genomics consortium, DH domain, SGC, L binding protein; 2.80A {Homo sapiens}

Probab=85.85  E-value=0.15  Score=34.70  Aligned_cols=48  Identities=15%  Similarity=0.268  Sum_probs=0.0

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhc------CCCcCccCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC------NQFTCPVCRS   96 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~------~~~~CP~CR~   96 (99)
                      ...|.+|..+|..-..-.....||+.||..|.......      ....|-.|-.
T Consensus       375 ~~~c~~c~~~f~~~~r~h~Cr~Cg~~~C~~Cs~~~~~~~~~~~~~~rvC~~C~~  428 (434)
T 3mpx_A          375 VMMCMNCGCDFSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKDRMAKVCDGCFG  428 (434)
T ss_dssp             ------------------------------------------------------
T ss_pred             CCcCCCcCCCCCCcchhhhcccCcCEeehhhCCCeeeCCCCCCCcCEecHHHHH
Confidence            45799999998754333344579999999999765421      1235777744

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.82  E-value=0.34  Score=26.23  Aligned_cols=54  Identities=22%  Similarity=0.359  Sum_probs=33.4

Q ss_pred             CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ......++..|.||...-.. +.+...-.|...||..|+..=+..   ..-.||.|+.
T Consensus         9 s~~~~~~~~~C~vC~~~~~~-~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~   65 (92)
T 2e6r_A            9 SSAQFIDSYICQVCSRGDED-DKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL   65 (92)
T ss_dssp             CCCCCCCCCCCSSSCCSGGG-GGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHH
T ss_pred             chhhccCCCCCccCCCcCCC-CCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcC
Confidence            33444556679999987432 333344578889999998743221   2225888853

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=85.29  E-value=0.35  Score=24.43  Aligned_cols=47  Identities=23%  Similarity=0.507  Sum_probs=30.2

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ..++..|.||.+.   + .+...-.|...||..|+..-+..   +.-.||.|+.
T Consensus         5 ~~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            5 QKNEDECAVCRDG---G-ELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             CSCCCSBSSSSCC---S-SCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCccCCCC---C-CEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            3456779999864   2 33344468889999999853321   2225888843

>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM domain 3, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=84.96  E-value=1.4  Score=23.19  Aligned_cols=38  Identities=21%  Similarity=0.460  Sum_probs=24.3

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF   97 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~   97 (99)
                      .....|.-|.+.+... .   +..-+..||.+|         ++|-.|+.+
T Consensus        23 ~~~~~C~~C~~~I~~~-~---~~a~~~~~H~~C---------F~C~~C~~~   60 (89)
T 1x64_A           23 QRMPLCDKCGSGIVGA-V---VKARDKYRHPEC---------FVCADCNLN   60 (89)
T ss_dssp             CSCCBCTTTCCBCCSC-C---EESSSCEECTTT---------CCCSSSCCC
T ss_pred             CcCCCcccCCCEeccc-E---EEECCceECccC---------CEecCCCCC
Confidence            3345799999988752 2   223567888887         346566554

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=84.92  E-value=0.23  Score=26.72  Aligned_cols=48  Identities=19%  Similarity=0.476  Sum_probs=31.1

Q ss_pred             cccccccccccccc-CCeeeEecCCCCcccHHHHHHHHh-------cCCCcCccCC
Q 037626           48 VEEICSICLMEFEK-EDVVSRLTRCCHLFHADCIERWLD-------CNQFTCPVCR   95 (99)
Q Consensus        48 ~~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~w~~-------~~~~~CP~CR   95 (99)
                      .+..|.+|...-.. ++.+...-.|...||..|+..-+.       ...-.||.|+
T Consensus        15 ~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~   70 (88)
T 1wev_A           15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCT   70 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHH
T ss_pred             CCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCcccc
Confidence            44579999986432 234444557889999999875432       1223588774

>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB, RAB27B, effector, SLP homology domain, acetylation, lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}

Probab=84.27  E-value=0.77  Score=27.28  Aligned_cols=33  Identities=18%  Similarity=0.428  Sum_probs=24.6

Q ss_pred             ccccccccccccccC-CeeeEecCCCCcccHHHH
Q 037626           48 VEEICSICLMEFEKE-DVVSRLTRCCHLFHADCI   80 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci   80 (99)
                      .+..|.+|..+|.-- +.-.....|+|.+|..|-
T Consensus        67 ~~~~C~~C~~~fg~l~~~g~~C~~C~~~VC~~C~  100 (153)
T 2zet_C           67 NETHCARCLQPYRLLLNSRRQCLECSLFVCKSCS  100 (153)
T ss_dssp             GGTBCTTTCCBGGGCSSCCEECTTTCCEECGGGE
T ss_pred             CCccchhhcCccccccCCCCcCCCCCchhhcccc
Confidence            567899999987532 223355689999999997

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=84.14  E-value=0.46  Score=23.45  Aligned_cols=46  Identities=26%  Similarity=0.716  Sum_probs=29.9

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ..+..|.+|.+.   + .+...-.|...||..|+..-+..   +.-.||.|+.
T Consensus         3 ~~~~~C~vC~~~---g-~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~   51 (60)
T 2puy_A            3 IHEDFCSVCRKS---G-QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   51 (60)
T ss_dssp             CCCSSCTTTCCC---S-SCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHH
T ss_pred             CCCCCCcCCCCC---C-cEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccC
Confidence            346679999874   2 33344478889999999853331   2235888853

>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=84.05  E-value=1  Score=22.92  Aligned_cols=28  Identities=21%  Similarity=0.284  Sum_probs=18.3

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ...|+.|-+.+.+.+.+.   .-+..||.+|
T Consensus         9 ~~~C~~C~~~I~~~~~v~---a~~~~~H~~C   36 (76)
T 2cu8_A            9 ASKCPKCDKTVYFAEKVS---SLGKDWHKFC   36 (76)
T ss_dssp             CCBCTTTCCBCCTTTEEE---ETTEEEETTT
T ss_pred             CCCCcCCCCEeECCeEEE---ECCeEeeCCC
Confidence            346888888887655442   2456777776

>2o35_A Hypothetical protein DUF1244; helix bundle, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.12A {Sinorhizobium meliloti} SCOP: a.293.1.1

Probab=83.97  E-value=0.5  Score=26.07  Aligned_cols=11  Identities=27%  Similarity=1.090  Sum_probs=10.3

Q ss_pred             ccHHHHHHHHh
Q 037626           75 FHADCIERWLD   85 (99)
Q Consensus        75 fh~~Ci~~w~~   85 (99)
                      ||+.|+..|..
T Consensus        43 FCRNCLskWy~   53 (105)
T 2o35_A           43 FCRNCLSNWYR   53 (105)
T ss_dssp             CCHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999986

>3kqi_A GRC5, PHD finger protein 2; metal-binding, zinc-finger, histone-binding, NUC protein; HET: M3L; 1.78A {Homo sapiens} SCOP: g.50.1.2

Probab=83.84  E-value=1.2  Score=22.93  Aligned_cols=45  Identities=18%  Similarity=0.600  Sum_probs=29.3

Q ss_pred             ccccccccccCCeeeEecCCCCcccHHHHHHHHh----cCCCcCccCCC
Q 037626           52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD----CNQFTCPVCRS   96 (99)
Q Consensus        52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~----~~~~~CP~CR~   96 (99)
                      --||..++..+...+..-.|.--||..|+.---.    .....||.|+.
T Consensus        12 yCiC~~~~~~~~~MI~Cd~C~~WfH~~Cvg~~~~~~~~~~~~~C~~C~~   60 (75)
T 3kqi_A           12 YCVCRLPYDVTRFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEK   60 (75)
T ss_dssp             ETTTTEECCTTSCEEECTTTCCEEEHHHHTCCTTTGGGBSSCCCHHHHH
T ss_pred             EEECCCcCCCCCCEEEcCCCCCCEecccccccccccCCCCEEECCCCcc
Confidence            3489887654444445557888899999954321    13457998853

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

Probab=83.82  E-value=1.8  Score=29.41  Aligned_cols=47  Identities=23%  Similarity=0.398  Sum_probs=29.7

Q ss_pred             cccccccccccccCCeeeEecCCCCc--ccHHHHHHHHh-cCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL--FHADCIERWLD-CNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~--fh~~Ci~~w~~-~~~~~CP~CR~~~   98 (99)
                      ...||+=...+..|  + +-..|.|.  |-..=+..... ...-.||+|.+.+
T Consensus       249 SL~CPlS~~ri~~P--v-Rg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~  298 (371)
T 3i2d_A          249 SLQCPISYTRMKYP--S-KSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDI  298 (371)
T ss_dssp             ESBCTTTSSBCSSE--E-EETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBC
T ss_pred             eecCCCcccccccc--C-cCCcCCCcceECHHHHHHHhhcCCceeCCCCCccc
Confidence            34699888887765  3 33369998  54443333332 3445799998754

>3fyb_A Protein of unknown function (DUF1244); hydrocar degrading, structural genomics, PSI-2; HET: PEG; 1.80A {Alcanivorax borkumensis SK2}

Probab=83.73  E-value=0.52  Score=25.96  Aligned_cols=11  Identities=36%  Similarity=1.195  Sum_probs=10.3

Q ss_pred             ccHHHHHHHHh
Q 037626           75 FHADCIERWLD   85 (99)
Q Consensus        75 fh~~Ci~~w~~   85 (99)
                      ||+.|+..|..
T Consensus        42 FCRNCLskWy~   52 (104)
T 3fyb_A           42 FCRNCLAKWLM   52 (104)
T ss_dssp             CCHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999986

>2g6q_A Inhibitor of growth protein 2; protein-peptide complex, gene regulation, apoptosis; HET: M3L; 2.00A {Mus musculus}

Probab=83.65  E-value=0.23  Score=24.97  Aligned_cols=45  Identities=24%  Similarity=0.647  Sum_probs=26.9

Q ss_pred             cccccccccccccccCCeeeEecC--CC-CcccHHHHHHHHhc---CCCcCccCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTR--CC-HLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~--C~-H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      .+...| +|.... .++ .+..-.  |. ..||..|+.  +..   ++-.||.|+.
T Consensus         9 ~e~~yC-~C~~~~-~g~-MI~CD~c~C~~~WfH~~Cvg--l~~~p~~~w~Cp~C~~   59 (62)
T 2g6q_A            9 NEPTYC-LCNQVS-YGE-MIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRG   59 (62)
T ss_dssp             -CCEET-TTTEEC-CSE-EEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHT
T ss_pred             CCCcEE-ECCCCC-CCC-eeeeeCCCCCcccEecccCC--cCcCCCCCEECcCccc
Confidence            344557 898863 332 323334  54 789999987  222   3346999864

>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3

Probab=83.53  E-value=0.51  Score=24.08  Aligned_cols=40  Identities=8%  Similarity=0.022  Sum_probs=21.7

Q ss_pred             cccccccccccCCeeeEecCCCCcccH-HHHHHHHhcCCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHA-DCIERWLDCNQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~-~Ci~~w~~~~~~~CP~CR~   96 (99)
                      .|..|...+......  . .=|..||. .|..+.+.   ..|-.|..
T Consensus        29 ~C~~C~~~L~~~~~~--~-~~g~~yC~~~cy~~~f~---~~C~~C~~   69 (76)
T 1iml_A           29 KCEKCGKTLTSGGHA--E-HEGKPYCNHPCYSAMFG---PKGFGRGG   69 (76)
T ss_dssp             BCTTTCCBCCTTTEE--E-ETTEEEETTTHHHHHSS---CCCSSCCC
T ss_pred             CccccCccCCCCceE--C-cCCeEeeCHHHHHHHhC---ccCCCcCC
Confidence            577777776654321  1 23556777 57655332   25666654

>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82

Probab=83.12  E-value=0.18  Score=28.12  Aligned_cols=25  Identities=24%  Similarity=0.703  Sum_probs=15.6

Q ss_pred             ecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           68 LTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        68 l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...||+.|.    +. +. ....||.|+...
T Consensus        70 C~~CG~~F~----~~-~~-kPsrCP~CkSe~   94 (105)
T 2gmg_A           70 CRKCGFVFK----AE-IN-IPSRCPKCKSEW   94 (105)
T ss_dssp             BTTTCCBCC----CC-SS-CCSSCSSSCCCC
T ss_pred             hhhCcCeec----cc-CC-CCCCCcCCCCCc
Confidence            347999991    11 11 334799998753

>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.72  E-value=1.2  Score=22.60  Aligned_cols=29  Identities=21%  Similarity=0.527  Sum_probs=17.5

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ...|+-|.+.+...+.+...  =|..||.+|
T Consensus        11 ~~~C~~C~~~I~~~~~~~~a--~~~~~H~~C   39 (77)
T 1g47_A           11 SATCERCKGGFAPAEKIVNS--NGELYHEQC   39 (77)
T ss_dssp             CCBCSSSCCBCCSTTTCEEE--TTEEECTTT
T ss_pred             CCCchhcCCccCCCceEEEe--CccEecccc
Confidence            45688888887654433222  355677666

>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3, LIM-domain protein DRAL, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.45  E-value=1.4  Score=21.85  Aligned_cols=10  Identities=20%  Similarity=0.418  Sum_probs=5.2

Q ss_pred             cccccccccc
Q 037626           51 ICSICLMEFE   60 (99)
Q Consensus        51 ~C~IC~~~~~   60 (99)
                      .|+-|.+.+.
T Consensus         7 ~C~~C~~~I~   16 (70)
T 2d8z_A            7 GCVQCKKPIT   16 (70)
T ss_dssp             BCSSSCCBCC
T ss_pred             CCcccCCeec
Confidence            3555555554

>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=82.24  E-value=2.3  Score=28.80  Aligned_cols=47  Identities=26%  Similarity=0.504  Sum_probs=30.0

Q ss_pred             cccccccccccccCCeeeEecCCCCc--ccHHHHHHHHh-cCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHL--FHADCIERWLD-CNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~--fh~~Ci~~w~~-~~~~~CP~CR~~~   98 (99)
                      ...||+=...+..|  . +-..|.|.  |-..=+-.... ...-.||+|.+.+
T Consensus       215 SL~CPlS~~ri~~P--~-Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~  264 (360)
T 4fo9_A          215 SLMCPLGKMRLTIP--C-RAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKA  264 (360)
T ss_dssp             ESBCTTTCSBCSSE--E-EETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBC
T ss_pred             eeeCCCccceeccC--C-cCCCCCCCccCCHHHHHHHHhhCCCeECCCCCccc
Confidence            44699888887665  3 33369998  55444443333 3445799998764

>3a1b_A DNA (cytosine-5)-methyltransferase 3A, histone H3; zinc-finger, histone binding, chromosomal protein, DNA damag repair, DNA-binding, methylation; HET: DNA; 2.29A {Homo sapiens} PDB: 3a1a_A*

Probab=82.15  E-value=1.6  Score=26.11  Aligned_cols=36  Identities=22%  Similarity=0.595  Sum_probs=24.9

Q ss_pred             CcccccccccccccccCCeeeEec--CCCCcccHHHHHHHHh
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLT--RCCHLFHADCIERWLD   85 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~--~C~H~fh~~Ci~~w~~   85 (99)
                      +..+..|.||-+.    ..+....  .|...||.+||..++.
T Consensus        76 DG~~~yC~wC~~G----g~l~~Cdn~~C~r~FC~~CI~~nvG  113 (159)
T 3a1b_A           76 DGYQSYCTICCGG----REVLMCGNNNCCRCFCVECVDLLVG  113 (159)
T ss_dssp             TSSBSSCTTTSCC----SEEEECSSTTTCCEEEHHHHHHHTC
T ss_pred             CCCcceeeEecCC----CeEEeeCCCCCCCchhHHHHHHhcC
Confidence            3445579998764    3333333  5888999999999875

>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=81.30  E-value=1.8  Score=21.60  Aligned_cols=27  Identities=22%  Similarity=0.327  Sum_probs=13.0

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHH
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      .|.-|.+.+.+.+..  +..=+..||.+|
T Consensus         7 ~C~~C~~~I~~~~~~--~~a~~~~~H~~C   33 (72)
T 1wyh_A            7 GCSACGETVMPGSRK--LEYGGQTWHEHC   33 (72)
T ss_dssp             BCSSSCCBCCSSSCE--ECSTTCCEETTT
T ss_pred             CCccCCCccccCccE--EEECccccCccc
Confidence            466666665543221  112345566555

>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B

Probab=80.83  E-value=1.7  Score=21.36  Aligned_cols=26  Identities=23%  Similarity=0.482  Sum_probs=15.0

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHH
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ..|+-|.+.+. ++.   +..=|..||.+|
T Consensus         6 ~~C~~C~~~I~-~~~---~~a~~~~~H~~C   31 (66)
T 1nyp_A            6 PICGACRRPIE-GRV---VNAMGKQWHVEH   31 (66)
T ss_dssp             CEETTTTEECC-SCE---ECCTTSBEETTT
T ss_pred             CCCcccCCEec-ceE---EEECccccccCc
Confidence            45777777766 322   223456677666

>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=80.77  E-value=0.2  Score=22.17  Aligned_cols=17  Identities=24%  Similarity=0.483  Sum_probs=12.1

Q ss_pred             ccccccccccccccCCe
Q 037626           48 VEEICSICLMEFEKEDV   64 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~   64 (99)
                      +.-.||+|+..+.+++.
T Consensus         4 EGFiCP~C~~~l~s~~~   20 (34)
T 3mjh_B            4 EGFICPQCMKSLGSADE   20 (34)
T ss_dssp             EEEECTTTCCEESSHHH
T ss_pred             cccCCcHHHHHcCCHHH
Confidence            34579999988876543

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens}

Probab=80.76  E-value=0.21  Score=26.25  Aligned_cols=45  Identities=27%  Similarity=0.609  Sum_probs=27.5

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CC-CcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQ-FTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~-~~CP~CR~   96 (99)
                      .|.+|...-.. +.+...-.|...||..|+..-+..   .. =.||.|++
T Consensus        28 ~C~vC~~~~d~-~~ll~CD~C~~~yH~~Cl~PpL~~~P~g~~W~C~~C~~   76 (77)
T 3shb_A           28 ACHLCGGRQDP-DKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   76 (77)
T ss_dssp             SBTTTCCCSCG-GGEEECTTTCCEEETTTSSSCCSSCCSSSCCCCTTTC-
T ss_pred             cCCccCCCCCC-cceeEeCCCCCccCcccCCCcccCCCCCCceECcCccc
Confidence            46666655332 333344478899999999864432   22 36999976

>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=80.49  E-value=1.2  Score=23.51  Aligned_cols=27  Identities=11%  Similarity=0.290  Sum_probs=17.3

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ...|+-|-+.+.. +.+   ..-+..||.+|
T Consensus        25 ~~~C~~C~~~I~~-~~v---~a~~~~~H~~C   51 (90)
T 2dar_A           25 TPMCAHCNQVIRG-PFL---VALGKSWHPEE   51 (90)
T ss_dssp             CCBBSSSCCBCCS-CEE---EETTEEECTTT
T ss_pred             CCCCccCCCEecc-eEE---EECCccccccC
Confidence            3469999888853 222   23467788777

>3o7a_A PHD finger protein 13 variant; PHF13, zinc finger, PHD domain, nuclear protein, structural structural genomics consortium, SGC, protein binding; HET: M3L; 1.67A {Homo sapiens}

Probab=80.29  E-value=0.16  Score=24.46  Aligned_cols=42  Identities=21%  Similarity=0.544  Sum_probs=26.2

Q ss_pred             ccccccccCCeeeEecCCCCcccHHHHHHHHh--cCCCcCccCCC
Q 037626           54 ICLMEFEKEDVVSRLTRCCHLFHADCIERWLD--CNQFTCPVCRS   96 (99)
Q Consensus        54 IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~--~~~~~CP~CR~   96 (99)
                      ||..+.. +...+..-.|+.-||..|+.--..  .....||.|+.
T Consensus         8 ~C~~~~~-~~~MI~Cd~C~~W~H~~Cvgi~~~~~~~~~~C~~C~~   51 (52)
T 3o7a_A            8 FCMKPFA-GRPMIECNECHTWIHLSCAKIRKSNVPEVFVCQKCRD   51 (52)
T ss_dssp             TTCCBCT-TCCEEECTTTCCEEETTTTTCCGGGCCSSCCCHHHHT
T ss_pred             EeCCcCC-CCCEEEcCCCCccccccccCCCcccCCCcEECcCCCC
Confidence            6766544 323334446888899999864322  14457999875

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4

Probab=80.18  E-value=0.86  Score=19.38  Aligned_cols=27  Identities=19%  Similarity=0.347  Sum_probs=19.5

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHH
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      +.|+.|....-..+.+.   .=|..||..|
T Consensus         4 ~~C~~C~k~Vy~~Ek~~---~~g~~~Hk~C   30 (31)
T 1zfo_A            4 PNCARCGKIVYPTEKVN---CLDKFWHKAC   30 (31)
T ss_dssp             CBCSSSCSBCCGGGCCC---SSSSCCCGGG
T ss_pred             CcCCccCCEEecceeEE---ECCeEecccC
Confidence            46999998876665443   3577899887

---

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	99
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	9e-10
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	3e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-08
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	7e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	8e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	7e-04

>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 = 52.2 bits (125), Expect = 2e-11
 Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
             C++CL E E  +    L RC H FHA+C++ WL  +  TCP+CR 
Sbjct: 5  GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS-TCPLCRL 51

>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 = 48.5 bits (115), Expect = 9e-10
 Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 39 YQPEAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          Y+   E     ++C IC    +      ++  C HL    C+  W +     CP CR 
Sbjct: 13 YELYCEMGSTFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRC 66

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.4 bits (104), Expect = 3e-08
 Identities = 8/49 (16%), Positives = 16/49 (32%), Gaps = 1/49 (2%)

Query: 49 EEICSICLMEFEK-EDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
          ++ C  C     +   +   +  C H     C++         CP C +
Sbjct: 3  DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGT 51

>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 = 45.4 bits (106), Expect = 3e-08
 Identities = 19/73 (26%), Positives = 25/73 (34%), Gaps = 18/73 (24%)

Query: 42 EAEDSKVEEICSICL--------------MEFEKEDVVSRLTRCCHLFHADCIERWLDCN 87
          E      EE C IC+               +     VV RLT+C H FH  C+       
Sbjct: 18 EELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNG 77

Query: 88 Q----FTCPVCRS 96
                 CP C++
Sbjct: 78 NKDGSLQCPSCKT 90

>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 = 44.2 bits (104), Expect = 4e-08
 Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 4/50 (8%)

Query: 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
          + V E C ICL +     +      C H F   CI RW+  N  TCP+C+
Sbjct: 2  ATVAERCPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNP-TCPLCK 47

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 5e-08
 Identities = 11/47 (23%), Positives = 17/47 (36%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98
          C +C+   E +D+      C +     C  R        CP CR  +
Sbjct: 3  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.7 bits (95), Expect = 1e-06
 Identities = 16/45 (35%), Positives = 16/45 (35%), Gaps = 4/45 (8%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95
           C IC             T C HLF   CI R L      CP CR
Sbjct: 25 SCQICEHILADPVE----TSCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 40.5 bits (94), Expect = 2e-06
 Identities = 15/62 (24%), Positives = 19/62 (30%), Gaps = 15/62 (24%)

Query: 49 EEICSICLMEFEKEDVVS--------------RLTRCCHLFHADCIERWLDCNQFTCPVC 94
           + C+IC        +                    C H FH  CI RWL   Q  CP+ 
Sbjct: 21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLD 79

Query: 95 RS 96
            
Sbjct: 80 NR 81

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

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

 Score = 38.3 bits (88), Expect = 7e-06
 Identities = 11/52 (21%), Positives = 16/52 (30%), Gaps = 2/52 (3%)

Query: 49 EEICSICLMEFEKEDVVSRLTRCC-HLFHADCIERWLD-CNQFTCPVCRSFF 98
            +C IC  E   E   +          H  C+  WL       C +C   +
Sbjct: 6  VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY 57

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.4 bits (84), Expect = 2e-05
 Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 8/46 (17%)

Query: 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96
           C  C  E +      +L  C H   + C+E         CP+C++
Sbjct: 8  RCQQCQAEAKC----PKLLPCLHTLCSGCLEAS----GMQCPICQA 45

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 4e-05
 Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 6/47 (12%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRS 96
          C ICL   ++       T+C H+F   C+ + L+       CP+C++
Sbjct: 24 CPICLELIKE----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKN 66

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 8e-05
 Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 3/48 (6%)

Query: 44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTC 91
          +  +    CS C     +      L  C H+F ++C+   +      C
Sbjct: 17 DRLEKLLRCSRCTNILREPVC---LGGCEHIFCSNCVSDCIGTGCPVC 61

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.5 bits (76), Expect = 7e-04
 Identities = 10/51 (19%), Positives = 22/51 (43%), Gaps = 8/51 (15%)

Query: 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWL-------DCNQFTCPVCR 95
          C +CL E+  E +   + +C  +F   C+++++            +CP   
Sbjct: 8  CKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	99
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.88
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.82
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.77
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.77
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.75
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.75
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.71
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.7
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.63
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.62
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.6
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.59
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.58
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.56
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.47
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.28
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.23
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	96.74
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	95.91
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	95.88
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	95.84
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	95.75
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	95.69
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	95.03
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	94.74
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	93.51
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	93.28
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	93.26
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	92.9
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	92.89
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	92.63
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	92.49
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	92.15
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	90.65
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	90.45
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	89.15
d1wfka_	88	Zinc finger FYVE domain containing protein 19 {Mou	88.82
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	85.94
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	85.79
d2co8a2	36	Nedd9 interacting protein with calponin homology,	85.66
d2o35a1	79	Hypothetical protein SMc04008 {Rhizobium meliloti	85.53
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	84.83
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	83.25

>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=99.88  E-value=5.4e-24  Score=107.24  Aligned_cols=52  Identities=38%  Similarity=0.895  Sum_probs=45.7

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      +++.+|+||++++.+++.+.+++.|||.||.+|+.+|+++++ +||+||++++
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~-~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS-TCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCC-SCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCC-cCCCCCCEeE
Confidence            344579999999999988888878999999999999999654 9999999885

>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=99.82  E-value=1.9e-21  Score=96.81  Aligned_cols=48  Identities=23%  Similarity=0.462  Sum_probs=41.3

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +|+||++++.+++......+|||.||.+|+++|++.++.+||+||+++
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~   49 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   49 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcC
Confidence            699999999877665555579999999999999986666899999986

>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=99.77  E-value=1.2e-19  Score=94.06  Aligned_cols=51  Identities=16%  Similarity=0.390  Sum_probs=40.1

Q ss_pred             ccccccccccccccC-CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKE-DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++++..+ +.....++|||.||.+|+.+|+.+++.+||+||+++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i   53 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCc
Confidence            456799999986443 333345579999999999999976665899999875

>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=99.77  E-value=9.5e-20  Score=95.23  Aligned_cols=47  Identities=38%  Similarity=0.790  Sum_probs=39.0

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++|+||++.+.++  . +.++|||.||..|+.+|+++++ +||+||+++
T Consensus         4 ~~d~C~IC~~~~~~~--~-~~~~C~H~Fc~~Ci~~w~~~~~-~CP~CR~~i   50 (68)
T d1chca_           4 VAERCPICLEDPSNY--S-MALPCLHAFCYVCITRWIRQNP-TCPLCKVPV   50 (68)
T ss_dssp             CCCCCSSCCSCCCSC--E-EETTTTEEESTTHHHHHHHHSC-STTTTCCCC
T ss_pred             CCCCCccCCcCccCC--c-EEeCCCCcCcHHHHHHHHHhCC-cCCCCCcch
Confidence            456799999998754  2 4457999999999999999655 899999875

>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=99.75  E-value=4.8e-19  Score=94.97  Aligned_cols=45  Identities=27%  Similarity=0.801  Sum_probs=38.5

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..|+||++.+.++    ++++|||.||.+|+.+|++.+..+||+||+.+
T Consensus        24 ~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i   68 (79)
T d1fbva4          24 QLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI   68 (79)
T ss_dssp             TBCTTTSSSBCCE----ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCC
T ss_pred             CCCccCCCcCCCe----EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCc
Confidence            4699999998765    56679999999999999986555899999876

>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=99.75  E-value=4.8e-19  Score=96.76  Aligned_cols=51  Identities=31%  Similarity=0.645  Sum_probs=39.7

Q ss_pred             ccccccccccccccCCe--------------eeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626           48 VEEICSICLMEFEKEDV--------------VSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL   99 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~--------------~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~   99 (99)
                      .++.|+||++++.++..              ....++|||.||..||.+|++.++ +||+||+++.
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ-VCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCS-BCSSSCSBCC
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCC-cCCCCCCccc
Confidence            34569999998865321              234557999999999999999665 9999999863

>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=99.71  E-value=3.2e-18  Score=97.46  Aligned_cols=51  Identities=35%  Similarity=0.776  Sum_probs=39.5

Q ss_pred             ccccccccccccccC--------------CeeeEecCCCCcccHHHHHHHHhcC----CCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKE--------------DVVSRLTRCCHLFHADCIERWLDCN----QFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~--------------~~~~~l~~C~H~fh~~Ci~~w~~~~----~~~CP~CR~~~   98 (99)
                      .++.|+||++++.++              +....+++|||.||.+||..|++.+    +.+||+||+.+
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            355799999998542              2334566899999999999999753    34799999865

>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=99.70  E-value=3.6e-18  Score=92.62  Aligned_cols=47  Identities=34%  Similarity=0.530  Sum_probs=40.3

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ++..|+||++.+.++    +.++|||.||..||.+|++.++.+||.||.++
T Consensus        22 ~~l~C~IC~~~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~   68 (86)
T d1rmda2          22 KSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (86)
T ss_dssp             HHTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             cCcCCccCCcchhcc----eecCCCChhhHHHHHHHHhhCCCcCcccCCCC
Confidence            445799999999877    56679999999999999986666899999875

>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=99.63  E-value=5.8e-17  Score=81.39  Aligned_cols=44  Identities=11%  Similarity=0.239  Sum_probs=37.7

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      .|+||++.+.++   ..++.|||+||.+||.+|+++++ +||+||+++
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~-~CP~c~~~l   45 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTG-NDPITNEPL   45 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHS-BCTTTCCBC
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhcc-CCCccCCcC
Confidence            599999999877   23457999999999999999665 899999875

>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=99.62  E-value=8.6e-17  Score=89.97  Aligned_cols=45  Identities=29%  Similarity=0.682  Sum_probs=37.8

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC--CcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ--FTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~--~~CP~CR~~~   98 (99)
                      ..|+||++.+.++    +.++|||.||..|+.+|++.++  ..||.||+++
T Consensus        22 l~CpIC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (103)
T d1jm7a_          22 LECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (103)
T ss_dssp             TSCSSSCCCCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             cCCCccCchhCCe----EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcC
Confidence            4699999999887    4457999999999999997533  4799999875

>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=99.60  E-value=2.6e-17  Score=82.60  Aligned_cols=43  Identities=26%  Similarity=0.616  Sum_probs=35.6

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +...|+||++.+.++    +.++|||.||..|+++|    +.+||+||+++
T Consensus         5 ~~l~C~IC~~~~~~p----~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~   47 (56)
T d1bora_           5 QFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS----GMQCPICQAPW   47 (56)
T ss_dssp             CCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS----SSSCSSCCSSS
T ss_pred             CCCCCcccCcccCCC----EEecCCCHHhHHHHHcC----CCcCcCCCCcc
Confidence            345899999999887    55579999999999765    34899999976

>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=99.59  E-value=4.9e-16  Score=78.96  Aligned_cols=53  Identities=23%  Similarity=0.530  Sum_probs=38.5

Q ss_pred             CcccccccccccccccCCeee-EecCCCCcccHHHHHHHHhc-CCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVS-RLTRCCHLFHADCIERWLDC-NQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~-~l~~C~H~fh~~Ci~~w~~~-~~~~CP~CR~~~   98 (99)
                      +++...|+||++++.++.... ....|+|.||..|+.+|+.. ++.+||+||+++
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            445567999999886552211 11235699999999999864 455899999975

>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=99.58  E-value=7e-16  Score=82.57  Aligned_cols=49  Identities=18%  Similarity=0.053  Sum_probs=42.2

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..++..|+||++.|.++    +.++|||+||..||.+|+.+++.+||.||+++
T Consensus         4 iP~~l~CpIc~~l~~dP----v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l   52 (80)
T d2c2la2           4 IPDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPL   52 (80)
T ss_dssp             CCSTTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             CCccccCcCcCchhhhh----cccCCcCeecHHHHHHHHhcCCccCCCccccc
Confidence            34667899999999988    55679999999999999987666899999875

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.56  E-value=1.1e-15  Score=81.40  Aligned_cols=50  Identities=20%  Similarity=0.411  Sum_probs=42.3

Q ss_pred             CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..++..|+||++.|.++    +.++|||+||..||.+|++.+..+||.||.++
T Consensus         4 eiP~~l~CpIc~~~m~dP----V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l   53 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             CCCccCCCcCcCchhhCc----eEccCCCcchHHHHHHHHHHCCCCCCcccccC
Confidence            345667899999999988    45579999999999999987666899999865

>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=2.2e-15  Score=83.30  Aligned_cols=44  Identities=27%  Similarity=0.587  Sum_probs=36.1

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ...|+||++.+.++   ..+++|||.||..||.+|+.   ..||.||.++
T Consensus        22 ~l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~   65 (97)
T d1jm7b_          22 LLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG---TGCPVCYTPA   65 (97)
T ss_dssp             TTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT---TBCSSSCCBC
T ss_pred             cCCCccCCchhhcC---ceeCCCCCchhHHHHHHHHh---ccccccCCcC
Confidence            34699999999887   23447999999999999985   2699999864

>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=99.28  E-value=2.1e-12  Score=71.23  Aligned_cols=49  Identities=22%  Similarity=0.095  Sum_probs=39.9

Q ss_pred             CCcccccccccccccccCCeeeEecCCC-CcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           45 DSKVEEICSICLMEFEKEDVVSRLTRCC-HLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~-H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      +..++..||||.+.|.++    +..+|| |.|++.||.+|+..+. +||.||+++
T Consensus        18 ~~P~~f~CPI~~~lm~dP----V~~~~~~~ty~r~~I~~~l~~~~-~~P~~~~~l   67 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLSDQ-TDPFNRSPL   67 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTTSC-BCTTTCSBC
T ss_pred             CCcHHhCCcCchhHHHHH----HhcccccchhhHHHHHHHHHhcC-Ccccccccc
Confidence            344567899999999988    555565 5899999999998655 899999875

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=3.1e-12  Score=69.86  Aligned_cols=48  Identities=21%  Similarity=0.641  Sum_probs=36.7

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc----C---CCcCccCC
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC----N---QFTCPVCR   95 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~----~---~~~CP~CR   95 (99)
                      ....+|+||++++...+.. .+++|||.||.+|+..|++.    +   ..+||.|+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~-~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEE-EETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcccCCceE-EECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            3456799999998776655 45579999999999999863    1   23699864

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.74  E-value=7.3e-05  Score=37.05  Aligned_cols=49  Identities=20%  Similarity=0.563  Sum_probs=34.8

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHH---Hh-cCCCcCccCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW---LD-CNQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w---~~-~~~~~CP~CR~   96 (99)
                      .+..|.+|.+...+++..+..-.|+..||..|+..-   .. .....||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            445799999887766655566689999999998531   11 13457999964

>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=95.91  E-value=0.0017  Score=30.32  Aligned_cols=45  Identities=27%  Similarity=0.616  Sum_probs=31.0

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      .|.||...-.. +.+...-.|+..||..|++.-+..   ..-.||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            48889776433 344455579999999999876542   2235999985

>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=95.88  E-value=0.0031  Score=32.39  Aligned_cols=38  Identities=26%  Similarity=0.690  Sum_probs=26.1

Q ss_pred             CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +....|..|.|| +.+...+.. -.--|+..||..|+++.
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             cCCCcCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            345667789999 555554322 11147899999999997

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.84  E-value=0.011  Score=30.05  Aligned_cols=47  Identities=17%  Similarity=0.507  Sum_probs=31.7

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHH--H-Hhc-CCCcCccCCCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIER--W-LDC-NQFTCPVCRSF   97 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~--w-~~~-~~~~CP~CR~~   97 (99)
                      .+.||.......+..+..-.|+--||..|+.-  . ... ....||.|+..
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            34499987765554555667888999999842  2 121 34679999763

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.75  E-value=0.015  Score=29.91  Aligned_cols=53  Identities=19%  Similarity=0.375  Sum_probs=36.9

Q ss_pred             Cccccccccccccccc---CCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           46 SKVEEICSICLMEFEK---EDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ......|-||-+++..   ++..+..-.|+--.|+.|.+-=.+..+..||.|++++
T Consensus        13 ~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Y   68 (93)
T d1weoa_          13 NLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRY   68 (93)
T ss_dssp             CCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCC
T ss_pred             hcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChh
Confidence            3445679999998753   3333334467777899999765555555899998764

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

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

Probab=95.69  E-value=0.00073  Score=32.96  Aligned_cols=48  Identities=21%  Similarity=0.495  Sum_probs=31.9

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCCC
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRSF   97 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~~   97 (99)
                      ...++.|.+|.+.    ..+...-.|.-.||..|+...+..   ..-.||.|+..
T Consensus         6 d~~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           6 DHHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            3444579999753    233344478889999998755442   23469999864

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.03  E-value=0.0027  Score=31.71  Aligned_cols=45  Identities=24%  Similarity=0.599  Sum_probs=29.5

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---CCCcCccCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      ....|.+|.+.   + .+...-.|...||..|+...+..   ..-.||.|+.
T Consensus         6 ~c~~C~~C~~~---~-~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~   53 (70)
T d1fp0a1           6 SATICRVCQKP---G-DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   53 (70)
T ss_dssp             SSSCCSSSCSS---S-CCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred             CCCCCCCCCCc---C-EEEECCCCChhhccccCCCCcCcCCCCCEECcCCcC
Confidence            34457777643   3 34345578999999999876543   2235999965

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.74  E-value=0.01  Score=28.49  Aligned_cols=44  Identities=27%  Similarity=0.548  Sum_probs=30.1

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC   94 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C   94 (99)
                      +..|--|+.++.+. .....+.|++.||.+|=.- +...--+||-|
T Consensus        15 ~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dCD~f-iHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVF-VHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTS-EEECCTTTTCCBCHHHHHT-TTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCC-ceEECcCCCCccccccchh-hhhhhcCCCCC
Confidence            34699999888644 3345678999999999433 22232379987

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.51  E-value=0.026  Score=27.43  Aligned_cols=36  Identities=19%  Similarity=0.382  Sum_probs=26.5

Q ss_pred             ccccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +...|.+|..+|..-..-...-.||++||.+|....
T Consensus         7 ~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~~   42 (64)
T d1joca1           7 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN   42 (64)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             cCCcCcCcCCcccCCccccchhhhCCeecccccCCc
Confidence            335699999998765443345589999999997654

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

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

Probab=93.28  E-value=0.018  Score=28.72  Aligned_cols=35  Identities=20%  Similarity=0.549  Sum_probs=26.8

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      ++.|.+|..+|..-..-.....||+.||.+|....
T Consensus        13 ~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~~   47 (72)
T d1dvpa2          13 GRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAKQ   47 (72)
T ss_dssp             CSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCEE
T ss_pred             CCccccCCCcccCccccccccccCCeeChhhhCCc
Confidence            35699999999765544455689999999997543

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.26  E-value=0.021  Score=28.41  Aligned_cols=43  Identities=26%  Similarity=0.693  Sum_probs=24.7

Q ss_pred             ccccccccccccCCeeeE-ecCCCC-cccHHHHHHHHhc---CCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSR-LTRCCH-LFHADCIERWLDC---NQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~-l~~C~H-~fh~~Ci~~w~~~---~~~~CP~CR~   96 (99)
                      .-| ||.+... ++.+.. .-.|.+ -||..|+.  +..   .+..||.|+.
T Consensus        17 ~~C-iC~~~~~-~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~   64 (71)
T d1wesa_          17 TYC-LCNQVSY-GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRG   64 (71)
T ss_dssp             CCS-TTCCCCC-SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSS
T ss_pred             CEE-EeCCCCC-CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCcc
Confidence            446 9997643 332211 113444 69999984  221   3346999975

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.90  E-value=0.086  Score=26.06  Aligned_cols=45  Identities=31%  Similarity=0.744  Sum_probs=28.3

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHH----HH--H--hcCCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIE----RW--L--DCNQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~----~w--~--~~~~~~CP~CR~   96 (99)
                      ..| ||.....++ ..+..-.|.-.||..|+.    ..  .  ......||.|+.
T Consensus        17 ~~C-iC~~~~~~~-~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          17 LYC-ICRQPHNNR-FMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             CCS-TTCCCCCSS-CEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CEE-ECCCccCCC-eEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            357 898775443 344555788889999982    11  1  123468999953

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.89  E-value=0.13  Score=25.42  Aligned_cols=36  Identities=22%  Similarity=0.406  Sum_probs=27.5

Q ss_pred             ccccccccccccCCeeeEec-CCCCcccHHHHHHHHhc
Q 037626           50 EICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDC   86 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~   86 (99)
                      ..|.+|.+.+++..-+ ..+ -=+|.||..|-+..++.
T Consensus         9 l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           9 LCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHH
T ss_pred             eeeeeehhhhcCCceE-eCCCCcCCceeccccHHHHHh
Confidence            5799999999887554 332 12699999999998874

>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=92.63  E-value=0.035  Score=27.19  Aligned_cols=34  Identities=18%  Similarity=0.361  Sum_probs=25.4

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      +.|.+|..+|..-..-...-.||..||..|....
T Consensus         6 ~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~   39 (67)
T d1vfya_           6 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSNS   39 (67)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCEE
T ss_pred             cccccCCCcccCcccccccccCCCEecccccCCc
Confidence            4699999998765443345579999999997544

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.49  E-value=0.0038  Score=29.27  Aligned_cols=44  Identities=18%  Similarity=0.403  Sum_probs=28.5

Q ss_pred             cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626           51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR   95 (99)
Q Consensus        51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR   95 (99)
                      .|.+|..+|..-..-.....||..||.+|...... ....|..|.
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~-~~RvC~~C~   45 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGN-GPRLCLLCQ   45 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-----CCEEHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCC-CCeECHhHh
Confidence            48888888876544345558999999999765433 223576663

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=92.15  E-value=0.12  Score=25.80  Aligned_cols=47  Identities=23%  Similarity=0.604  Sum_probs=29.0

Q ss_pred             ccccccccccccccCCeeeEec--CCCCcccHHHHHH----HHh----cCCCcCccCCC
Q 037626           48 VEEICSICLMEFEKEDVVSRLT--RCCHLFHADCIER----WLD----CNQFTCPVCRS   96 (99)
Q Consensus        48 ~~~~C~IC~~~~~~~~~~~~l~--~C~H~fh~~Ci~~----w~~----~~~~~CP~CR~   96 (99)
                      +...| ||.+....+..+ ..-  .|..-||..|+.-    ...    .....||.|+.
T Consensus        15 ~~~~C-~C~~~~~~~~~i-~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~   71 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSMI-QCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRL   71 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEE-ECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHH
T ss_pred             CccEe-ECCCccCCCcEE-EEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcC
Confidence            33467 899887655433 332  4888999999842    101    02357999954

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Effector domain of rabphilin-3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.65  E-value=0.068  Score=29.22  Aligned_cols=32  Identities=13%  Similarity=0.239  Sum_probs=24.0

Q ss_pred             ccccccccccccc-CCeeeEecCCCCcccHHHH
Q 037626           49 EEICSICLMEFEK-EDVVSRLTRCCHLFHADCI   80 (99)
Q Consensus        49 ~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci   80 (99)
                      ...|.+|..+|.. ...-.....||+.||..|-
T Consensus        48 ~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~   80 (124)
T d1zbdb_          48 VNRCILCGEQLGMLGSASVVCEDCKKNVCTKCG   80 (124)
T ss_dssp             SSBCSSSCCBCSTTSCCEEECTTTCCEEETTSE
T ss_pred             CCcCcccCCcccCCCCCCCcCccCCcccccCCC
Confidence            4569999999864 2333356689999999994

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.45  E-value=0.03  Score=28.73  Aligned_cols=47  Identities=19%  Similarity=0.490  Sum_probs=30.1

Q ss_pred             cccccccccccccC-CeeeEecCCCCcccHHHHHHH-----Hhc--CCCcCccCC
Q 037626           49 EEICSICLMEFEKE-DVVSRLTRCCHLFHADCIERW-----LDC--NQFTCPVCR   95 (99)
Q Consensus        49 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~w-----~~~--~~~~CP~CR   95 (99)
                      +..|.||....... ..+...-.|+..||..|+...     ...  ..-.||.|.
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~   70 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCT   70 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccC
Confidence            45699998755432 344445578899999997632     121  133699885

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=89.15  E-value=0.11  Score=25.43  Aligned_cols=46  Identities=20%  Similarity=0.326  Sum_probs=30.6

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHh---cCCCcCccCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD---CNQFTCPVCRS   96 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~---~~~~~CP~CR~   96 (99)
                      ..| ||.....+.+..+....|...||..|+..-..   .....||.|+.
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~   65 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE   65 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHH
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcC
Confidence            357 78877666655556668889999999754211   13446988853

>d1wfka_ g.50.1.1 (A:) Zinc finger FYVE domain containing protein 19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Zinc finger FYVE domain containing protein 19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.82  E-value=0.17  Score=26.02  Aligned_cols=38  Identities=21%  Similarity=0.339  Sum_probs=28.1

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW   83 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w   83 (99)
                      ...+..|.+|..+|..-..-...-.||-+||..|....
T Consensus         6 ~~~~s~C~~C~~~Fs~~~rrhhCr~CG~vfC~~Cs~~~   43 (88)
T d1wfka_           6 SGMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFS   43 (88)
T ss_dssp             CCCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEE
T ss_pred             CcccCcCcccCchhccccccccccccChhhChHHhCCc
Confidence            34456799999999765554455679999999997654

>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=85.94  E-value=0.14  Score=25.20  Aligned_cols=39  Identities=21%  Similarity=0.396  Sum_probs=20.5

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF   98 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~   98 (99)
                      ..||.|..+++..+        ||.+|..|-....  ....||-|.+++
T Consensus         3 ~~CP~C~~eL~~~~--------~~~~C~~C~~~~~--~~a~CPdC~~~L   41 (71)
T d2jnea1           3 LHCPQCQHVLDQDN--------GHARCRSCGEFIE--MKALCPDCHQPL   41 (71)
T ss_dssp             CBCSSSCSBEEEET--------TEEEETTTCCEEE--EEEECTTTCSBC
T ss_pred             CcCCCccCcccccC--------CCEehhhhhhhhe--eEEeCCccccHH
Confidence            46888888876532        3334444422211  123577777653

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.79  E-value=0.28  Score=20.15  Aligned_cols=28  Identities=25%  Similarity=0.577  Sum_probs=22.4

Q ss_pred             ccccccccccccCCeeeEecCCCCcccHHH
Q 037626           50 EICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ..|+-|...+...|.+.+-  =+++||..|
T Consensus         3 g~Ca~C~~~I~~~e~VmRA--~~~VyHl~C   30 (31)
T d1rutx3           3 GACSACGQSIPASELVMRA--QGNVYHLKC   30 (31)
T ss_dssp             EECTTTCCEECTTSEEEEE--TTEEECGGG
T ss_pred             cccccccCcCChhHhheec--ccceeeecc
Confidence            4699999999888877654  468899888

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.66  E-value=0.26  Score=20.99  Aligned_cols=31  Identities=19%  Similarity=0.535  Sum_probs=21.4

Q ss_pred             CcccccccccccccccCCeeeEecCCCCcccHHH
Q 037626           46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ....+.|.+|-...-.-+.+.   .=|+.||+.|
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl~---a~g~~yHk~C   35 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERLC---VNGHFFHRSC   35 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCC---BTTBCCBTTT
T ss_pred             CCCCCcccccCCEEeeeeEEE---ecCcEecccc
Confidence            344567999988766554442   3478899988

>d2o35a1 a.293.1.1 (A:2-80) Hypothetical protein SMc04008 {Rhizobium meliloti [TaxId: 382]}

class: All alpha proteins
fold: SMc04008-like
superfamily: SMc04008-like
family: SMc04008-like
domain: Hypothetical protein SMc04008
species: Rhizobium meliloti [TaxId: 382]

Probab=85.53  E-value=0.19  Score=25.15  Aligned_cols=11  Identities=27%  Similarity=1.090  Sum_probs=10.3

Q ss_pred             ccHHHHHHHHh
Q 037626           75 FHADCIERWLD   85 (99)
Q Consensus        75 fh~~Ci~~w~~   85 (99)
                      ||+.|+..|..
T Consensus        40 FCRNCLskWy~   50 (79)
T d2o35a1          40 FCRNCLSNWYR   50 (79)
T ss_dssp             CCHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999985

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.83  E-value=0.17  Score=21.42  Aligned_cols=27  Identities=22%  Similarity=0.470  Sum_probs=20.3

Q ss_pred             cccccccccccccCCeeeEecCCCCcccHHH
Q 037626           49 EEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      -+.|.+|.+.+.+.    ++-.-|-.||..|
T Consensus         8 lEkC~~C~~~I~dr----iLrA~Gk~yHP~C   34 (35)
T d2dloa1           8 LEKCATCSQPILDR----ILRAMGKAYHPGC   34 (35)
T ss_dssp             CCBCTTTCCBCCSC----CEEETTEEECTTT
T ss_pred             HHHHHHhchHHHHH----HHHHhCCCCCCCC
Confidence            34699999998765    5546788888776

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=83.25  E-value=0.37  Score=21.31  Aligned_cols=30  Identities=17%  Similarity=0.295  Sum_probs=22.0

Q ss_pred             cccccccccccccccCCeeeEecCCCCcccHHH
Q 037626           47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADC   79 (99)
Q Consensus        47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C   79 (99)
                      ...+.|+.|-...-..+++.   .=|+.||..|
T Consensus        13 g~~~kC~~C~k~VY~~E~~~---~~g~~~Hk~C   42 (43)
T d1b8ta3          13 GGSDGCPRCGQAVYAAEKVI---GAGKSWHKSC   42 (43)
T ss_dssp             CCCEECTTTSCEECSSSCEE---ETTEEECTTT
T ss_pred             CCCCcCccCCCEeeHHHHhh---cCCCccccCC
Confidence            34467999999877666553   3578899888