Psyllid ID: psy6056

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150---
Protein Sequence
MAESLFRQTQKRRLELPEIQQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHFQSRKTRVP
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHcccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEccccccccHHHHHHHcccccccccccccccccccccccccccccEccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccEEEEEEccEccccccccccEEEEEEcccccccEEcccccHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MAESLFRQTQKRRLELPEIQQASkkqkndnpseddsdgdrptsptsrcpicllvlnnrsytdtCLHEFCFLCIKqwsqissesspalCKMSKQRLLLFASATECLQYINVYDIMILQVNTstfkglfgvnigridrlhlftfghfqsrktrvp
Flexible Loop (DISEMBL)
maeslfrqtqkrrlelpeiqqaskkqkndnpseddsdgdrptsptsrcpiCLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLhlftfghfqsrktrvp
Low Complexity Region (SEG)
MAESLFRQTQKRRLELPEIQQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHFQSRKTRVP
Disordered region (IsUnstruct)
***********************************************CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQIS****PALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHF********
Disordered Region (DISOPRED)
************************************************PICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVY*****************VNIGRIDRLHLF*************
Disordered Region (DISEMBL)
*********QKRRLELPEI*************************TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHF********
Disordered Region (DISPRO)
*********************************************SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHFQSRK****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAESLFRQTQKRRLELPEIQQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHFQSRKTRVP
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	153	2.2.26 [Sep-21-2011]
Q80Z37	1033	E3 ubiquitin-protein liga	yes	N/A	0.300	0.044	0.520	1e-08
Q9NS56	1045	E3 ubiquitin-protein liga	yes	N/A	0.300	0.044	0.520	1e-08
Q9V8P9	1038	E3 ubiquitin-protein liga	yes	N/A	0.300	0.044	0.411	3e-06
P29836	676	E3 ubiquitin-protein liga	no	N/A	0.398	0.090	0.333	0.0002
P29128	676	E3 ubiquitin-protein liga	no	N/A	0.398	0.090	0.333	0.0002
P84445	532	E3 ubiquitin-protein liga	no	N/A	0.274	0.078	0.454	0.0006
P28990	532	E3 ubiquitin-protein liga	no	N/A	0.274	0.078	0.454	0.0006
P09309	467	E3 ubiquitin-protein liga	no	N/A	0.307	0.100	0.367	0.0007

>sp|Q80Z37|TOPRS_MOUSE E3 ubiquitin-protein ligase Topors OS=Mus musculus GN=Topors PE=1 SV=1

 Score = 58.9 bits (141), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 33/48 (68%), Gaps = 2/48 (4%)

Query: 42  TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
            SP S+CPICL   +N SY D CLH+FCF C+++WS+  +E    LCK
Sbjct: 98  ASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKAEC--PLCK 143

Functions as an E3 ubiquitin-protein ligase and as a E3 SUMO1-protein ligase. Probable tumor suppressor involved in cell growth, cell proliferation and apoptosis that regulates p53/TP53 stability through ubiquitin-dependent degradation. May regulate chromatin modification through sumoylation of several chromatin modification-associated proteins. May be involved in DNA-damage-induced cell death through IKBKE sumoylation.
Mus musculus (taxid: 10090)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9NS56|TOPRS_HUMAN E3 ubiquitin-protein ligase Topors OS=Homo sapiens GN=TOPORS PE=1 SV=1

 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 33/48 (68%), Gaps = 2/48 (4%)

Query: 42  TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
            SP S+CPICL   +N SY D CLH+FCF C+++WS+  +E    LCK
Sbjct: 97  ASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKAEC--PLCK 142

Functions as an E3 ubiquitin-protein ligase and as an E3 SUMO1-protein ligase. Probable tumor suppressor involved in cell growth, cell proliferation and apoptosis that regulates p53/TP53 stability through ubiquitin-dependent degradation. May regulate chromatin modification through sumoylation of several chromatin modification-associated proteins. May be involved in DNA damage-induced cell death through IKBKE sumoylation.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9V8P9|TOPRS_DROME E3 ubiquitin-protein ligase Topors OS=Drosophila melanogaster GN=Topors PE=1 SV=1

 Score = 50.8 bits (120), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 5/51 (9%)

Query: 43  SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93
           SP   C ICL     + +TD+C+H+FCF C+ +WS+I  E     C + KQ
Sbjct: 97  SPPPNCAICLSRCRRKCFTDSCMHQFCFKCLCEWSKIKPE-----CPLCKQ 142

Functions as an ubiquitin-protein E3 ligase. Negatively regulates the transcriptional repressor h/hairy by promoting its ubiquitination and subsequent degradation. Also directs the nuclear organization of the gypsy chromatin insulator. Chromatin insulators are regulatory elements which establish independent domains of transcriptional activity within eukaryotic genomes. Insulators have two defining properties; they can block the communication between an enhancer and a promoter when placed between them, and can also buffer transgenes from position effect variegation (PEV). Insulators are proposed to structure the chromatin fiber into independent domains of differing transcriptional potential by promoting the formation of distinct chromatin loops. This chromatin looping may require the formation of insulator bodies, where homotypic interactions between individual subunits of the insulator complex could promote the clustering of widely spaced insulators at the nuclear periphery. Within the gypsy insulator complex, this protein may promote formation of nuclear insulator bodies by recruiting individual insulator complexes to the nuclear lamina.

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P29836|ICP0_BHV1K E3 ubiquitin-protein ligase ICP0 OS=Bovine herpesvirus 1.2 (strain K22) GN=BICP0 PE=3 SV=1

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 48  CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQY 107
           C ICL  +   +    CLH FC  CI++W  +    +  LCK   Q L+   ++ EC + 
Sbjct: 13  CCICLDAITGAARALPCLHAFCLACIRRW--LEGRPTCPLCKAPVQSLIHSVASDECFEE 70

Query: 108 INV 110
           I V
Sbjct: 71  IPV 73

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P29128|ICP0_BHV1J E3 ubiquitin-protein ligase ICP0 OS=Bovine herpesvirus 1.1 (strain Jura) GN=BICP0 PE=3 SV=1

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 48  CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQY 107
           C ICL  +   +    CLH FC  CI++W  +    +  LCK   Q L+   ++ EC + 
Sbjct: 13  CCICLDAITGAARALPCLHAFCLACIRRW--LEGRPTCPLCKAPVQSLIHSVASDECFEE 70

Query: 108 INV 110
           I V
Sbjct: 71  IPV 73

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P84445|ICP0_EHV1V E3 ubiquitin-protein ligase ICP0 OS=Equine herpesvirus 1 (strain V592) GN=ICP0 PE=3 SV=1

 Score = 43.1 bits (100), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM 90
          RCPICL   +N S    CLH FC++CI +W  I    +  LCK+
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRW--IRQNPTCPLCKV 48

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Equus caballus (taxid: 9796)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P28990|ICP0_EHV1B E3 ubiquitin-protein ligase ICP0 OS=Equine herpesvirus 1 (strain Ab4p) GN=63 PE=1 SV=1

 Score = 43.1 bits (100), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM 90
          RCPICL   +N S    CLH FC++CI +W  I    +  LCK+
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRW--IRQNPTCPLCKV 48

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity. Additionally, inhibits host IRF3 activation to prevent interferon production by the infected cells.

Equus caballus (taxid: 9796)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P09309|IE61_VZVD E3 ubiquitin-protein ligase IE61 OS=Varicella-zoster virus (strain Dumas) GN=61 PE=1 SV=1

 Score = 43.1 bits (100), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 2/49 (4%)

Query: 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96
          C IC+  +++   T  CLH+FCF+CI+ W+  S +    LC+   Q +L
Sbjct: 19 CTICMSTVSDLGKTMPCLHDFCFVCIRAWTSTSVQC--PLCRCPVQSIL 65

RING-finger E3 ubiquitin ligase that degrades host SP100, one of the major components of ND10 nuclear bodies, thereby disrupting the organization of these bodies. Acts as a transcriptional activator of viral promoters and enhances infectivity.

Homo sapiens (taxid: 9606)

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	153
427782903	592	Putative topoisomerase i binding arginin	0.457	0.118	0.402	3e-09
47219967	714	unnamed protein product [Tetraodon nigro	0.647	0.138	0.363	4e-09
410918018	741	PREDICTED: E3 ubiquitin-protein ligase T	0.509	0.105	0.395	2e-08
383854638	777	PREDICTED: uncharacterized protein LOC10	0.712	0.140	0.371	3e-08
443713667	776	hypothetical protein CAPTEDRAFT_223035 [	0.457	0.090	0.384	1e-07
432847160	884	PREDICTED: uncharacterized protein LOC10	0.529	0.091	0.390	1e-07
350424969	769	PREDICTED: hypothetical protein LOC10074	0.692	0.137	0.370	1e-07
327285025	1005	PREDICTED: e3 ubiquitin-protein ligase T	0.516	0.078	0.375	1e-07
390336726	866	PREDICTED: uncharacterized protein LOC57	0.686	0.121	0.333	2e-07
380021895	567	PREDICTED: E3 ubiquitin-protein ligase T	0.437	0.118	0.465	2e-07

>gi|427782903|gb|JAA56903.1| Putative topoisomerase i binding arginine/serine-rich e3 ubiquitin protein ligase [Rhipicephalus pulchellus]

 Score = 66.6 bits (161), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 7/77 (9%)

Query: 21  QASKKQKNDNPSEDDS--DGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ 78
           +A+K  ++  PS+  S    +RPTSP   C ICL    N+S+TD+C H FCF C+ +WS+
Sbjct: 29  EAAKGGRDATPSQPPSTKSPERPTSPEQSCAICLGPPENKSFTDSCFHTFCFSCLSEWSK 88

Query: 79  ISSESSPALCKMSKQRL 95
           + +E     C + KQR 
Sbjct: 89  VKAE-----CPLCKQRF 100

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|47219967|emb|CAG11500.1| unnamed protein product [Tetraodon nigroviridis]

 Score = 66.2 bits (160), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 40/110 (36%), Positives = 52/110 (47%), Gaps = 11/110 (10%)

Query: 43  SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASAT 102
           SP S+CPICL V NN SY D CLH+FCF CI +WS+  +E     C + KQ       + 
Sbjct: 4   SPDSKCPICLDVFNNISYLDICLHKFCFRCIHEWSKNKAE-----CPLCKQPFHSIYHSI 58

Query: 103 ECLQYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFTFGHFQSRKTRV 152
           +       YD+  L+       G FG+  G   R      G  Q R+ R 
Sbjct: 59  KSENDYKQYDLRPLE------NGSFGIFGGARFRYRTTLTGINQQRQGRT 102

Source: Tetraodon nigroviridis

Species: Tetraodon nigroviridis

Genus: Tetraodon

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|410918018|ref|XP_003972483.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Takifugu rubripes]

 Score = 63.9 bits (154), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 34/86 (39%), Positives = 47/86 (54%), Gaps = 8/86 (9%)

Query: 43  SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASAT 102
           SP S+CPICL   NN SY D CLH+FCF CI +WS+  +E     C + KQ       + 
Sbjct: 6   SPDSKCPICLDSFNNISYLDICLHKFCFRCIHEWSKNKAE-----CPLCKQPFNSIYHSI 60

Query: 103 ECLQYINVYDIMILQVNTSTFKGLFG 128
           +  +    YD+  L+    +F G+FG
Sbjct: 61  KSEKDYKQYDLRPLE--NGSF-GIFG 83

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|383854638|ref|XP_003702827.1| PREDICTED: uncharacterized protein LOC100876127 [Megachile rotundata]

 Score = 63.2 bits (152), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 45/121 (37%), Positives = 64/121 (52%), Gaps = 12/121 (9%)

Query: 30  NP-SEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALC 88
           NP S D SDG    SP   C ICL  L N S+TD+CLH+FCF C+ QWS+I +E    LC
Sbjct: 26  NPDSSDRSDG--AVSPPPNCSICLGKLVNTSFTDSCLHQFCFTCLLQWSKIKTEC--PLC 81

Query: 89  KMSKQRLLLFASATECL-QYINVYDIMILQVNTSTFKGLFGVNIGRIDRLHLFT--FGHF 145
           K + + ++    + E   QY    ++  L +N   F+    ++ G   R H  T   GH+
Sbjct: 82  KQTFKSIIHNVRSEEDYDQYHVPRELATLDLN---FELGHAMDAG-THRFHYRTTMTGHY 137

Query: 146 Q 146
           +
Sbjct: 138 R 138

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443713667|gb|ELU06401.1| hypothetical protein CAPTEDRAFT_223035 [Capitella teleta]

 Score = 61.6 bits (148), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 43/78 (55%), Gaps = 8/78 (10%)

Query: 41  PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFAS 100
           P SP   C ICL +L N+S+TD C H FCF+C+ +WS++      A+C + KQ    F S
Sbjct: 49  PGSPDPNCSICLGILENKSFTDGCFHTFCFVCLLEWSKVK-----AVCPLCKQ---PFKS 100

Query: 101 ATECLQYINVYDIMILQV 118
               ++ I  YD   +Q 
Sbjct: 101 IIHNVRSIEDYDQYHVQT 118

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|432847160|ref|XP_004065960.1| PREDICTED: uncharacterized protein LOC101170493 [Oryzias latipes]

 Score = 61.6 bits (148), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/87 (39%), Positives = 46/87 (52%), Gaps = 6/87 (6%)

Query: 43  SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASAT 102
           SP S+CPICL   +N SY D CLH+FCF CI +WS+  +E     C + KQ       + 
Sbjct: 28  SPDSKCPICLDGFHNVSYLDRCLHKFCFRCILEWSKNKAE-----CPLCKQPFNTIYHSI 82

Query: 103 ECLQYINVYDIMILQVNTSTFKGLFGV 129
           +  Q    Y++   QV  S+F    GV
Sbjct: 83  KSEQDFQKYELK-QQVENSSFGYFEGV 108

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|350424969|ref|XP_003493971.1| PREDICTED: hypothetical protein LOC100742727 [Bombus impatiens]

 Score = 61.2 bits (147), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 46/124 (37%), Positives = 61/124 (49%), Gaps = 18/124 (14%)

Query: 30  NP-SEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALC 88
           NP S D SDG    SP   C ICL  L N S+TD+CLH+FCF C+ QWS+I +E     C
Sbjct: 26  NPDSSDRSDG--AVSPPPNCSICLGKLVNTSFTDSCLHQFCFTCLLQWSKIKTE-----C 78

Query: 89  KMSKQRLLLFASATECLQYINVYDIMILQVNTSTFKGLF----GVNIGRIDRLHLFT--F 142
            + KQ    F S    ++    YD   +    +TF   F     +++G   R H  T   
Sbjct: 79  PLCKQ---TFKSIIHNVRSEEDYDQYHVPREFATFDLNFELGHAMDVG-THRFHYRTTMT 134

Query: 143 GHFQ 146
           GH +
Sbjct: 135 GHHR 138

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|327285025|ref|XP_003227235.1| PREDICTED: e3 ubiquitin-protein ligase Topors-like [Anolis carolinensis]

 Score = 61.2 bits (147), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 33/88 (37%), Positives = 45/88 (51%), Gaps = 9/88 (10%)

Query: 42  TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASA 101
            SP S+CPICL    N SY D C H+FCF CI++WS+  +E     C + KQ    F S 
Sbjct: 56  ASPDSKCPICLDRFENISYLDQCWHKFCFRCIQEWSKNKAE-----CPLCKQ---PFHSV 107

Query: 102 TECLQYINVYDIMILQ-VNTSTFKGLFG 128
              ++  N Y +  ++   T TF    G
Sbjct: 108 VHSMKSQNDYKVYTVKPAETDTFGNPDG 135

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

>gi|390336726|ref|XP_003724412.1| PREDICTED: uncharacterized protein LOC576802 [Strongylocentrotus purpuratus]

 Score = 60.8 bits (146), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 59/114 (51%), Gaps = 9/114 (7%)

Query: 4   SLFRQTQKRRLELPEIQQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDT 63
           S+ R  QK   E       +KK+ +  P++ D+   R  SP   CPICL    ++S++D 
Sbjct: 5   SVQRGLQKALSEASSKSVKTKKETDLAPTDSDASS-RSGSPDQCCPICLGKFKDKSFSDG 63

Query: 64  CLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDIMILQ 117
           C H FCF CI++W+++  +S+  LCK        F S    +   +VYD  +LQ
Sbjct: 64  CFHRFCFQCIREWAKV--KSTCPLCKTP------FKSIIHNVVSSDVYDQYVLQ 109

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|380021895|ref|XP_003694792.1| PREDICTED: E3 ubiquitin-protein ligase Topors-like [Apis florea]

 Score = 60.8 bits (146), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/73 (46%), Positives = 43/73 (58%), Gaps = 6/73 (8%)

Query: 19 IQQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ 78
          I+  +  Q  DN   D SDG    SP   C ICL  L N S+TD+CLH+FCF C+ QWS+
Sbjct: 18 IKSEAPVQNPDN--SDRSDG--AVSPPPNCSICLGKLVNTSFTDSCLHQFCFTCLLQWSK 73

Query: 79 ISSESSPALCKMS 91
          I +E    LCK +
Sbjct: 74 IKTEC--PLCKQT 84

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	153
ZFIN|ZDB-GENE-030131-6401	846	toporsa "topoisomerase I bindi	0.294	0.053	0.574	1.3e-08
MGI|MGI:2146189	1033	Topors "topoisomerase I bindin	0.431	0.063	0.459	1.3e-08
RGD|1305270	1042	Topors "topoisomerase I bindin	0.431	0.063	0.459	1.3e-08
UNIPROTKB|F1PHI0	1043	TOPORS "Uncharacterized protei	0.431	0.063	0.459	1.3e-08
UNIPROTKB|Q9NS56	1045	TOPORS "E3 ubiquitin-protein l	0.431	0.063	0.459	1.3e-08
UNIPROTKB|F1SE69	1049	TOPORS "Uncharacterized protei	0.431	0.062	0.459	1.3e-08
UNIPROTKB|F1N329	1100	TOPORS "Uncharacterized protei	0.431	0.06	0.459	1.4e-08
TAIR|locus:2096264	278	AT3G05250 [Arabidopsis thalian	0.509	0.280	0.425	2.9e-08
DICTYBASE|DDB_G0281183	548	DDB_G0281183 "RING zinc finger	0.581	0.162	0.315	4e-08
FB|FBgn0034410	1038	Topors "Topoisomerase I-intera	0.359	0.052	0.413	6.7e-07

ZFIN|ZDB-GENE-030131-6401 toporsa "topoisomerase I binding, arginine/serine-rich a" [Danio rerio (taxid:7955)]

 Score = 142 (55.0 bits), Expect = 1.3e-08, P = 1.3e-08
 Identities = 27/47 (57%), Positives = 32/47 (68%)

Query:    43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
             SP S+CPICL    N SY D CLH+FCF CI +WS+  +E  P LCK
Sbjct:    23 SPESKCPICLDHFKNISYLDVCLHKFCFCCIHEWSKNKAEC-P-LCK 67

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010842 "retina layer formation" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

MGI|MGI:2146189 Topors "topoisomerase I binding, arginine/serine-rich" [Mus musculus (taxid:10090)]

 Score = 143 (55.4 bits), Expect = 1.3e-08, P = 1.3e-08
 Identities = 34/74 (45%), Positives = 45/74 (60%)

Query:    22 ASKKQKNDN--PSEDDSDGDR--PT--SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ 75
             A+K+ K DN  P    S   +  P   SP S+CPICL   +N SY D CLH+FCF C+++
Sbjct:    72 AAKEFKMDNFSPKAGTSKLQQTVPADASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQE 131

Query:    76 WSQISSESSPALCK 89
             WS+  +E  P LCK
Sbjct:   132 WSKNKAEC-P-LCK 143

GO:0000922 "spindle pole" evidence=ISO

GO:0000930 "gamma-tubulin complex" evidence=ISO

GO:0003677 "DNA binding" evidence=ISO

GO:0003823 "antigen binding" evidence=ISO

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005814 "centriole" evidence=ISO

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

GO:0006513 "protein monoubiquitination" evidence=ISO

GO:0006915 "apoptotic process" evidence=IDA

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=ISO

GO:0016605 "PML body" evidence=ISO

GO:0016607 "nuclear speck" evidence=ISO

GO:0016853 "isomerase activity" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=ISO

GO:0019789 "SUMO ligase activity" evidence=ISO

GO:0032391 "photoreceptor connecting cilium" evidence=ISO;IDA

GO:0034504 "protein localization to nucleus" evidence=ISO

GO:0036064 "cilium basal body" evidence=ISO;IDA

GO:0042127 "regulation of cell proliferation" evidence=IDA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0044547 "DNA topoisomerase binding" evidence=ISO

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IGI

GO:0046872 "metal ion binding" evidence=IEA

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=ISO

GO:0051457 "maintenance of protein location in nucleus" evidence=ISO

GO:0070936 "protein K48-linked ubiquitination" evidence=ISO

RGD|1305270 Topors "topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase" [Rattus norvegicus (taxid:10116)]

 Score = 143 (55.4 bits), Expect = 1.3e-08, P = 1.3e-08
 Identities = 34/74 (45%), Positives = 45/74 (60%)

Query:    22 ASKKQKNDN--PSEDDSDGDR--PT--SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ 75
             A+K+ K DN  P    S   +  P   SP S+CPICL   +N SY D CLH+FCF C+++
Sbjct:    72 AAKEFKMDNFSPKAGTSKLQQTVPADASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQE 131

Query:    76 WSQISSESSPALCK 89
             WS+  +E  P LCK
Sbjct:   132 WSKNKAEC-P-LCK 143

GO:0000922 "spindle pole" evidence=IEA;ISO

GO:0000930 "gamma-tubulin complex" evidence=IEA;ISO

GO:0003677 "DNA binding" evidence=IEA;ISO

GO:0003823 "antigen binding" evidence=IEA;ISO

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

GO:0005634 "nucleus" evidence=ISO

GO:0005814 "centriole" evidence=IEA;ISO

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

GO:0006513 "protein monoubiquitination" evidence=IEA;ISO

GO:0006915 "apoptotic process" evidence=ISO

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IEA;ISO

GO:0016605 "PML body" evidence=IEA;ISO

GO:0016607 "nuclear speck" evidence=IEA;ISO

GO:0016853 "isomerase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA;ISO

GO:0019789 "SUMO ligase activity" evidence=IEA;ISO

GO:0032391 "photoreceptor connecting cilium" evidence=IEA;ISO

GO:0034504 "protein localization to nucleus" evidence=ISO

GO:0036064 "cilium basal body" evidence=IEA;ISO

GO:0042127 "regulation of cell proliferation" evidence=IEA;ISO

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

GO:0044547 "DNA topoisomerase binding" evidence=IEA;ISO

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA;ISO

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IEA;ISO

GO:0051457 "maintenance of protein location in nucleus" evidence=IEA;ISO

GO:0070936 "protein K48-linked ubiquitination" evidence=IEA;ISO

UNIPROTKB|F1PHI0 TOPORS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 143 (55.4 bits), Expect = 1.3e-08, P = 1.3e-08
 Identities = 34/74 (45%), Positives = 45/74 (60%)

Query:    22 ASKKQKNDN--PSEDDSDGDR--PT--SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ 75
             A+K+ K DN  P    S   +  P   SP S+CPICL   +N SY D CLH+FCF C+++
Sbjct:    71 AAKEFKMDNFSPKAGTSKLQQTVPADASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQE 130

Query:    76 WSQISSESSPALCK 89
             WS+  +E  P LCK
Sbjct:   131 WSKNKAEC-P-LCK 142

GO:0036064 "cilium basal body" evidence=IDA

GO:0016607 "nuclear speck" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9NS56 TOPORS "E3 ubiquitin-protein ligase Topors" [Homo sapiens (taxid:9606)]

 Score = 143 (55.4 bits), Expect = 1.3e-08, P = 1.3e-08
 Identities = 34/74 (45%), Positives = 45/74 (60%)

Query:    22 ASKKQKNDN--PSEDDSDGDR--PT--SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ 75
             A+K+ K DN  P    S   +  P   SP S+CPICL   +N SY D CLH+FCF C+++
Sbjct:    71 AAKEFKMDNFSPKAGTSKLQQTVPADASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQE 130

Query:    76 WSQISSESSPALCK 89
             WS+  +E  P LCK
Sbjct:   131 WSKNKAEC-P-LCK 142

GO:0008270 "zinc ion binding" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0016607 "nuclear speck" evidence=IDA

GO:0044547 "DNA topoisomerase binding" evidence=IPI

GO:0006351 "transcription, DNA-dependent" evidence=NAS

GO:0003677 "DNA binding" evidence=IDA

GO:0003823 "antigen binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

GO:0051457 "maintenance of protein location in nucleus" evidence=IDA

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

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IMP

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

GO:0005634 "nucleus" evidence=IDA

GO:0019789 "SUMO ligase activity" evidence=IMP;IDA

GO:0016925 "protein sumoylation" evidence=IMP;IDA

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

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IDA

GO:0016605 "PML body" evidence=IDA

GO:0034504 "protein localization to nucleus" evidence=IMP

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IDA

GO:0070936 "protein K48-linked ubiquitination" evidence=IDA

GO:0006513 "protein monoubiquitination" evidence=IDA

GO:0032391 "photoreceptor connecting cilium" evidence=IDA

GO:0005868 "cytoplasmic dynein complex" evidence=TAS

GO:0036064 "cilium basal body" evidence=IDA

GO:0030496 "midbody" evidence=TAS

GO:0010842 "retina layer formation" evidence=ISS

GO:0035845 "photoreceptor cell outer segment organization" evidence=ISS

GO:0046548 "retinal rod cell development" evidence=ISS

GO:0046549 "retinal cone cell development" evidence=ISS

GO:0043066 "negative regulation of apoptotic process" evidence=ISS

GO:0000922 "spindle pole" evidence=IDA

GO:0000930 "gamma-tubulin complex" evidence=IDA

GO:0005814 "centriole" evidence=IDA

UNIPROTKB|F1SE69 TOPORS "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 143 (55.4 bits), Expect = 1.3e-08, P = 1.3e-08
 Identities = 34/74 (45%), Positives = 45/74 (60%)

Query:    22 ASKKQKNDN--PSEDDSDGDR--PT--SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ 75
             A+K+ K DN  P    S   +  P   SP S+CPICL   +N SY D CLH+FCF C+++
Sbjct:    74 AAKEFKMDNFSPKAGTSKLQQTVPADASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQE 133

Query:    76 WSQISSESSPALCK 89
             WS+  +E  P LCK
Sbjct:   134 WSKNKAEC-P-LCK 145

GO:0032391 "photoreceptor connecting cilium" evidence=IDA

GO:0070936 "protein K48-linked ubiquitination" evidence=IEA

GO:0051457 "maintenance of protein location in nucleus" evidence=IEA

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IEA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0044547 "DNA topoisomerase binding" evidence=IEA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IEA

GO:0036064 "cilium basal body" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0016605 "PML body" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IEA

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0005814 "centriole" evidence=IEA

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

GO:0003823 "antigen binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000930 "gamma-tubulin complex" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1N329 TOPORS "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 143 (55.4 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 34/74 (45%), Positives = 45/74 (60%)

Query:    22 ASKKQKNDN--PSEDDSDGDR--PT--SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ 75
             A+K+ K DN  P    S   +  P   SP S+CPICL   +N SY D CLH+FCF C+++
Sbjct:   134 AAKEFKMDNFSPKAGTSKLQQTVPADASPDSKCPICLDRFDNVSYLDRCLHKFCFRCVQE 193

Query:    76 WSQISSESSPALCK 89
             WS+  +E  P LCK
Sbjct:   194 WSKNKAEC-P-LCK 205

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IEA

GO:0044547 "DNA topoisomerase binding" evidence=IEA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IEA

GO:0036064 "cilium basal body" evidence=IEA

GO:0032391 "photoreceptor connecting cilium" evidence=IEA

GO:0019789 "SUMO ligase activity" evidence=IEA

GO:0016925 "protein sumoylation" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0016605 "PML body" evidence=IEA

GO:0008630 "intrinsic apoptotic signaling pathway in response to DNA damage" evidence=IEA

GO:0006513 "protein monoubiquitination" evidence=IEA

GO:0005814 "centriole" evidence=IEA

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

GO:0003823 "antigen binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000930 "gamma-tubulin complex" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005813 "centrosome" evidence=IDA

GO:0043015 "gamma-tubulin binding" evidence=IDA

GO:0070936 "protein K48-linked ubiquitination" evidence=IEA

GO:0051457 "maintenance of protein location in nucleus" evidence=IEA

GO:0051443 "positive regulation of ubiquitin-protein ligase activity" evidence=IEA

TAIR|locus:2096264 AT3G05250 [Arabidopsis thaliana (taxid:3702)]

 Score = 131 (51.2 bits), Expect = 2.9e-08, P = 2.9e-08
 Identities = 40/94 (42%), Positives = 48/94 (51%)

Query:    22 ASKKQKNDNPSEDD-SDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQIS 80
             A+K+    + S DD SD D P      CPICL      SY DTC H+FCF CIKQW ++ 
Sbjct:     2 AAKEIAGGSGSIDDGSDFD-P------CPICLGQFLRESYLDTCFHKFCFNCIKQWIKVV 54

Query:    81 SESSPALCKMSKQRLLLFASA--TECLQYINVYD 112
             S       K SKQR  +      TE L  I+ YD
Sbjct:    55 SS------KASKQRSSVTCPLCKTENLSIIHNYD 82

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=RCA

GO:0009755 "hormone-mediated signaling pathway" evidence=RCA

DICTYBASE|DDB_G0281183 DDB_G0281183 "RING zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 135 (52.6 bits), Expect = 4.0e-08, P = 4.0e-08
 Identities = 30/95 (31%), Positives = 49/95 (51%)

Query:    18 EIQQASKKQKNDNPSEDDSDGDRPTS---PTSRCPICLLVLNNRSYTDTCLHEFCFLCIK 74
             E +    + + +  + DD + D+P       S C ICL    N ++ D C H+FCF+CI 
Sbjct:    67 EEENKENEIEEEEYNNDDEEVDKPLKLICEDSTCSICLSPFENLTFLDICFHQFCFVCIL 126

Query:    75 QWSQISSESSPALCKMSKQRLLL-FASATECLQYI 108
             QWS+++ +  P LCK     L+    S T+  ++I
Sbjct:   127 QWSELN-QRCP-LCKSEYHSLIYQVKSNTDYQRFI 159

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

FB|FBgn0034410 Topors "Topoisomerase I-interacting protein" [Drosophila melanogaster (taxid:7227)]

 Score = 127 (49.8 bits), Expect = 6.7e-07, P = 6.7e-07
 Identities = 24/58 (41%), Positives = 36/58 (62%)

Query:    32 SEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
             +E++   +R  SP   C ICL     + +TD+C+H+FCF C+ +WS+I  E  P LCK
Sbjct:    87 AEENGTVER-NSPPPNCAICLSRCRRKCFTDSCMHQFCFKCLCEWSKIKPEC-P-LCK 141

GO:0044547 "DNA topoisomerase binding" evidence=ISS

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005652 "nuclear lamina" evidence=IDA

GO:0005700 "polytene chromosome" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	153
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-04
smart00184	40	smart00184, RING, Ring finger	5e-04

>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 = 37.4 bits (87), Expect = 1e-04
 Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
          CPICL           C H FC  CI +W +    + P LC+
Sbjct: 2  CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCP-LCR 42

Length = 45

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

 Score = 37.1 bits (86), Expect = 1e-04
 Identities = 12/29 (41%), Positives = 13/29 (44%)

Query: 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQW 76
          CPICL    +      C H FC  CI  W
Sbjct: 1  CPICLEEPKDPVTILPCGHLFCSKCILSW 29

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

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

 Score = 35.6 bits (82), Expect = 5e-04
 Identities = 13/38 (34%), Positives = 18/38 (47%)

Query: 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSP 85
          CPICL           C H FC  CI++W +  + + P
Sbjct: 1  CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCP 38

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	153
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.52
KOG0317|consensus	293		99.5
KOG0823|consensus	230		99.49
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.35
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.33
PHA02929	238	N1R/p28-like protein; Provisional	99.33
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.31
PHA02926	242	zinc finger-like protein; Provisional	99.27
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.25
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.15
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.14
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.13
KOG0320|consensus	187		99.1
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.08
KOG2164|consensus	513		99.03
KOG4628|consensus	348		99.0
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.99
PF14634	44	zf-RING_5: zinc-RING finger domain	98.92
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.84
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.83
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.78
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.75
KOG0287|consensus	442		98.7
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.69
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.67
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.67
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.65
KOG0311|consensus	381		98.6
KOG0802|consensus	543		98.57
KOG2177|consensus	386		98.54
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.51
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.44
KOG4172|consensus	62		98.42
KOG1039|consensus	344		98.31
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.26
KOG0804|consensus	493		98.21
KOG1493|consensus	84		98.19
KOG2660|consensus	331		98.19
KOG0978|consensus	698		98.16
KOG0824|consensus	324		98.13
KOG0297|consensus	391		98.1
KOG4159|consensus	398		98.09
KOG4265|consensus	349		98.05
KOG2879|consensus	298		97.97
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.94
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.9
COG5152	259	Uncharacterized conserved protein, contains RING a	97.84
COG5219	1525	Uncharacterized conserved protein, contains RING Z	97.82
KOG0825|consensus	1134		97.75
KOG0828|consensus	636		97.74
KOG4692|consensus	489		97.7
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.67
KOG1813|consensus	313		97.64
KOG2930|consensus	114		97.59
KOG0827|consensus	465		97.56
KOG1785|consensus	563		97.56
KOG1734|consensus	328		97.49
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.4
KOG1571|consensus	355		97.4
KOG0826|consensus	357		97.33
KOG1002|consensus	791		97.2
KOG1645|consensus	463		97.15
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	97.15
KOG4739|consensus	233		97.04
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.96
KOG4275|consensus	350		96.87
PHA03096	284	p28-like protein; Provisional	96.78
KOG3039|consensus	303		96.75
KOG1941|consensus	518		96.28
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.11
PHA02825	162	LAP/PHD finger-like protein; Provisional	95.97
KOG1001|consensus	674		95.84
KOG4445|consensus	368		95.76
PF04641	260	Rtf2: Rtf2 RING-finger	95.75
KOG2114|consensus	933		95.67
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.41
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	95.29
PHA02862	156	5L protein; Provisional	95.12
KOG0298|consensus	1394		95.0
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	94.94
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.89
KOG3970|consensus	299		94.87
KOG1814|consensus	445		94.83
KOG4185|consensus	296		94.57
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	94.56
KOG2932|consensus	389		94.21
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.08
KOG1812|consensus	384		94.05
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	94.04
KOG1428|consensus	3738		94.02
KOG3002|consensus	299		93.85
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.75
KOG1952|consensus	950		93.7
KOG4367|consensus	699		93.21
KOG3579|consensus	352		92.98
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	92.96
KOG1940|consensus	276		92.36
KOG1100|consensus	207		92.19
KOG3053|consensus	293		91.97
KOG3039|consensus	303		91.93
KOG2034|consensus	911		91.87
KOG3268|consensus	234		91.53
KOG3800|consensus	300		90.88
KOG4362|consensus	684		89.37
KOG3161|consensus	861		89.05
KOG1815|consensus	444		88.31
KOG0825|consensus	1134		87.91
KOG0824|consensus	324		87.5
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	86.36
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.24
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	84.43
KOG3899|consensus	381		84.36
KOG2817|consensus	394		84.22
KOG1812|consensus	384		82.18

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.52  E-value=3.7e-14  Score=107.98  Aligned_cols=62  Identities=26%  Similarity=0.553  Sum_probs=48.4

Q ss_pred             CCCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcC-----------CCCCCcccCccccccc
Q psy6056          35 DSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISS-----------ESSPALCKMSKQRLLL   97 (153)
Q Consensus        35 ~~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~-----------~~~~~~CP~Cr~~~~~   97 (153)
                      ++........+..|+||++.+.+|++ ++|||.||+.||..|+....           ......||+||..+..
T Consensus         8 ~~~~~~~~~~~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208          8 DDTTLVDSGGDFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             ccceeccCCCccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            34445556677899999999999988 68999999999999976321           1234689999998864

>KOG0317|consensus

Probab=99.50  E-value=1.4e-14  Score=115.40  Aligned_cols=58  Identities=28%  Similarity=0.623  Sum_probs=47.5

Q ss_pred             CCCCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          34 DDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        34 ~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +.............|.+||+...+|.. ++|||.||+.||..|...+     ..||+||..+..
T Consensus       228 ~s~~~~~i~~a~~kC~LCLe~~~~pSa-TpCGHiFCWsCI~~w~~ek-----~eCPlCR~~~~p  285 (293)
T KOG0317|consen  228 DSNSLSSIPEATRKCSLCLENRSNPSA-TPCGHIFCWSCILEWCSEK-----AECPLCREKFQP  285 (293)
T ss_pred             hccCCccCCCCCCceEEEecCCCCCCc-CcCcchHHHHHHHHHHccc-----cCCCcccccCCC
Confidence            333333344555789999999999988 7999999999999999988     789999988764

>KOG0823|consensus

Probab=99.49  E-value=6.4e-14  Score=108.61  Aligned_cols=77  Identities=18%  Similarity=0.326  Sum_probs=57.4

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc-----cccccccccccceEe-ccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL-----FASATECLQYINVYD-IMI  115 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~-----~~~~~~~~~~~~~~~-~~~  115 (153)
                      ......|.|||+...+|++ +.|||.||+.||.+|++.  ......||+||..++.     ++-.-......+..+ +|.
T Consensus        44 ~~~~FdCNICLd~akdPVv-TlCGHLFCWpClyqWl~~--~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~~~vP~  120 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVV-TLCGHLFCWPCLYQWLQT--RPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDPRKKDVPP  120 (230)
T ss_pred             CCCceeeeeeccccCCCEE-eecccceehHHHHHHHhh--cCCCeeCCccccccccceEEeeeccCCCCCCCcccccCCC
Confidence            4666789999999999999 689999999999999994  4667899999988864     222222233333444 777


Q ss_pred             ccCCCC
Q psy6056         116 LQVNTS  121 (153)
Q Consensus       116 ~p~~~~  121 (153)
                      +|....
T Consensus       121 RP~~~R  126 (230)
T KOG0823|consen  121 RPAGQR  126 (230)
T ss_pred             CCCCcc
Confidence            776654

>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=99.35  E-value=3e-13  Score=79.98  Aligned_cols=41  Identities=32%  Similarity=0.747  Sum_probs=34.8

Q ss_pred             cccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056          47 RCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK   92 (153)
Q Consensus        47 ~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr   92 (153)
                      .|+||++.+.  +.++..+|||.||..||.+|++.+     .+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-----~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-----NSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-----SB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-----CcCCccC
Confidence            5999999995  444445799999999999999988     8999997

...

>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=99.33  E-value=5.6e-13  Score=76.94  Aligned_cols=39  Identities=33%  Similarity=0.799  Sum_probs=34.2

Q ss_pred             cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      |+||++.+.++++.++|||.||..||.+|++..     ..||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~-----~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKN-----PKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCT-----SB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCc-----CCCcCC
Confidence            899999999997668999999999999999976     899988

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.33  E-value=7.8e-13  Score=104.19  Aligned_cols=53  Identities=23%  Similarity=0.654  Sum_probs=43.8

Q ss_pred             CCCcccccccccccCc-------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccccc
Q psy6056          43 SPTSRCPICLLVLNNR-------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFAS  100 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~-------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~  100 (153)
                      +.+..|+||++.+.++       .++++|+|.||..||.+|+..+     .+||+||..+.++..
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~-----~tCPlCR~~~~~v~~  231 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK-----NTCPVCRTPFISVIK  231 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC-----CCCCCCCCEeeEEee
Confidence            4457899999987753       2456899999999999999987     899999998887543

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

Probab=99.31  E-value=8.5e-13  Score=77.51  Aligned_cols=42  Identities=29%  Similarity=0.642  Sum_probs=31.4

Q ss_pred             cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      ||||++.|.+|+.+ +|||+||..||..|++.. ......||.|
T Consensus         1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~-~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEP-SGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCS-SSST---SSS
T ss_pred             CCccchhhCCcccc-CCcCHHHHHHHHHHHHcc-CCcCCCCcCC
Confidence            89999999999995 799999999999988753 2222689987

>PHA02926 zinc finger-like protein; Provisional

Probab=99.27  E-value=2.8e-12  Score=99.17  Aligned_cols=58  Identities=26%  Similarity=0.647  Sum_probs=45.0

Q ss_pred             CCCCCcccccccccccCc--------cccCccCCcccHhhHHHHHHhcC-CCCCCcccCcccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNR--------SYTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSKQRLLLF   98 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~--------~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~~   98 (153)
                      ..+.+..|+|||+...++        .++.+|+|.||..||..|...+. .+....||+||..+..+
T Consensus       166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            356678899999986432        46679999999999999998531 33457899999987764

>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=99.25  E-value=3e-12  Score=77.66  Aligned_cols=47  Identities=23%  Similarity=0.503  Sum_probs=40.0

Q ss_pred             CcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..|.||++...+.++ .+|||. ||..|+.+|.+..     ..||+||+++..
T Consensus         2 ~~~C~iC~~~~~~~~~-~pCgH~~~C~~C~~~~~~~~-----~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPRDVVL-LPCGHLCFCEECAERLLKRK-----KKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBSSEEE-ETTCEEEEEHHHHHHHHHTT-----SBBTTTTBB-SE
T ss_pred             cCCCccCCccCCceEE-eCCCChHHHHHHhHHhcccC-----CCCCcCChhhcC
Confidence            4679999999888777 589999 9999999999977     999999998764

...

>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=99.15  E-value=2.9e-11  Score=70.24  Aligned_cols=44  Identities=30%  Similarity=0.733  Sum_probs=37.7

Q ss_pred             ccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056          47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR   94 (153)
Q Consensus        47 ~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~   94 (153)
                      .|+||++.+.++..+.+|||.||..|+..|....    ...||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~----~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSG----KNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhC----cCCCCCCCCc
Confidence            4999999997777767799999999999999872    2789999875

>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=99.14  E-value=2.5e-11  Score=70.43  Aligned_cols=41  Identities=32%  Similarity=0.814  Sum_probs=35.5

Q ss_pred             cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      |+||++.+.++..+.+|||.||..||.+|+...   ....||+|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~---~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS---GSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT---SSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhc---CCccCCcC
Confidence            899999999999567999999999999998831   24789998

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 ....

>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=99.13  E-value=2.5e-11  Score=79.45  Aligned_cols=42  Identities=31%  Similarity=0.701  Sum_probs=34.1

Q ss_pred             cccccccccccC------------ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056          46 SRCPICLLVLNN------------RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK   92 (153)
Q Consensus        46 ~~C~ICl~~~~~------------~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr   92 (153)
                      ..|+||++.+.+            ++.+..|||.||..||.+|++..     .+||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN-----NTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS-----SB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC-----CcCCCCC
Confidence            349999999942            23445799999999999999988     8999997

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 ....

>KOG0320|consensus

Probab=99.10  E-value=5.4e-11  Score=89.11  Aligned_cols=47  Identities=28%  Similarity=0.668  Sum_probs=40.7

Q ss_pred             cccccccccccCcc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|||||+.+...+ +.+.|||.||..||...++..     ..||+|++.++.
T Consensus       132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~-----~~CP~C~kkIt~  179 (187)
T KOG0320|consen  132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT-----NKCPTCRKKITH  179 (187)
T ss_pred             cCCCceecchhhccccccccchhHHHHHHHHHHHhC-----CCCCCcccccch
Confidence            57999999999665 447999999999999999888     899999987654

>smart00504 Ubox Modified RING finger domain

Probab=99.08  E-value=9.9e-11  Score=73.69  Aligned_cols=45  Identities=20%  Similarity=0.248  Sum_probs=40.8

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ..|+||++.+.+|++ .+|||+||..||.+|++..     ..||.|+..+.
T Consensus         2 ~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~~~-----~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDPVI-LPSGQTYERRAIEKWLLSH-----GTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHHHC-----CCCCCCcCCCC
Confidence            579999999999988 5899999999999999876     89999998774

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

>KOG2164|consensus

Probab=99.03  E-value=1.3e-10  Score=98.93  Aligned_cols=52  Identities=31%  Similarity=0.605  Sum_probs=44.7

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..|||||+...-|.. +.|||.||+.||.+++...+......||+|+..|..
T Consensus       186 ~~~CPICL~~~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            7889999999988888 569999999999997776556667899999988875

>KOG4628|consensus

Probab=99.00  E-value=3e-10  Score=93.58  Aligned_cols=48  Identities=25%  Similarity=0.613  Sum_probs=40.1

Q ss_pred             ccccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|.||+|.|.  +.....||+|.||..||..|+...    ...||+||+.+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~----r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT----RTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc----CccCCCCCCcCCC
Confidence            68999999998  555556999999999999999876    1459999986654

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.99  E-value=2.7e-10  Score=95.69  Aligned_cols=51  Identities=25%  Similarity=0.583  Sum_probs=44.6

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ..+.....|+||++.+.+|++ ++|||.||..||..|+...     ..||+|+..+.
T Consensus        21 ~~Le~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~~~-----~~CP~Cr~~~~   71 (397)
T TIGR00599        21 YPLDTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLSNQ-----PKCPLCRAEDQ   71 (397)
T ss_pred             cccccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHhCC-----CCCCCCCCccc
Confidence            445677899999999999987 6899999999999999876     68999998775

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.92  E-value=4.9e-10  Score=66.24  Aligned_cols=42  Identities=29%  Similarity=0.675  Sum_probs=34.5

Q ss_pred             ccccccccc--cCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          47 RCPICLLVL--NNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        47 ~C~ICl~~~--~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      .|+||++.+  ..+..+++|||+||..|+..+....     ..||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~-----~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKS-----VKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCC-----CCCcCCCC
Confidence            399999999  3455668999999999999877334     89999984

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

Probab=98.84  E-value=2e-09  Score=85.11  Aligned_cols=50  Identities=22%  Similarity=0.595  Sum_probs=42.2

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHH-HHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ-WSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~-~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..+..|+||++....|.. ++|||.||+.||.. |-..+    ...||+||+....
T Consensus       213 ~~d~kC~lC~e~~~~ps~-t~CgHlFC~~Cl~~~~t~~k----~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSC-TPCGHLFCLSCLLISWTKKK----YEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCccc-ccccchhhHHHHHHHHHhhc----cccCchhhhhccc
Confidence            447789999999999988 68999999999999 88776    2459999986553

>smart00184 RING Ring finger

Probab=98.83  E-value=2.3e-09  Score=59.95  Aligned_cols=39  Identities=36%  Similarity=0.881  Sum_probs=32.4

Q ss_pred             cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      |+||++....++. .+|||.||..|+..|....    ...||.|
T Consensus         1 C~iC~~~~~~~~~-~~C~H~~c~~C~~~~~~~~----~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVV-LPCGHTFCRSCIRKWLKSG----NNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEE-ecCCChHHHHHHHHHHHhC----cCCCCCC
Confidence            8999998767666 5899999999999998832    2679987

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)

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

Probab=98.78  E-value=3.3e-09  Score=62.49  Aligned_cols=39  Identities=31%  Similarity=0.686  Sum_probs=22.4

Q ss_pred             cccccccccC----ccccCccCCcccHhhHHHHHHhcCCCCCCccc
Q psy6056          48 CPICLLVLNN----RSYTDTCLHEFCFLCIKQWSQISSESSPALCK   89 (153)
Q Consensus        48 C~ICl~~~~~----~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP   89 (153)
                      ||||.+ +.+    |+++ +|||+||..||.++++.. .....+||
T Consensus         1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~-~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKS-DRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH--S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcC-CCCeeeCc
Confidence            899999 887    7775 699999999999998853 12345676

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

Probab=98.75  E-value=7.4e-09  Score=69.22  Aligned_cols=50  Identities=28%  Similarity=0.600  Sum_probs=36.3

Q ss_pred             Cccccccccccc-----------C-ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          45 TSRCPICLLVLN-----------N-RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        45 ~~~C~ICl~~~~-----------~-~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      +..|+||...|.           + |.+.-.|+|.||..||.+|+...  .....||+||+.+.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~--~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQ--SSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccc--cCCCCCCCcCCeee
Confidence            444666655554           2 44445899999999999999853  33579999998764

>KOG0287|consensus

Probab=98.70  E-value=3.7e-09  Score=86.36  Aligned_cols=49  Identities=27%  Similarity=0.564  Sum_probs=43.6

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +.-+.|.||.+.|..|++ ++|+|.||.-||..++..+     ..||.|+..+..
T Consensus        21 D~lLRC~IC~eyf~ip~i-tpCsHtfCSlCIR~~L~~~-----p~CP~C~~~~~E   69 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIPMI-TPCSHTFCSLCIRKFLSYK-----PQCPTCCVTVTE   69 (442)
T ss_pred             HHHHHHhHHHHHhcCcee-ccccchHHHHHHHHHhccC-----CCCCceecccch
Confidence            445679999999999988 6899999999999999988     899999987764

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

Probab=98.69  E-value=1e-08  Score=84.75  Aligned_cols=49  Identities=20%  Similarity=0.553  Sum_probs=40.7

Q ss_pred             CCCCccccccccccc-Cc------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          42 TSPTSRCPICLLVLN-NR------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~-~~------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ...+..|.|||+.+- .+            .. .+|||.||..|+..|..+.     .+||+||.++-
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKr-LpCGHilHl~CLknW~ERq-----QTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKR-LPCGHILHLHCLKNWLERQ-----QTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccc-ccccceeeHHHHHHHHHhc-----cCCCcccCccc
Confidence            466778999999944 22            44 4899999999999999998     99999998854

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

Probab=98.67  E-value=6.4e-09  Score=83.54  Aligned_cols=50  Identities=26%  Similarity=0.538  Sum_probs=43.8

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..-+.|.||-+.+..|.. ++|||.||.-||..++...     ..||+||.....
T Consensus        22 LDs~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~~q-----p~CP~Cr~~~~e   71 (391)
T COG5432          22 LDSMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLGTQ-----PFCPVCREDPCE   71 (391)
T ss_pred             chhHHHhhhhhheeeccee-cccccchhHHHHHHHhcCC-----CCCccccccHHh
Confidence            3445679999999999988 6899999999999999988     999999988764

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

Probab=98.67  E-value=6.8e-09  Score=83.73  Aligned_cols=51  Identities=22%  Similarity=0.518  Sum_probs=42.1

Q ss_pred             CCCCCccccccccccc--CccccCccCCcccHhhHHHHHH-hcCCCCCCcccCcccccc
Q psy6056          41 PTSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQ-ISSESSPALCKMSKQRLL   96 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~-~~~~~~~~~CP~Cr~~~~   96 (153)
                      +......|.|||+.+.  +..+.+||.|.||..|+.+|+. .+     ..||.||.++.
T Consensus       319 ea~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~-----~~CPvCrt~iP  372 (374)
T COG5540         319 EADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS-----NKCPVCRTAIP  372 (374)
T ss_pred             hcCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc-----ccCCccCCCCC
Confidence            3445578999999987  5556679999999999999998 45     89999998764

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

Probab=98.65  E-value=1.2e-08  Score=66.64  Aligned_cols=49  Identities=16%  Similarity=0.228  Sum_probs=39.2

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHh-cCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQI-SSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~-~~~~~~~~CP~Cr~~~~~   97 (153)
                      ++...|||+.+.+.+|+++ ++||+|+..+|..|+.. .     ..||+|+..+..
T Consensus         2 P~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~-----~~~P~t~~~l~~   51 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNG-----GTDPFTRQPLSE   51 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTS-----SB-TTT-SB-SG
T ss_pred             CcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCC-----CCCCCCCCcCCc
Confidence            4568899999999999994 79999999999999998 5     899999988765

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 ....

>KOG0311|consensus

Probab=98.60  E-value=3e-09  Score=87.19  Aligned_cols=66  Identities=29%  Similarity=0.548  Sum_probs=50.0

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccccccccccccccceEec
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDI  113 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~  113 (153)
                      .....+..|+|||+.+...+....|+|.||+.||..-+...    ...||-||+.+.+    .+++++.+.|+.
T Consensus        38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~g----n~ecptcRk~l~S----krsLr~Dp~fda  103 (381)
T KOG0311|consen   38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSG----NNECPTCRKKLVS----KRSLRIDPNFDA  103 (381)
T ss_pred             HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhc----CCCCchHHhhccc----cccCCCCccHHH
Confidence            34567789999999999888777999999999998866553    3899999988765    334444444443

>KOG0802|consensus

Probab=98.57  E-value=3.6e-08  Score=86.26  Aligned_cols=49  Identities=24%  Similarity=0.471  Sum_probs=41.9

Q ss_pred             CCCCCcccccccccccC-----ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          41 PTSPTSRCPICLLVLNN-----RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~-----~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      ....+..|+||+|.+..     +.. .+|+|.||..|+..|++..     .+||.||..+
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~r-L~C~Hifh~~CL~~W~er~-----qtCP~CR~~~  340 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKR-LPCGHIFHDSCLRSWFERQ-----QTCPTCRTVL  340 (543)
T ss_pred             hhhcCCeeeeechhhccccccccce-eecccchHHHHHHHHHHHh-----CcCCcchhhh
Confidence            34557789999999997     555 4899999999999999998     9999999833

>KOG2177|consensus

Probab=98.54  E-value=2.4e-08  Score=78.10  Aligned_cols=46  Identities=24%  Similarity=0.543  Sum_probs=39.1

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      ..+...|+||++.|..|.+ .+|||+||..||..++...     ..||.||.
T Consensus        10 ~~~~~~C~iC~~~~~~p~~-l~C~H~~c~~C~~~~~~~~-----~~Cp~cr~   55 (386)
T KOG2177|consen   10 LQEELTCPICLEYFREPVL-LPCGHNFCRACLTRSWEGP-----LSCPVCRP   55 (386)
T ss_pred             ccccccChhhHHHhhcCcc-ccccchHhHHHHHHhcCCC-----cCCcccCC
Confidence            3566789999999999955 6899999999999977633     89999993

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

Probab=98.51  E-value=2.3e-08  Score=63.29  Aligned_cols=44  Identities=27%  Similarity=0.615  Sum_probs=23.0

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      ...|++|.+.+..|+.+..|.|.||..||..-+.       ..||+|+.+-
T Consensus         7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~-------~~CPvC~~Pa   50 (65)
T PF14835_consen    7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG-------SECPVCHTPA   50 (65)
T ss_dssp             TTS-SSS-S--SS-B---SSS--B-TTTGGGGTT-------TB-SSS--B-
T ss_pred             hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC-------CCCCCcCChH
Confidence            3579999999999998889999999999955222       4699998764

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.44  E-value=1.3e-07  Score=76.96  Aligned_cols=49  Identities=22%  Similarity=0.447  Sum_probs=35.2

Q ss_pred             Cccccccccc-ccCcc---ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLV-LNNRS---YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~-~~~~~---~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..||||... +.+|.   .+.+|||.||..|+...+...    ...||.|+..+..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~----~~~CP~C~~~lrk   55 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG----SGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC----CCCCCCCCCccch
Confidence            4579999885 33432   334799999999999954332    2689999877654

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).

>KOG4172|consensus

Probab=98.42  E-value=4.3e-08  Score=60.01  Aligned_cols=49  Identities=18%  Similarity=0.461  Sum_probs=40.0

Q ss_pred             cccccccccccCccccCccCCc-ccHhhHHHHHH-hcCCCCCCcccCcccccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQ-ISSESSPALCKMSKQRLLLFAS  100 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~-~~~~~~~~~CP~Cr~~~~~~~~  100 (153)
                      ..|.||++...+.++ -.|||. .|+.|-.+.++ .+     ..||+||+++..+++
T Consensus         8 dECTICye~pvdsVl-YtCGHMCmCy~Cg~rl~~~~~-----g~CPiCRapi~dvIk   58 (62)
T KOG4172|consen    8 DECTICYEHPVDSVL-YTCGHMCMCYACGLRLKKALH-----GCCPICRAPIKDVIK   58 (62)
T ss_pred             cceeeeccCcchHHH-HHcchHHhHHHHHHHHHHccC-----CcCcchhhHHHHHHH
Confidence            459999999888876 579996 89999777444 45     899999999987654

>KOG1039|consensus

Probab=98.31  E-value=3.4e-07  Score=75.77  Aligned_cols=62  Identities=23%  Similarity=0.626  Sum_probs=46.3

Q ss_pred             CCCCCCcccccccccccCcc-------ccCccCCcccHhhHHHHHHhcC--CCCCCcccCccccccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRS-------YTDTCLHEFCFLCIKQWSQISS--ESSPALCKMSKQRLLLFASA  101 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~-------~~~~CgH~FC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~~~~~~  101 (153)
                      .....+..|.|||+...++.       ++.+|.|.||..||..|.+..+  ..-...||.||.....++.+
T Consensus       156 ~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS  226 (344)
T KOG1039|consen  156 LQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPS  226 (344)
T ss_pred             cCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccc
Confidence            34466788999999988655       3468999999999999985431  11147999999887765443

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

Probab=98.26  E-value=3.9e-07  Score=59.93  Aligned_cols=31  Identities=29%  Similarity=0.732  Sum_probs=27.7

Q ss_pred             CccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          62 DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        62 ~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      -.|.|.|+..||.+|+..+     ..||++|+.+..
T Consensus        52 G~CnHaFH~HCI~rWL~Tk-----~~CPld~q~w~~   82 (88)
T COG5194          52 GVCNHAFHDHCIYRWLDTK-----GVCPLDRQTWVL   82 (88)
T ss_pred             EecchHHHHHHHHHHHhhC-----CCCCCCCceeEE
Confidence            4699999999999999998     999999987653

>KOG0804|consensus

Probab=98.21  E-value=5.5e-07  Score=76.01  Aligned_cols=49  Identities=22%  Similarity=0.578  Sum_probs=39.7

Q ss_pred             CCCCCcccccccccccCcc---ccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRS---YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~---~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ...+-.+|||||+.+...+   +.+.|.|+|+-.|+..|..       .+||+||--..
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~-------~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD-------SSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc-------CcChhhhhhcC
Confidence            3456678999999998554   5568999999999999988       68999985443

>KOG1493|consensus

Probab=98.19  E-value=3.3e-07  Score=59.80  Aligned_cols=48  Identities=29%  Similarity=0.621  Sum_probs=35.6

Q ss_pred             ccccccccccC------------ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          47 RCPICLLVLNN------------RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        47 ~C~ICl~~~~~------------~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      +|.||.-.|..            |.++--|.|.|+..||.+|+..  ......||+||+.+.
T Consensus        22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~--~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNT--PTSQGQCPMCRQTWQ   81 (84)
T ss_pred             ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcC--ccccccCCcchheeE
Confidence            56666665541            3444579999999999999984  344589999998765

>KOG2660|consensus

Probab=98.19  E-value=3.9e-07  Score=74.26  Aligned_cols=51  Identities=25%  Similarity=0.524  Sum_probs=45.5

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....+|.+|-..|.++..++.|.|+||.+||.+++...     ..||.|...+..
T Consensus        12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~-----~~CP~C~i~ih~   62 (331)
T KOG2660|consen   12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES-----KYCPTCDIVIHK   62 (331)
T ss_pred             cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh-----ccCCccceeccC
Confidence            455678999999999999889999999999999999987     999999877754

>KOG0978|consensus

Probab=98.16  E-value=6e-07  Score=79.83  Aligned_cols=50  Identities=16%  Similarity=0.393  Sum_probs=41.7

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..-..||+|-..+.+.++ +.|||.||..|+.+.....    ...||.|...|..
T Consensus       641 K~~LkCs~Cn~R~Kd~vI-~kC~H~FC~~Cvq~r~etR----qRKCP~Cn~aFga  690 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVI-TKCGHVFCEECVQTRYETR----QRKCPKCNAAFGA  690 (698)
T ss_pred             HhceeCCCccCchhhHHH-HhcchHHHHHHHHHHHHHh----cCCCCCCCCCCCc
Confidence            344679999998989888 6899999999999966654    3899999988765

>KOG0824|consensus

Probab=98.13  E-value=1.3e-06  Score=70.47  Aligned_cols=49  Identities=24%  Similarity=0.502  Sum_probs=40.0

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      ...|+||+....-|+. ..|+|.||+-||..-.+..    +..|++||.+|.+.
T Consensus         7 ~~eC~IC~nt~n~Pv~-l~C~HkFCyiCiKGsy~nd----k~~CavCR~pids~   55 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVN-LYCFHKFCYICIKGSYKND----KKTCAVCRFPIDST   55 (324)
T ss_pred             CCcceeeeccCCcCcc-ccccchhhhhhhcchhhcC----CCCCceecCCCCcc
Confidence            4459999999999977 5799999999998744433    36899999999873

>KOG0297|consensus

Probab=98.10  E-value=1.6e-06  Score=73.18  Aligned_cols=52  Identities=33%  Similarity=0.624  Sum_probs=45.9

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....+..|+||+.++.+|...+.|||.||..|+..|...+     ..||.|+..+..
T Consensus        17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~-----~~cp~~~~~~~~   68 (391)
T KOG0297|consen   17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNH-----QKCPVCRQELTQ   68 (391)
T ss_pred             CCcccccCccccccccCCCCCCCCCCcccccccchhhccC-----cCCcccccccch
Confidence            3677889999999999999855899999999999999887     899999877654

>KOG4159|consensus

Probab=98.09  E-value=1.6e-06  Score=73.19  Aligned_cols=50  Identities=20%  Similarity=0.497  Sum_probs=43.2

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...+..|.||+..+..|+. ++|||+||..||.+-+...     ..||+||..+..
T Consensus        81 ~~sef~c~vc~~~l~~pv~-tpcghs~c~~Cl~r~ld~~-----~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPVV-TPCGHSFCLECLDRSLDQE-----TECPLCRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCCCcc-ccccccccHHHHHHHhccC-----CCCccccccccc
Confidence            3677889999999999999 5999999999999866655     899999987763

>KOG4265|consensus

Probab=98.05  E-value=3.2e-06  Score=69.62  Aligned_cols=51  Identities=22%  Similarity=0.424  Sum_probs=42.4

Q ss_pred             CCCcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFA   99 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~   99 (153)
                      .....|.|||....+-+++ ||.|. .|..|.....-+.     +.||+||+++...+
T Consensus       288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q~-----n~CPICRqpi~~ll  339 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQT-----NNCPICRQPIEELL  339 (349)
T ss_pred             cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHhh-----cCCCccccchHhhh
Confidence            4456699999999998885 89997 8999988776555     89999999998744

>KOG2879|consensus

Probab=97.97  E-value=1.8e-05  Score=63.34  Aligned_cols=52  Identities=17%  Similarity=0.466  Sum_probs=40.7

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ...+.+|++|-+....|.+..+|||.||+.||..-...   ..+..||.|-....
T Consensus       236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~---~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLW---DASFTCPLCGENVE  287 (298)
T ss_pred             ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcc---hhhcccCccCCCCc
Confidence            45667899999999999987889999999999873221   12379999976544

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

Probab=97.94  E-value=2.6e-06  Score=55.19  Aligned_cols=53  Identities=19%  Similarity=0.418  Sum_probs=25.2

Q ss_pred             Cccccccccccc-C---ccc-c--CccCCcccHhhHHHHHHhcCCCC------CCcccCccccccc
Q psy6056          45 TSRCPICLLVLN-N---RSY-T--DTCLHEFCFLCIKQWSQISSESS------PALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~-~---~~~-~--~~CgH~FC~~Ci~~~~~~~~~~~------~~~CP~Cr~~~~~   97 (153)
                      +..|+||+..+. +   |.+ -  ..|+..||..||.+|+.......      ...||.|++++.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            346999998755 2   211 1  27999999999999987532111      2469999988753

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

Probab=97.90  E-value=5.2e-06  Score=51.71  Aligned_cols=45  Identities=24%  Similarity=0.428  Sum_probs=31.6

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccC
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM   90 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~   90 (153)
                      .....|||.+..+.+|+....|||.|-...|.+|++..   ....||.
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~---~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN---GSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT---S-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc---CCCCCCC
Confidence            44578999999999999978999999999999999332   3478998

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

Probab=97.84  E-value=6.6e-06  Score=63.14  Aligned_cols=47  Identities=23%  Similarity=0.383  Sum_probs=38.3

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...|.||.+.+..|++ +.|||+||..|..+-.+..     ..|-+|-+....
T Consensus       196 PF~C~iCKkdy~spvv-t~CGH~FC~~Cai~~y~kg-----~~C~~Cgk~t~G  242 (259)
T COG5152         196 PFLCGICKKDYESPVV-TECGHSFCSLCAIRKYQKG-----DECGVCGKATYG  242 (259)
T ss_pred             ceeehhchhhccchhh-hhcchhHHHHHHHHHhccC-----Ccceecchhhcc
Confidence            4579999999999999 6899999999976644444     799999765543

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

Probab=97.82  E-value=7.2e-06  Score=74.79  Aligned_cols=52  Identities=29%  Similarity=0.654  Sum_probs=39.2

Q ss_pred             CCCccccccccccc--Ccc----ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLN--NRS----YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~--~~~----~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +....|+||+..+.  +..    ...+|.|.||..|+.+|.+.+   +..+||+||..++.
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss---~~s~CPlCRseitf 1524 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS---ARSNCPLCRSEITF 1524 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc---CCCCCCcccccccc
Confidence            34456999998876  221    223799999999999999864   45799999987653

>KOG0825|consensus

Probab=97.75  E-value=6e-06  Score=73.96  Aligned_cols=48  Identities=25%  Similarity=0.597  Sum_probs=39.4

Q ss_pred             cccccccccccCccc--cCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          46 SRCPICLLVLNNRSY--TDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~--~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      ..|++|+..+.+.-+  -.+|+|.||..||..|....     .+||+||..|..+
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a-----qTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA-----QTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc-----ccCchhhhhhhee
Confidence            358899887774332  23799999999999999988     9999999998864

>KOG0828|consensus

Probab=97.74  E-value=1.3e-05  Score=68.66  Aligned_cols=50  Identities=24%  Similarity=0.533  Sum_probs=38.3

Q ss_pred             CCCcccccccccccC-----c-----------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          43 SPTSRCPICLLVLNN-----R-----------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~-----~-----------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .....|+|||..+.-     +           -+++||.|.|+..|+.+|...-    ...||.||.++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y----kl~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY----KLICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh----cccCCccCCCCC
Confidence            344569999988651     1           2346999999999999999954    169999998764

>KOG4692|consensus

Probab=97.70  E-value=2.7e-05  Score=64.49  Aligned_cols=56  Identities=29%  Similarity=0.529  Sum_probs=47.0

Q ss_pred             CCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          36 SDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        36 ~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...+.+.+++..||||+....+.+. .||+|.-|+.||.+.+...     +.|=.|+..+..
T Consensus       413 ~~~~lp~sEd~lCpICyA~pi~Avf-~PC~H~SC~~CI~qHlmN~-----k~CFfCktTv~~  468 (489)
T KOG4692|consen  413 FNKDLPDSEDNLCPICYAGPINAVF-APCSHRSCYGCITQHLMNC-----KRCFFCKTTVID  468 (489)
T ss_pred             hcCCCCCcccccCcceecccchhhc-cCCCCchHHHHHHHHHhcC-----CeeeEecceeee
Confidence            3444556788899999998888888 7999999999999988877     899999987664

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

Probab=97.67  E-value=3.6e-05  Score=46.40  Aligned_cols=42  Identities=21%  Similarity=0.467  Sum_probs=30.8

Q ss_pred             cccccccc--ccCccccCccC-----CcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056          47 RCPICLLV--LNNRSYTDTCL-----HEFCFLCIKQWSQISSESSPALCKMSK   92 (153)
Q Consensus        47 ~C~ICl~~--~~~~~~~~~Cg-----H~FC~~Ci~~~~~~~~~~~~~~CP~Cr   92 (153)
                      .|.||++.  -.++.+ .||.     |.+|..|+.+|+..+   ...+||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~-~PC~C~G~~~~vH~~Cl~~W~~~~---~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLV-SPCRCKGSLKYVHQECLERWINES---GNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeE-eccccCCchhHHHHHHHHHHHHHc---CCCcCCCCC
Confidence            48999972  224444 5784     889999999999765   125999994

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

>KOG1813|consensus

Probab=97.64  E-value=2.3e-05  Score=63.30  Aligned_cols=49  Identities=22%  Similarity=0.324  Sum_probs=41.3

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFA   99 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~   99 (153)
                      ...|-||...|.+|++ +.|+|.||..|...-.+..     ..|++|.+.+..++
T Consensus       241 Pf~c~icr~~f~~pVv-t~c~h~fc~~ca~~~~qk~-----~~c~vC~~~t~g~~  289 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVV-TKCGHYFCEVCALKPYQKG-----EKCYVCSQQTHGSF  289 (313)
T ss_pred             Cccccccccccccchh-hcCCceeehhhhccccccC-----Ccceeccccccccc
Confidence            3459999999999999 6899999999987766665     79999988776643

>KOG2930|consensus

Probab=97.59  E-value=3.1e-05  Score=53.38  Aligned_cols=44  Identities=25%  Similarity=0.671  Sum_probs=34.0

Q ss_pred             cccccccccccCc----------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056          46 SRCPICLLVLNNR----------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR   94 (153)
Q Consensus        46 ~~C~ICl~~~~~~----------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~   94 (153)
                      ..|+||.-.+-+.                +.--.|.|.|++.||.+|++++     ..||+|.+.
T Consensus        47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr-----~vCPLdn~e  106 (114)
T KOG2930|consen   47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTR-----NVCPLDNKE  106 (114)
T ss_pred             chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhc-----CcCCCcCcc
Confidence            4699997654421                1122699999999999999999     999999764

>KOG0827|consensus

Probab=97.56  E-value=3.8e-05  Score=64.13  Aligned_cols=46  Identities=26%  Similarity=0.482  Sum_probs=33.9

Q ss_pred             ccccccccccc---CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          46 SRCPICLLVLN---NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        46 ~~C~ICl~~~~---~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      ..|.||-+-+.   +...+..|||+|+..|+.+|....  ...+.||+|+-
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~--Ps~R~cpic~i   53 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGD--PSNRGCPICQI   53 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccC--CccCCCCceee
Confidence            35999966544   223334699999999999999964  33379999983

>KOG1785|consensus

Probab=97.56  E-value=2.8e-05  Score=65.24  Aligned_cols=48  Identities=19%  Similarity=0.496  Sum_probs=39.6

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|.||-+.-.+..+ .+|||..|..|+..|....   ....||.||-.|..
T Consensus       370 eLCKICaendKdvkI-EPCGHLlCt~CLa~WQ~sd---~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDKDVKI-EPCGHLLCTSCLAAWQDSD---EGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCCCccc-ccccchHHHHHHHhhcccC---CCCCCCceeeEecc
Confidence            459999998777666 7999999999999997643   25899999988764

>KOG1734|consensus

Probab=97.49  E-value=2.5e-05  Score=62.42  Aligned_cols=52  Identities=25%  Similarity=0.607  Sum_probs=38.3

Q ss_pred             CCCcccccccccccCc---------cccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNR---------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~---------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .++..|.||-..+...         ....+|+|.||..||..|--..   ...+||.|+..+..
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG---KkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG---KKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeec---CCCCCchHHHHhhH
Confidence            4567799998876632         2334899999999999995431   13899999877654

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

Probab=97.40  E-value=0.00019  Score=58.39  Aligned_cols=72  Identities=28%  Similarity=0.478  Sum_probs=50.3

Q ss_pred             hHHHHHHHHHHhhchHH-HHhhhccCCCCCCCCCCCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHH-Hhc
Q psy6056           3 ESLFRQTQKRRLELPEI-QQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWS-QIS   80 (153)
Q Consensus         3 ~~~~r~~~~~r~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~-~~~   80 (153)
                      ++-|+..+.++.++..+ .+.-+              .....-.+.|+.|-..+.+|+.+..|+|.||..||...+ ...
T Consensus       245 vqsWe~Yq~r~~a~~~~~Dqv~k--------------~~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsD  310 (427)
T COG5222         245 VQSWEKYQQRTKAVAEIPDQVYK--------------MQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSD  310 (427)
T ss_pred             hHHHHHHHHHHHhhhhCchhhhc--------------cCCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhhhcc
Confidence            34588888888776433 11110              011122267999999999999877899999999998754 445


Q ss_pred             CCCCCCcccCccc
Q psy6056          81 SESSPALCKMSKQ   93 (153)
Q Consensus        81 ~~~~~~~CP~Cr~   93 (153)
                           ..||.|..
T Consensus       311 -----f~CpnC~r  318 (427)
T COG5222         311 -----FKCPNCSR  318 (427)
T ss_pred             -----ccCCCccc
Confidence                 89999954

>KOG1571|consensus

Probab=97.40  E-value=0.00013  Score=60.27  Aligned_cols=50  Identities=24%  Similarity=0.515  Sum_probs=38.1

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      ...+....|.||++...+.+.+ +|||.-|  |..-..+ .     ..||+||+.+...
T Consensus       300 ~~~~~p~lcVVcl~e~~~~~fv-pcGh~cc--ct~cs~~-l-----~~CPvCR~rI~~~  349 (355)
T KOG1571|consen  300 RELPQPDLCVVCLDEPKSAVFV-PCGHVCC--CTLCSKH-L-----PQCPVCRQRIRLV  349 (355)
T ss_pred             cccCCCCceEEecCCccceeee-cCCcEEE--chHHHhh-C-----CCCchhHHHHHHH
Confidence            3456667899999999998774 8999876  7654333 3     5799999988764

>KOG0826|consensus

Probab=97.33  E-value=0.00014  Score=59.54  Aligned_cols=45  Identities=22%  Similarity=0.508  Sum_probs=39.4

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK   92 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr   92 (153)
                      .....||||+....+|.++..-|..||+.||-.+....     +.||+=-
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~-----~~CPVT~  342 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNY-----GHCPVTG  342 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhc-----CCCCccC
Confidence            34457999999999999988899999999999999987     8999743

>KOG1002|consensus

Probab=97.20  E-value=0.00014  Score=63.11  Aligned_cols=52  Identities=25%  Similarity=0.530  Sum_probs=41.8

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ....|.+|-++-.+++. +.|-|.||..||.+|...-..+...+||.|...++
T Consensus       535 ~~~~C~lc~d~aed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  535 GEVECGLCHDPAEDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             CceeecccCChhhhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            34569999999999888 68999999999999877533444589999976654

>KOG1645|consensus

Probab=97.15  E-value=0.00024  Score=59.79  Aligned_cols=48  Identities=25%  Similarity=0.543  Sum_probs=36.9

Q ss_pred             CCcccccccccccCc----cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056          44 PTSRCPICLLVLNNR----SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR   94 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~----~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~   94 (153)
                      ...+||||++.+.-+    ++...|||.|-..||++|+.+.   ....||.|...
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~---~~~~cp~c~~k   54 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK---TKMQCPLCSGK   54 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhh---hhhhCcccCCh
Confidence            346799999998844    3335899999999999998532   34789999643

>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=97.15  E-value=0.00043  Score=51.35  Aligned_cols=55  Identities=16%  Similarity=0.399  Sum_probs=36.7

Q ss_pred             CCcccccccccccCccccCc-----------cCCcc-cHhhHHHHHHhcCC--------------------------CCC
Q psy6056          44 PTSRCPICLLVLNNRSYTDT-----------CLHEF-CFLCIKQWSQISSE--------------------------SSP   85 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~-----------CgH~F-C~~Ci~~~~~~~~~--------------------------~~~   85 (153)
                      ++.+|||||+...++++|.-           |+-.| +..||.++.+....                          ...
T Consensus         1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (162)
T PF07800_consen    1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE   80 (162)
T ss_pred             CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence            35689999999999988651           22222 45799887653210                          013


Q ss_pred             CcccCcccccccc
Q psy6056          86 ALCKMSKQRLLLF   98 (153)
Q Consensus        86 ~~CP~Cr~~~~~~   98 (153)
                      ..||+||..+..+
T Consensus        81 L~CPLCRG~V~GW   93 (162)
T PF07800_consen   81 LACPLCRGEVKGW   93 (162)
T ss_pred             ccCccccCceece
Confidence            5799999988763

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.

>KOG4739|consensus

Probab=97.04  E-value=0.00027  Score=55.64  Aligned_cols=45  Identities=29%  Similarity=0.736  Sum_probs=32.6

Q ss_pred             ccccccccccc-CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLN-NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~-~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|..|..... ++-.++.|+|.||..|..       ......||+|++.+..
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k-------~~~~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLK-------ASSPDVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcc-------cCCccccccccceeee
Confidence            34777765443 677889999999999962       2233599999988544

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

Probab=96.96  E-value=0.00064  Score=40.76  Aligned_cols=44  Identities=18%  Similarity=0.532  Sum_probs=20.9

Q ss_pred             cccccccccC--cccc-CccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          48 CPICLLVLNN--RSYT-DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        48 C~ICl~~~~~--~~~~-~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      ||+|.+.+..  .... =+||+..|..|........    ...||-||.++
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~----~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE----GGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-----SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc----CCCCCCCCCCC
Confidence            7899998842  2221 2689999999987766521    38999999875

>KOG4275|consensus

Probab=96.87  E-value=0.00017  Score=58.28  Aligned_cols=44  Identities=23%  Similarity=0.502  Sum_probs=35.7

Q ss_pred             CcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      ...|.|||+...+-+.| +|||. -|..|-.+         +..||+||+.+..+
T Consensus       300 ~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkr---------m~eCPICRqyi~rv  344 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFL-ECGHMVTCTKCGKR---------MNECPICRQYIVRV  344 (350)
T ss_pred             HHHHHHHhcCCcceEEe-ecCcEEeehhhccc---------cccCchHHHHHHHH
Confidence            67899999999999885 79995 68888532         36999999877654

>PHA03096 p28-like protein; Provisional

Probab=96.78  E-value=0.0006  Score=55.37  Aligned_cols=46  Identities=26%  Similarity=0.466  Sum_probs=32.9

Q ss_pred             cccccccccccCc-------cccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          46 SRCPICLLVLNNR-------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        46 ~~C~ICl~~~~~~-------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      ..|.|||+.....       ..+..|.|.||..||..|.....  ....||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~--~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL--YKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh--hcccCccccc
Confidence            5699999987632       35568999999999999987532  2344555543

>KOG3039|consensus

Probab=96.75  E-value=0.00074  Score=53.56  Aligned_cols=49  Identities=16%  Similarity=0.210  Sum_probs=42.1

Q ss_pred             CCCcccccccccccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          43 SPTSRCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      +....||||.+.+.+.   +++.+|||.||..|..+.+...     ..||+|-.++.
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-----~v~pv~d~plk  270 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-----MVDPVTDKPLK  270 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-----ccccCCCCcCc
Confidence            4667899999999965   4667999999999999999988     99999976654

>KOG1941|consensus

Probab=96.28  E-value=0.0014  Score=55.04  Aligned_cols=50  Identities=16%  Similarity=0.292  Sum_probs=37.6

Q ss_pred             CcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..|..|-+.+..   .-...+|.|+||..|+.+++..+   ...+||.||+...+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n---~~rsCP~CrklrSs  417 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN---GTRSCPNCRKLRSS  417 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC---CCCCCccHHHHHhh
Confidence            4569999888762   22224899999999999988654   35899999965554

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

Probab=96.11  E-value=0.0074  Score=50.22  Aligned_cols=63  Identities=14%  Similarity=0.267  Sum_probs=45.6

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHH--HHhcCCCCCCcccCccccccccccccccccccce
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQW--SQISSESSPALCKMSKQRLLLFASATECLQYINV  110 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~--~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~  110 (153)
                      ..+...|-||-+.+.-..+ .||+|..|--|..+.  +-..     ..||+||..-..++.......+|..
T Consensus        58 DEen~~C~ICA~~~TYs~~-~PC~H~~CH~Ca~RlRALY~~-----K~C~~CrTE~e~V~fT~~~~~DI~D  122 (493)
T COG5236          58 DEENMNCQICAGSTTYSAR-YPCGHQICHACAVRLRALYMQ-----KGCPLCRTETEAVVFTASSPADITD  122 (493)
T ss_pred             ccccceeEEecCCceEEEe-ccCCchHHHHHHHHHHHHHhc-----cCCCccccccceEEEecCCCCcchh
Confidence            3455679999998887666 589999999998764  3334     7999999887765544445555443

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=95.97  E-value=0.011  Score=43.97  Aligned_cols=50  Identities=18%  Similarity=0.329  Sum_probs=35.6

Q ss_pred             CCCcccccccccccCccccCccC--C---cccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCL--H---EFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..+..|-||.+.... .. .||.  .   .-|.+|+.+|...+   +...|++|+.++..
T Consensus         6 ~~~~~CRIC~~~~~~-~~-~PC~CkGs~k~VH~sCL~rWi~~s---~~~~CeiC~~~Y~i   60 (162)
T PHA02825          6 LMDKCCWICKDEYDV-VT-NYCNCKNENKIVHKECLEEWINTS---KNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCeeEecCCCCCC-cc-CCcccCCCchHHHHHHHHHHHhcC---CCCcccccCCeEEE
Confidence            345679999988542 22 4564  3   23899999999854   45799999887753

>KOG1001|consensus

Probab=95.84  E-value=0.003  Score=56.94  Aligned_cols=47  Identities=32%  Similarity=0.575  Sum_probs=35.8

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|.||++ ...++. +.|+|.||..|+...+...   ....||+||..+..
T Consensus       455 ~~c~ic~~-~~~~~i-t~c~h~~c~~c~~~~i~~~---~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFI-TRCGHDFCVECLKKSIQQS---ENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-ccccee-ecccchHHHHHHHhccccc---cCCCCcHHHHHHHH
Confidence            78999999 444444 7899999999998865543   12389999977753

>KOG4445|consensus

Probab=95.76  E-value=0.0027  Score=51.71  Aligned_cols=69  Identities=20%  Similarity=0.486  Sum_probs=43.7

Q ss_pred             CCcccccccccccCc--cccCccCCcccHhhHHHHHH------------------hcCCCCCCcccCccccccccccccc
Q psy6056          44 PTSRCPICLLVLNNR--SYTDTCLHEFCFLCIKQWSQ------------------ISSESSPALCKMSKQRLLLFASATE  103 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~--~~~~~CgH~FC~~Ci~~~~~------------------~~~~~~~~~CP~Cr~~~~~~~~~~~  103 (153)
                      ....|.|||.-|.+.  ...+.|-|.|++.|+.+++.                  ..+..-...||+||..|..-..+++
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~slk  193 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSLK  193 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccccee
Confidence            345699999988842  45579999999999987642                  1111123579999988875333332


Q ss_pred             cccccceEec
Q psy6056         104 CLQYINVYDI  113 (153)
Q Consensus       104 ~~~~~~~~~~  113 (153)
                      . ..+++|.+
T Consensus       194 ~-a~~Pt~~l  202 (368)
T KOG4445|consen  194 I-AEFPTYPM  202 (368)
T ss_pred             c-cCCCcccc
Confidence            2 23344444

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.75  E-value=0.01  Score=47.46  Aligned_cols=50  Identities=18%  Similarity=0.245  Sum_probs=39.7

Q ss_pred             CCCCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ......|||....|..   -+.+.+|||.|+..+|.... ..     ..||+|-.+|..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~-----~~Cp~c~~~f~~  162 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KS-----KKCPVCGKPFTE  162 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-cc-----ccccccCCcccc
Confidence            4566789999999863   35667999999999998863 23     689999888764

>KOG2114|consensus

Probab=95.67  E-value=0.0022  Score=58.34  Aligned_cols=44  Identities=20%  Similarity=0.323  Sum_probs=36.8

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|.+|--.+.-|++--.|||+||..|+.   ...     ..||.|+.....
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~-----~~CP~C~~e~~~  884 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKE-----DKCPKCLPELRG  884 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhc---cCc-----ccCCccchhhhh
Confidence            57999999999999878999999999986   233     799999875543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.41  E-value=0.011  Score=49.14  Aligned_cols=50  Identities=16%  Similarity=0.536  Sum_probs=34.5

Q ss_pred             CCCccccccccccc--Cccc-cCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          43 SPTSRCPICLLVLN--NRSY-TDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~--~~~~-~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ++++.||.|++.+.  +.-. .-+||...|.-|-....+.-    ...||-||..+.
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l----ngrcpacrr~y~   64 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL----NGRCPACRRKYD   64 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc----cCCChHhhhhcc
Confidence            34456999999977  3322 23789988888865544332    279999998775

>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=95.29  E-value=0.0062  Score=36.73  Aligned_cols=48  Identities=17%  Similarity=0.399  Sum_probs=25.2

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR   94 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~   94 (153)
                      +.|||....+..|+....|.|.-|++- ..|+........-.||.|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence            579999999999999889999988765 344433211223679999753

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.

>PHA02862 5L protein; Provisional

Probab=95.12  E-value=0.019  Score=42.13  Aligned_cols=46  Identities=24%  Similarity=0.478  Sum_probs=34.2

Q ss_pred             cccccccccccCccccCccCC-----cccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLH-----EFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH-----~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ..|-||.+.-.+. . .||.-     .-|..|+.+|+..+   +...|++|+.++.
T Consensus         3 diCWIC~~~~~e~-~-~PC~C~GS~K~VHq~CL~~WIn~S---~k~~CeLCkteY~   53 (156)
T PHA02862          3 DICWICNDVCDER-N-NFCGCNEEYKVVHIKCMQLWINYS---KKKECNLCKTKYN   53 (156)
T ss_pred             CEEEEecCcCCCC-c-ccccccCcchhHHHHHHHHHHhcC---CCcCccCCCCeEE
Confidence            5699999986544 2 46643     35899999999753   4589999998775

>KOG0298|consensus

Probab=95.00  E-value=0.0052  Score=58.19  Aligned_cols=49  Identities=33%  Similarity=0.542  Sum_probs=41.3

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      ......|.||++.+.+-.....|||.+|..|+..|...+     ..||.|+...
T Consensus      1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~-----s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYAS-----SRCPICKSIK 1198 (1394)
T ss_pred             hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHh-----ccCcchhhhh
Confidence            455568999999999555557899999999999999998     8999997444

>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=94.94  E-value=0.0078  Score=41.02  Aligned_cols=34  Identities=26%  Similarity=0.529  Sum_probs=26.7

Q ss_pred             CCCCCcccccccccccCc-cccCccCCcccHhhHH
Q psy6056          41 PTSPTSRCPICLLVLNNR-SYTDTCLHEFCFLCIK   74 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~-~~~~~CgH~FC~~Ci~   74 (153)
                      ...++..|++|-..+.+. ....||||.||..|+.
T Consensus        74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            345667799999998854 4445999999999974

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 [].

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

Probab=94.89  E-value=0.03  Score=46.93  Aligned_cols=31  Identities=16%  Similarity=0.564  Sum_probs=22.9

Q ss_pred             cccHhhHHHHHHhcC--------CCCCCcccCccccccc
Q psy6056          67 EFCFLCIKQWSQISS--------ESSPALCKMSKQRLLL   97 (153)
Q Consensus        67 ~FC~~Ci~~~~~~~~--------~~~~~~CP~Cr~~~~~   97 (153)
                      ..|.+|+-+|...++        -.+...||.||+.|.-
T Consensus       314 mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  314 MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            447899999977543        2335789999998864

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

>KOG3970|consensus

Probab=94.87  E-value=0.025  Score=44.52  Aligned_cols=54  Identities=17%  Similarity=0.397  Sum_probs=40.4

Q ss_pred             CCCccccccccccc--CccccCccCCcccHhhHHHHHHhcC---CCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISS---ESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~---~~~~~~CP~Cr~~~~~   97 (153)
                      +....|..|-..+.  +.+. ..|-|.|++.|+.+|...-+   ......||-|.++|..
T Consensus        48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            34456999988877  3344 47999999999999976422   5556899999887753

>KOG1814|consensus

Probab=94.83  E-value=0.012  Score=49.71  Aligned_cols=50  Identities=26%  Similarity=0.389  Sum_probs=34.9

Q ss_pred             CCCcccccccccccC--ccccCccCCcccHhhHHHHHHhcC---CCCCCcccCcc
Q psy6056          43 SPTSRCPICLLVLNN--RSYTDTCLHEFCFLCIKQWSQISS---ESSPALCKMSK   92 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~--~~~~~~CgH~FC~~Ci~~~~~~~~---~~~~~~CP~Cr   92 (153)
                      .....|.||++....  -.+..+|+|.||..|+..|.....   ..+...||-+.
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            334569999998663  345569999999999999855322   33346787664

>KOG4185|consensus

Probab=94.57  E-value=0.023  Score=45.94  Aligned_cols=45  Identities=22%  Similarity=0.437  Sum_probs=35.4

Q ss_pred             ccccccccccc------CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          46 SRCPICLLVLN------NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        46 ~~C~ICl~~~~------~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      ..|-||-+.|.      .|..+ .|||.||..|+.+.....    ...||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~----~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNS----RILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCc----eeeccCCCCcc
Confidence            45999988887      35554 599999999998866554    37899999884

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

Probab=94.56  E-value=0.025  Score=33.62  Aligned_cols=41  Identities=22%  Similarity=0.522  Sum_probs=25.5

Q ss_pred             cccccccccCcc-ccCccC--C---cccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          48 CPICLLVLNNRS-YTDTCL--H---EFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        48 C~ICl~~~~~~~-~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      |-||++.-.+.. +..||+  -   ..|..||.+|+..+   ....|++|
T Consensus         1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~---~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRES---GNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHH---T-SB-TTT
T ss_pred             CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhc---CCCcCCCC
Confidence            678888766332 335664  2   46899999998853   23678887

>KOG2932|consensus

Probab=94.21  E-value=0.015  Score=47.74  Aligned_cols=42  Identities=21%  Similarity=0.597  Sum_probs=28.6

Q ss_pred             cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      |--|--.+..-..+.+|.|.||.+|...  ...     +.||+|-..+.
T Consensus        93 Cd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~d-----K~Cp~C~d~Vq  134 (389)
T KOG2932|consen   93 CDRCDFPIAIYGRMIPCKHVFCLECARS--DSD-----KICPLCDDRVQ  134 (389)
T ss_pred             ecccCCcceeeecccccchhhhhhhhhc--Ccc-----ccCcCcccHHH
Confidence            6666555554444569999999999642  223     79999965554

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.08  E-value=0.024  Score=34.85  Aligned_cols=45  Identities=18%  Similarity=0.301  Sum_probs=31.3

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...|-.|...-...++ .+|||..|..|..-+       ....||.|-.++..
T Consensus         7 ~~~~~~~~~~~~~~~~-~pCgH~I~~~~f~~~-------rYngCPfC~~~~~~   51 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTV-LPCGHLICDNCFPGE-------RYNGCPFCGTPFEF   51 (55)
T ss_pred             ceeEEEcccccccccc-ccccceeeccccChh-------hccCCCCCCCcccC
Confidence            3457777665445555 589999999996432       23799999887653

>KOG1812|consensus

Probab=94.05  E-value=0.043  Score=46.45  Aligned_cols=47  Identities=26%  Similarity=0.530  Sum_probs=30.6

Q ss_pred             CCcccccccccccCc---cccCccCCcccHhhHHHHHHhcC-CCCCCcccC
Q psy6056          44 PTSRCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISS-ESSPALCKM   90 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~   90 (153)
                      ....|.||+......   .....|+|.||..|..++...+. .+....||.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~  195 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH  195 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence            356799999333321   12347999999999999877432 333466753

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

Probab=94.04  E-value=0.042  Score=39.79  Aligned_cols=51  Identities=16%  Similarity=0.361  Sum_probs=38.4

Q ss_pred             CcccccccccccCccccC---ccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTD---TCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~---~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      -..|.||.|.-.+...+.   -||...|..|-...++..  .-...||.|+..+.+
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~--~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFC--NLYPVCPVCKTSFKS  133 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHc--ccCCCCCcccccccc
Confidence            356999999877765544   599999999987755531  234899999988765

>KOG1428|consensus

Probab=94.02  E-value=0.037  Score=53.63  Aligned_cols=57  Identities=16%  Similarity=0.272  Sum_probs=39.7

Q ss_pred             CCCCCccccccccccc--CccccCccCCcccHhhHHHHHHhcC-----CCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISS-----ESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~-----~~~~~~CP~Cr~~~~~   97 (153)
                      ..+.+.+|-||+..--  .|.+...|+|.|+..|....+...=     .-....||+|+..+..
T Consensus      3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            4567788999976543  4555458999999999876544321     1123689999988764

>KOG3002|consensus

Probab=93.85  E-value=0.038  Score=45.30  Aligned_cols=47  Identities=19%  Similarity=0.345  Sum_probs=36.4

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..-..||||.+.+..|+.--.=||.-|..|-.   +..     ..||.||.++..
T Consensus        46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~-----~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVS-----NKCPTCRLPIGN   92 (299)
T ss_pred             hhhccCchhhccCcccceecCCCcEehhhhhh---hhc-----ccCCcccccccc
Confidence            34457999999999988732338999999963   344     799999998874

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

Probab=93.75  E-value=0.017  Score=41.84  Aligned_cols=35  Identities=29%  Similarity=0.513  Sum_probs=26.5

Q ss_pred             cccccccccccC--ccccCccC------CcccHhhHHHHHHhc
Q psy6056          46 SRCPICLLVLNN--RSYTDTCL------HEFCFLCIKQWSQIS   80 (153)
Q Consensus        46 ~~C~ICl~~~~~--~~~~~~Cg------H~FC~~Ci~~~~~~~   80 (153)
                      ..|.||++.+.+  .++..+||      |.||..|+.+|....
T Consensus        27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence            459999999887  44434675      679999999995433

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.

>KOG1952|consensus

Probab=93.70  E-value=0.053  Score=49.69  Aligned_cols=52  Identities=23%  Similarity=0.481  Sum_probs=36.9

Q ss_pred             CcccccccccccC--cc-ccCccCCcccHhhHHHHHHhcC--CCCCCcccCcccccc
Q psy6056          45 TSRCPICLLVLNN--RS-YTDTCLHEFCFLCIKQWSQISS--ESSPALCKMSKQRLL   96 (153)
Q Consensus        45 ~~~C~ICl~~~~~--~~-~~~~CgH~FC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~   96 (153)
                      ...|.||++.+..  ++ .-.+|-|.|+..||.+|.....  ....-.||.|+....
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            3469999998873  32 1126789999999999987532  234568999984443

>KOG4367|consensus

Probab=93.21  E-value=0.05  Score=46.70  Aligned_cols=35  Identities=20%  Similarity=0.561  Sum_probs=29.5

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHH
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ   78 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~   78 (153)
                      .+++.|+||...|.+|+++ +|+|..|..|....+.
T Consensus         2 eeelkc~vc~~f~~epiil-~c~h~lc~~ca~~~~~   36 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIIL-PCSHNLCQACARNILV   36 (699)
T ss_pred             cccccCceehhhccCceEe-ecccHHHHHHHHhhcc
Confidence            3567899999999999995 7999999999876544

>KOG3579|consensus

Probab=92.98  E-value=0.095  Score=42.62  Aligned_cols=47  Identities=26%  Similarity=0.649  Sum_probs=33.8

Q ss_pred             CCCCcccccccccccCccccCcc----CCcccHhhHHHHHHhcCCCCCCccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTC----LHEFCFLCIKQWSQISSESSPALCK   89 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~C----gH~FC~~Ci~~~~~~~~~~~~~~CP   89 (153)
                      ....+.|.+|.|.+.|.-.+ .|    .|.||+.|-.+-++..-......||
T Consensus       265 ~~apLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Qg~sgevYCP  315 (352)
T KOG3579|consen  265 PSAPLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQGASGEVYCP  315 (352)
T ss_pred             CCCceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhhcCCCceeCC
Confidence            44557899999999986553 35    7999999998877754333345555

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

Probab=92.96  E-value=0.088  Score=30.67  Aligned_cols=41  Identities=17%  Similarity=0.369  Sum_probs=21.7

Q ss_pred             cccccccccCccccC--ccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          48 CPICLLVLNNRSYTD--TCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        48 C~ICl~~~~~~~~~~--~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      |.+|.+.......-.  .|+=.+|..|+..++....   ...||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~---~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS---NPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S---S-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC---CCCCcCC
Confidence            667877666444322  5888999999999887651   1379987

; PDB: 3NW0_A 2CT0_A.

>KOG1940|consensus

Probab=92.36  E-value=0.085  Score=42.72  Aligned_cols=42  Identities=21%  Similarity=0.392  Sum_probs=34.5

Q ss_pred             ccccccccccc----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          46 SRCPICLLVLN----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        46 ~~C~ICl~~~~----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      ..||||.+.+.    .+.. .+|||.-+..|+.......     ..||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~-~~CgH~~h~~cf~e~~~~~-----y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGV-LKCGHYMHSRCFEEMICEG-----YTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCc-cCcccchHHHHHHHHhccC-----CCCCcccc
Confidence            34999998766    3444 4899999999999887776     99999988

>KOG1100|consensus

Probab=92.19  E-value=0.21  Score=38.84  Aligned_cols=40  Identities=18%  Similarity=0.371  Sum_probs=29.4

Q ss_pred             cccccccccCccccCccCC-cccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          48 CPICLLVLNNRSYTDTCLH-EFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        48 C~ICl~~~~~~~~~~~CgH-~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      |-.|-+.-.. +++.||.| .+|..|-..         ...||+|+.+..+
T Consensus       161 Cr~C~~~~~~-VlllPCrHl~lC~~C~~~---------~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGEREAT-VLLLPCRHLCLCGICDES---------LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcCCce-EEeecccceEeccccccc---------CccCCCCcChhhc
Confidence            9999886555 45569998 489999421         2689999876654

>KOG3053|consensus

Probab=91.97  E-value=0.12  Score=41.43  Aligned_cols=57  Identities=12%  Similarity=0.338  Sum_probs=40.5

Q ss_pred             CCCCCcccccccccccCccc---cCccC-----CcccHhhHHHHHHhcCC---CCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSY---TDTCL-----HEFCFLCIKQWSQISSE---SSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~---~~~Cg-----H~FC~~Ci~~~~~~~~~---~~~~~CP~Cr~~~~~   97 (153)
                      ....+..|-||+..-.|...   ..||.     |--|..||..|...+..   .+...||.|+..+.-
T Consensus        16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            34556789999987664322   23552     56789999999876543   556799999987764

>KOG3039|consensus

Probab=91.93  E-value=0.11  Score=41.45  Aligned_cols=34  Identities=15%  Similarity=0.071  Sum_probs=29.6

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHH
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ   78 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~   78 (153)
                      +-..|+.||.++.+|++ ++=||.||..||.+++.
T Consensus        42 ~FdcCsLtLqPc~dPvi-t~~GylfdrEaILe~il   75 (303)
T KOG3039|consen   42 PFDCCSLTLQPCRDPVI-TPDGYLFDREAILEYIL   75 (303)
T ss_pred             CcceeeeecccccCCcc-CCCCeeeeHHHHHHHHH
Confidence            34579999999999999 68999999999998754

>KOG2034|consensus

Probab=91.87  E-value=0.067  Score=49.21  Aligned_cols=36  Identities=25%  Similarity=0.376  Sum_probs=29.3

Q ss_pred             CCCCccccccccccc-CccccCccCCcccHhhHHHHH
Q psy6056          42 TSPTSRCPICLLVLN-NRSYTDTCLHEFCFLCIKQWS   77 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~-~~~~~~~CgH~FC~~Ci~~~~   77 (153)
                      ..+...|.+|...+- .|.++-+|||.||+.||.+..
T Consensus       814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence            455677999988876 666777999999999998753

>KOG3268|consensus

Probab=91.53  E-value=0.14  Score=39.05  Aligned_cols=51  Identities=18%  Similarity=0.391  Sum_probs=34.1

Q ss_pred             ccccccccccCccc------cCccCCcccHhhHHHHHHhcC------CCCCCcccCccccccc
Q psy6056          47 RCPICLLVLNNRSY------TDTCLHEFCFLCIKQWSQISS------ESSPALCKMSKQRLLL   97 (153)
Q Consensus        47 ~C~ICl~~~~~~~~------~~~CgH~FC~~Ci~~~~~~~~------~~~~~~CP~Cr~~~~~   97 (153)
                      .|.||+..--+.+.      -..||..||.-|+..|+..--      +.-...||.|..++..
T Consensus       167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            58888765333221      127999999999999987421      1113679999877653

>KOG3800|consensus

Probab=90.88  E-value=0.17  Score=41.10  Aligned_cols=46  Identities=26%  Similarity=0.515  Sum_probs=32.8

Q ss_pred             cccccccc-ccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          47 RCPICLLV-LNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        47 ~C~ICl~~-~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .||+|... +.+|   .+..+|+|..|.+|........    ...||.|-..+-
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g----~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG----PAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcC----CCCCCcccchhh
Confidence            48899544 3344   2335999999999998866654    389999965543

>KOG4362|consensus

Probab=89.37  E-value=0.088  Score=47.40  Aligned_cols=48  Identities=27%  Similarity=0.586  Sum_probs=35.9

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ..|+||+..+..|+. ..|-|.||..|+..-+...  .....||+|+..+.
T Consensus        22 lEc~ic~~~~~~p~~-~kc~~~~l~~~~n~~f~~~--~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   22 LECPICLEHVKEPSL-LKCDHIFLKFCLNKLFESK--KGPKQCALCKSDIE   69 (684)
T ss_pred             ccCCceeEEeeccch-hhhhHHHHhhhhhceeecc--Cccccchhhhhhhh
Confidence            459999999999966 5799999999987733321  11378999985443

>KOG3161|consensus

Probab=89.05  E-value=0.16  Score=45.54  Aligned_cols=40  Identities=28%  Similarity=0.531  Sum_probs=30.4

Q ss_pred             CCccccccccccc----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056          44 PTSRCPICLLVLN----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK   92 (153)
Q Consensus        44 ~~~~C~ICl~~~~----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr   92 (153)
                      +-..|+||+..|.    .|+.+ -|||..|..|+...-.       .+|| |+
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn-------~scp-~~   53 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYN-------ASCP-TK   53 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhh-------ccCC-CC
Confidence            3457999987776    56774 6999999999977444       5788 54

>KOG1815|consensus

Probab=88.31  E-value=0.34  Score=41.67  Aligned_cols=54  Identities=17%  Similarity=0.309  Sum_probs=37.2

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCC-C--Ccc--cCcccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESS-P--ALC--KMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~-~--~~C--P~Cr~~~~   96 (153)
                      .....|.||.+.+........|||.||..|...++..+-... .  .+|  +-|++.+.
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~  126 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVG  126 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCC
Confidence            455789999999876444458999999999999877543111 1  345  45665554

>KOG0825|consensus

Probab=87.91  E-value=0.52  Score=43.35  Aligned_cols=59  Identities=10%  Similarity=0.181  Sum_probs=37.9

Q ss_pred             CCCcccccccccccCcc------ccCccCCcccHhhHHHHHHhcC-CCCCCcccCccccccccccc
Q psy6056          43 SPTSRCPICLLVLNNRS------YTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSKQRLLLFASA  101 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~------~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~~~~~  101 (153)
                      ....+|.||...+.+++      .+..|+|.||..||..|..+-. ......|++|..-|..+-+.
T Consensus        94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~  159 (1134)
T KOG0825|consen   94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC  159 (1134)
T ss_pred             ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh
Confidence            44456677666555421      1135999999999999987521 22346789998777665433

>KOG0824|consensus

Probab=87.50  E-value=0.51  Score=38.71  Aligned_cols=57  Identities=19%  Similarity=0.413  Sum_probs=46.9

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASAT  102 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~  102 (153)
                      .......|-||...+.-|.....|+|.||..|...|....     ..||-|+......+-..
T Consensus       101 ~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~-----~~~~d~~~~~~pv~aG~  157 (324)
T KOG0824|consen  101 FQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMG-----NDCPDCRGKISPVLAGM  157 (324)
T ss_pred             ccCCccceeeeeeeEEecccccCceeeeeecCCchhhhhh-----hccchhhcCcCceeccC
Confidence            3456678999999998887766899999999999999988     89999998877654443

>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=86.36  E-value=0.22  Score=39.73  Aligned_cols=49  Identities=27%  Similarity=0.569  Sum_probs=33.9

Q ss_pred             CCccccccccc-ccCcc---ccCc-cCCcccHhhHHHHHHhcCCCCCCccc--Ccccccc
Q psy6056          44 PTSRCPICLLV-LNNRS---YTDT-CLHEFCFLCIKQWSQISSESSPALCK--MSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~-~~~~~---~~~~-CgH~FC~~Ci~~~~~~~~~~~~~~CP--~Cr~~~~   96 (153)
                      .+..||||... +-+|-   .+.| |-|..|-+|..+.+...    ...||  -|-+.+.
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G----pAqCP~~gC~kILR   64 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG----PAQCPYKGCGKILR   64 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC----CCCCCCccHHHHHH
Confidence            44579999765 33442   2234 99999999999976654    27898  7865544

>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=86.24  E-value=0.32  Score=29.04  Aligned_cols=36  Identities=22%  Similarity=0.481  Sum_probs=22.7

Q ss_pred             cCccccCccC-CcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          56 NNRSYTDTCL-HEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        56 ~~~~~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .+...+ .|. |..|..|+...+..+     ..||+|..++..
T Consensus        11 ~~k~Li-~C~dHYLCl~CLt~ml~~s-----~~C~iC~~~LPt   47 (50)
T PF03854_consen   11 ANKGLI-KCSDHYLCLNCLTLMLSRS-----DRCPICGKPLPT   47 (50)
T ss_dssp             --SSEE-E-SS-EEEHHHHHHT-SSS-----SEETTTTEE---
T ss_pred             cCCCee-eecchhHHHHHHHHHhccc-----cCCCcccCcCcc
Confidence            344443 575 889999999888777     899999877643

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.

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

Probab=84.43  E-value=0.082  Score=34.14  Aligned_cols=41  Identities=29%  Similarity=0.532  Sum_probs=23.5

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..||.|...+.-..     +|.+|..|-..+...      ..||-|.+++..
T Consensus         2 ~~CP~C~~~L~~~~-----~~~~C~~C~~~~~~~------a~CPdC~~~Le~   42 (70)
T PF07191_consen    2 NTCPKCQQELEWQG-----GHYHCEACQKDYKKE------AFCPDCGQPLEV   42 (70)
T ss_dssp             -B-SSS-SBEEEET-----TEEEETTT--EEEEE------EE-TTT-SB-EE
T ss_pred             CcCCCCCCccEEeC-----CEEECccccccceec------ccCCCcccHHHH
Confidence            46999988754321     788899997665443      599999887764

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

>KOG3899|consensus

Probab=84.36  E-value=0.55  Score=38.45  Aligned_cols=34  Identities=18%  Similarity=0.401  Sum_probs=24.1

Q ss_pred             cCCcccHhhHHHHHHhcC--------CCCCCcccCccccccc
Q psy6056          64 CLHEFCFLCIKQWSQISS--------ESSPALCKMSKQRLLL   97 (153)
Q Consensus        64 CgH~FC~~Ci~~~~~~~~--------~~~~~~CP~Cr~~~~~   97 (153)
                      |....|.+|+-+|.....        -.++..||+||+.+.-
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            455678899999865432        2335789999998764

>KOG2817|consensus

Probab=84.22  E-value=0.77  Score=38.89  Aligned_cols=51  Identities=16%  Similarity=0.154  Sum_probs=36.9

Q ss_pred             CCCCccccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056          42 TSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR   94 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~   94 (153)
                      -..-..|||=.+.-.  +|.+...|||..+..=|.+.++..  ...-.||.|-..
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng--~~sfKCPYCP~e  383 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNG--SQSFKCPYCPVE  383 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCC--CeeeeCCCCCcc
Confidence            344568999876544  454445899999999999988754  224789999643

>KOG1812|consensus

Probab=82.18  E-value=0.54  Score=39.87  Aligned_cols=40  Identities=28%  Similarity=0.845  Sum_probs=28.8

Q ss_pred             ccccccccccc-----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          46 SRCPICLLVLN-----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        46 ~~C~ICl~~~~-----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      ..||+|.-.+.     +.+.-+ |||-||+.|...|....     ..|..|
T Consensus       307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~-----~~~~~~  351 (384)
T KOG1812|consen  307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHN-----GECYEC  351 (384)
T ss_pred             CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCC-----ccccCc
Confidence            45888866544     445544 99999999999987766     566555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	153
1chc_A	68	Structure Of The C3hc4 Domain By 1h-Nuclear Magneti		3e-04

>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic Resonance Spectroscopy; A New Structural Class Of Zinc- Finger Length = 68

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96
          RCPICL   +N S    CLH FC++CI +W  I    +  LCK+  + ++
Sbjct: 7  RCPICLEDPSNYSMALPCLHAFCYVCITRW--IRQNPTCPLCKVPVESVV 54

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	153
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-10
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	8e-07
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-05
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-05
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	3e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-05
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-04
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	5e-04
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	6e-04

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

 Score = 52.0 bits (125), Expect = 3e-10
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSE 82
          +   RCPICL   +N S    CLH FC++CI +W + +  
Sbjct: 3  TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT 42

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

 Score = 44.1 bits (104), Expect = 8e-07
 Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 1/64 (1%)

Query: 28 NDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPAL 87
          + + S  D       +   RC IC+  L +      C    CF CI++W        P  
Sbjct: 5  HHHHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCP-H 63

Query: 88 CKMS 91
          C+  
Sbjct: 64 CRAP 67

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

 Score = 39.9 bits (93), Expect = 1e-05
 Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 6/51 (11%)

Query: 32 SEDDSDGDRPTSPTSRCPICL------LVLNNRSYTDTCLHEFCFLCIKQW 76
          S   S      S T  CPIC+      +       +  C H FC  C++  
Sbjct: 2  SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDS 52

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

 Score = 39.4 bits (92), Expect = 3e-05
 Identities = 11/30 (36%), Positives = 14/30 (46%)

Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQW 76
           C IC   L + +    CLH FC  CI + 
Sbjct: 17 LCSICKGYLIDATTITECLHTFCKSCIVRH 46

>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 = 39.1 bits (91), Expect = 3e-05
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 7/53 (13%)

Query: 36 SDGDRPTSPTSRCPICL------LVLNNRSYTDTCLHEFCFLCIKQWSQISSE 82
          + G RP S T  CPIC+      +       +  C H FC  C++   + ++ 
Sbjct: 2  TTGLRP-SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT 53

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

 Score = 38.7 bits (90), Expect = 5e-05
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 36 SDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSE 82
          S    P+     C ICL    +      C H FC+LC+K  S +   
Sbjct: 6  SGNTAPSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASWLGKR 51

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

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQW 76
          RC IC    N       C H +C LCI+++
Sbjct: 24 RCGICFEYFNIAMIIPQCSHNYCSLCIRKF 53

>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 = 37.8 bits (88), Expect = 9e-05
 Identities = 11/45 (24%), Positives = 17/45 (37%)

Query: 32 SEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQW 76
          S   S  D P      C IC  ++ +      C + +C  CI+  
Sbjct: 2  SSGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTA 46

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

 Score = 37.9 bits (88), Expect = 1e-04
 Identities = 14/51 (27%), Positives = 17/51 (33%), Gaps = 1/51 (1%)

Query: 32 SEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSE 82
          S   S G        RC IC     N   T  C H FC  C  +  + +  
Sbjct: 2  SSGSSGGSEEEEIPFRCFICRQAFQNPVVT-KCRHYFCESCALEHFRATPR 51

>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 = 38.0 bits (88), Expect = 2e-04
 Identities = 13/52 (25%), Positives = 16/52 (30%), Gaps = 8/52 (15%)

Query: 33 EDDSDGDRPTSPTS--------RCPICLLVLNNRSYTDTCLHEFCFLCIKQW 76
          E D  G    S  +        RC  C  +L        C H FC  C+   
Sbjct: 2  EPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDC 53

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

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 13/42 (30%), Positives = 16/42 (38%), Gaps = 2/42 (4%)

Query: 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
          C  C LVL +      C H FC  C+      SS      C+
Sbjct: 18 CEKCHLVLCSP-KQTECGHRFCESCMAALLSSSSPKCT-ACQ 57

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

 Score = 37.1 bits (86), Expect = 2e-04
 Identities = 10/45 (22%), Positives = 18/45 (40%)

Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91
           C IC  ++ +      C + +C  CI+     S E +   C  +
Sbjct: 15 LCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

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

 Score = 37.3 bits (86), Expect = 5e-04
 Identities = 18/90 (20%), Positives = 29/90 (32%), Gaps = 11/90 (12%)

Query: 3   ESLFRQTQKRRLELPEIQQASKKQKNDNPSEDDSDGDRPTSPTSR----------CPICL 52
            +L  +  + + +   I QA  K+      E +    +     S           C IC 
Sbjct: 12  WALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICS 71

Query: 53  LVLNNRSYTDTCLHEFCFLCIKQWSQISSE 82
                    + C H FC  CI +W +   E
Sbjct: 72  EYFIEAVTLN-CAHSFCSYCINEWMKRKIE 100

>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 = 37.8 bits (87), Expect = 6e-04
 Identities = 15/87 (17%), Positives = 27/87 (31%), Gaps = 2/87 (2%)

Query: 5   LFRQTQKRRLELPEIQQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTC 64
           LF   + +  +L  + + + +       E         S    C IC     +      C
Sbjct: 292 LFPDGRNQNPDLTGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDVKIE-PC 350

Query: 65  LHEFCFLCIKQWSQISSESSPALCKMS 91
            H  C  C+  W +   +  P  C+  
Sbjct: 351 GHLMCTSCLTSWQESEGQGCP-FCRCE 376

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	153
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.59
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.57
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.52
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.5
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.5
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.5
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.5
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.49
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.48
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.48
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.47
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.46
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.46
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.46
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.46
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.45
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.45
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.44
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.43
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.42
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.42
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.42
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.42
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.42
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.41
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.4
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.4
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.4
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.39
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.39
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.39
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.39
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.37
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.36
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.36
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.36
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.36
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.35
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.35
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.3
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.29
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.29
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.28
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.28
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.27
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.26
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.24
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.23
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.23
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.22
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.22
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.2
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.18
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.18
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.17
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.12
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.11
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.09
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.09
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.08
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.06
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.05
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.02
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.89
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.85
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.84
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.82
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.7
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.55
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.54
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.45
3nw0_A	238	Non-structural maintenance of chromosomes element	97.47
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.82
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	96.42
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.38
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	88.96
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	87.58
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	86.87
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	86.27
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	84.8
1wd2_A	60	Ariadne-1 protein homolog; ring, IBR, triad, zinc	84.61
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	84.28
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	80.38

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

Probab=99.59  E-value=1.4e-15  Score=97.72  Aligned_cols=53  Identities=26%  Similarity=0.447  Sum_probs=46.7

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....++..|+||++.+.+++.+++|||.||..||..|+...     ..||+||+.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-----~~CP~Cr~~~~~   62 (72)
T 2djb_A           10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS-----NRCPKCNIVVHQ   62 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHC-----SSCTTTCCCCCS
T ss_pred             hhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcC-----CcCCCcCcccCc
Confidence            34566788999999999998877999999999999999887     899999988764

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

Probab=99.57  E-value=1e-15  Score=97.02  Aligned_cols=60  Identities=32%  Similarity=0.675  Sum_probs=49.7

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccccccccccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYI  108 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~  108 (153)
                      .+..|+||++.+.++++..+|||.||..||.+|+...     ..||+||+.+..++..+..+..+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~~~~~~~~d~~~   63 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN-----PTCPLCKVPVESVVHTIESDSEF   63 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS-----CSTTTTCCCCCCEECCCCSCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCc-----CcCcCCChhhHhhhhccccchHh
Confidence            3557999999999976657899999999999999987     89999999988766655554443

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

Probab=99.52  E-value=1.5e-14  Score=94.76  Aligned_cols=51  Identities=24%  Similarity=0.383  Sum_probs=44.7

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .......|+||++.+.+|++ ++|||.||..||..|+...     ..||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~-----~~CP~Cr~~~~~   61 (81)
T 2csy_A           11 EEEIPFRCFICRQAFQNPVV-TKCRHYFCESCALEHFRAT-----PRCYICDQPTGG   61 (81)
T ss_dssp             CCCCCSBCSSSCSBCCSEEE-CTTSCEEEHHHHHHHHHHC-----SBCSSSCCBCCS
T ss_pred             cCCCCCCCcCCCchhcCeeE-ccCCCHhHHHHHHHHHHCC-----CcCCCcCccccc
Confidence            34556789999999999987 6899999999999999887     899999998763

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

Probab=99.50  E-value=1.2e-14  Score=91.83  Aligned_cols=52  Identities=23%  Similarity=0.519  Sum_probs=43.5

Q ss_pred             CCCCCCcccccccccccCcc------ccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRS------YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~------~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ........|+||++.+.++.      ++.+|||.||..||..|+...     ..||+||+.+.
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~   67 (69)
T 2ea6_A           10 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-----NTCPTCRKKIN   67 (69)
T ss_dssp             CCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC-----SSCTTTCCCCC
T ss_pred             cCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcC-----CCCCCCCCccC
Confidence            34456778999999998762      346899999999999999987     89999998764

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

Probab=99.50  E-value=1.8e-14  Score=90.85  Aligned_cols=54  Identities=22%  Similarity=0.488  Sum_probs=44.8

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....++..|+||++.+.+|+. ++|||.||..||.+|+...    ...||+||+.+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   62 (66)
T 2ecy_A            9 VKTVEDKYKCEKCHLVLCSPKQ-TECGHRFCESCMAALLSSS----SPKCTACQESIVK   62 (66)
T ss_dssp             CCSCCCCEECTTTCCEESSCCC-CSSSCCCCHHHHHHHHTTS----SCCCTTTCCCCCT
T ss_pred             hhcCCcCCCCCCCChHhcCeeE-CCCCCHHHHHHHHHHHHhC----cCCCCCCCcCCCh
Confidence            3445667889999999999988 5899999999999999532    2799999988754

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

Probab=99.50  E-value=1.8e-14  Score=93.06  Aligned_cols=55  Identities=22%  Similarity=0.409  Sum_probs=44.8

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ......+..|+||++.+.+|+.+..|||.||..||..|+...   ....||+||+.+.
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~~~CP~Cr~~~~   63 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES---DEHTCPTCHQNDV   63 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHS---SSSCCSSSCCSSC
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhc---CCCcCCCCCCcCC
Confidence            344567789999999999999853399999999999999854   1358999998654

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

Probab=99.50  E-value=8.5e-15  Score=93.74  Aligned_cols=51  Identities=29%  Similarity=0.667  Sum_probs=44.5

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....+..|+||++.+.+++.+ +|||.||..||..|+...     ..||+||..+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~-----~~CP~Cr~~~~~   61 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASWLG-----KRCALCRQEIPE   61 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEEEE-TTTEEEEHHHHHHCTTCS-----SBCSSSCCBCCH
T ss_pred             cCCCCCCCccCCcccCCCEEc-cCCCHHHHHHHHHHHHCC-----CcCcCcCchhCH
Confidence            345667899999999999885 799999999999999877     899999998764

>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=99.49  E-value=3.2e-14  Score=90.28  Aligned_cols=51  Identities=24%  Similarity=0.624  Sum_probs=42.1

Q ss_pred             CCCCccccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...+..|+||++.+.  ......+|||.||..||.+|+...     ..||+||+.+..
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   63 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITN-----KKCPICRVDIEA   63 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHC-----SBCTTTCSBSCS
T ss_pred             CCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcC-----CCCcCcCccccC
Confidence            345667999999886  334446899999999999999988     799999988765

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

Probab=99.48  E-value=1.1e-14  Score=92.72  Aligned_cols=51  Identities=24%  Similarity=0.537  Sum_probs=43.2

Q ss_pred             CCCCcccccccccccCcc------ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRS------YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~------~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..++..|+||++.+.++.      ++.+|||.||..||.+|+..+     ..||+||+.+..
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   63 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-----NTCPTCRKKINH   63 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC-----SBCTTTCCBCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcC-----CCCCCCCCccCh
Confidence            345678999999998762      446899999999999999988     899999988764

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

Probab=99.48  E-value=3.8e-14  Score=90.74  Aligned_cols=56  Identities=27%  Similarity=0.523  Sum_probs=45.4

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ......+..|+||++.+.+++.+ +|||.||..||..|+..  ......||+||+.+..
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~--~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGET--SCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEEC-TTCCEEEHHHHHHHCSS--SCSCCCCSSSCCCCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEc-CCCChhhHHHHHHHHHc--CCCCCCCCCCCCcCCc
Confidence            34456778999999999999885 89999999999999872  1223799999987653

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

Probab=99.47  E-value=3.2e-14  Score=92.38  Aligned_cols=52  Identities=21%  Similarity=0.396  Sum_probs=42.8

Q ss_pred             CCCCCcccccccccccCcc--ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRS--YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~--~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....+..|+||++.+.++.  ...+|||.||..||.+|+...     ..||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   64 (78)
T 2ect_A           11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH-----DSCPVCRKSLTG   64 (78)
T ss_dssp             TSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTT-----CSCTTTCCCCCC
T ss_pred             cCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcC-----CcCcCcCCccCC
Confidence            3455678999999998543  335899999999999999877     899999988764

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

Probab=99.46  E-value=4.5e-14  Score=94.40  Aligned_cols=54  Identities=20%  Similarity=0.388  Sum_probs=44.3

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ....++..|+||++.+.+|+.+..|||+||..||..|+...   ....||+||..+.
T Consensus         8 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLES---DEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHC---TTCCCTTTCCSSC
T ss_pred             ccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhc---CCCcCcCCCCcCC
Confidence            34567789999999999999853399999999999998754   1269999998863

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

Probab=99.46  E-value=2e-14  Score=87.25  Aligned_cols=49  Identities=20%  Similarity=0.604  Sum_probs=40.6

Q ss_pred             CCCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          43 SPTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .++..|+||++.+.+   +..+..|||.||..||.+|++.+     .+||+||+.+.
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            345679999999986   45544599999999999999877     89999998753

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

Probab=99.46  E-value=2.5e-14  Score=92.88  Aligned_cols=52  Identities=21%  Similarity=0.378  Sum_probs=44.7

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...++..|+||++.+.+|+.+ +|||+||..||.+|+...    ...||+||+.+..
T Consensus         4 ~~~~~~~C~IC~~~~~~Pv~~-~CgH~fc~~Ci~~~~~~~----~~~CP~C~~~~~~   55 (78)
T 1t1h_A            4 EFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDAG----HKTCPKSQETLLH   55 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTTT----CCBCTTTCCBCSS
T ss_pred             CCcccCCCCCccccccCCEEc-CCCCeecHHHHHHHHHHC----cCCCCCCcCCCCh
Confidence            456678999999999999985 799999999999999862    2899999988753

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

Probab=99.46  E-value=6.7e-14  Score=89.97  Aligned_cols=52  Identities=21%  Similarity=0.537  Sum_probs=43.1

Q ss_pred             CCCCCcccccccccccCcccc--CccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYT--DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~--~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....+..|+||++.+.++..+  .+|+|.||..||.+|++..     ..||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~-----~~CP~Cr~~~~~   64 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR-----KVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC-----SBCTTTCCBCSS
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC-----CcCCCcCccccc
Confidence            345567899999999865432  3799999999999999988     799999988765

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

Probab=99.45  E-value=1.4e-13  Score=90.02  Aligned_cols=57  Identities=23%  Similarity=0.487  Sum_probs=45.9

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcC-CCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~   97 (153)
                      .....+..|+||++.+.+++. .+|||.||..||..|+.... ......||+||..+..
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           14 EMIKEEVTCPICLELLKEPVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCTTTSCTTTCSCCSSCEE-CTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HhCccCCCCcCCChhhCccee-CCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            445667889999999999987 57999999999999988721 1223899999988764

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

Probab=99.45  E-value=1.5e-13  Score=85.70  Aligned_cols=50  Identities=30%  Similarity=0.595  Sum_probs=41.3

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      .....++..|+||++.+.+|+++ +|||.||..||.+|+...  .....||+|
T Consensus        14 ~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~--~~~~~CP~C   63 (63)
T 2ysj_A           14 VNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETS--CGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCBCTTTCSBCSSCEEC-TTSSEECHHHHHHHHHHC--SSCCCCSCC
T ss_pred             HHhCccCCCCCcCCchhCCeEEe-CCCCcchHHHHHHHHHcC--CCCCcCcCC
Confidence            34456778999999999999985 899999999999999842  123789998

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

Probab=99.44  E-value=1.2e-13  Score=91.69  Aligned_cols=52  Identities=12%  Similarity=-0.063  Sum_probs=46.2

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....+..||||++.+.+|+++ +|||+||..||..|+...     .+||+|+..+..
T Consensus         9 ~~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~~-----~~cP~~~~~l~~   60 (85)
T 2kr4_A            9 SDAPDEFRDPLMDTLMTDPVRL-PSGTVMDRSIILRHLLNS-----PTDPFNRQMLTE   60 (85)
T ss_dssp             TTCCTTTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHC-----SBCTTTCCBCCG
T ss_pred             hcCchheECcccCchhcCCeEC-CCCCEECHHHHHHHHhcC-----CCCCCCcCCCCh
Confidence            4457789999999999999995 699999999999999976     899999988764

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

Probab=99.43  E-value=2.1e-13  Score=89.20  Aligned_cols=57  Identities=23%  Similarity=0.478  Sum_probs=45.6

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcC-CCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~   97 (153)
                      ........|+||++.+.+++.+ +|||.||..||..|+.... ......||+||..+..
T Consensus        14 ~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           14 VNVKEEVTCPICLELLTQPLSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCTTTCSCCSSCBCC-SSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHccCCCCCCCCCcccCCceeC-CCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            4456678899999999999884 8999999999999987610 1123899999988764

>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=99.42  E-value=4.2e-14  Score=96.43  Aligned_cols=51  Identities=29%  Similarity=0.640  Sum_probs=43.7

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .++..|+||++.+.+|+.+++|||.||..||..|+...    ...||+||..+..
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~----~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQ----RAQCPHCRAPLQL   70 (100)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHT----CSBCTTTCCBCCG
T ss_pred             CCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHC----cCCCCCCCCcCCH
Confidence            34567999999999998856899999999999999875    1599999998753

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

Probab=99.42  E-value=3.3e-14  Score=102.19  Aligned_cols=47  Identities=23%  Similarity=0.625  Sum_probs=42.4

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..|+||++.+.+|+++ +|||.||..||..|+...     ..||+||+.+..
T Consensus        53 ~~~C~iC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEAVTL-NCAHSFCSYCINEWMKRK-----IECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSEEEE-TTSCEEEHHHHHHHTTTC-----SBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCceEC-CCCCCccHHHHHHHHHcC-----CcCCCCCCcCCC
Confidence            45799999999999884 899999999999999887     899999998865

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

Probab=99.42  E-value=3.1e-14  Score=92.39  Aligned_cols=57  Identities=21%  Similarity=0.411  Sum_probs=45.6

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcC--CCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISS--ESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~~   97 (153)
                      ....++..|+||++.+.+|+. .+|||.||..||..|+....  ......||+||..+..
T Consensus         7 ~~~~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            7 GNVQEEVTCPICLELLTEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCCCCEETTTTEECSSCCC-CSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             hhcccCCCCcCCCcccCCeeE-CCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            445667889999999999988 48999999999999987521  1234799999988764

>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=99.42  E-value=8.3e-14  Score=84.41  Aligned_cols=48  Identities=21%  Similarity=0.357  Sum_probs=40.4

Q ss_pred             CCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .+..|+||++.+.+   ..++.+|||.||..||.+|+...     ..||+||+.+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-----YRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT-----CCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC-----CcCCCCCCcCC
Confidence            35679999999865   34446899999999999999987     89999998764

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

Probab=99.42  E-value=4.6e-14  Score=87.87  Aligned_cols=49  Identities=20%  Similarity=0.535  Sum_probs=41.6

Q ss_pred             CCcccccccccccCcc------ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          44 PTSRCPICLLVLNNRS------YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~------~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ++..|+||++.+.++.      ++.+|||.||..||.+|+..+     ..||+||+.+..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-----NTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC-----SBCTTTCCBCTT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcC-----CCCCCCCccCCc
Confidence            3567999999998762      446899999999999999987     899999988764

>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=99.41  E-value=7.1e-14  Score=96.30  Aligned_cols=50  Identities=24%  Similarity=0.547  Sum_probs=44.7

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..+..|+||++.+.+|+.+.+|||+||..||..|+...     ..||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-----~~CP~Cr~~~~~   62 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS-----KYCPICDVQVHK   62 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSC-----SBCTTTCCBSCS
T ss_pred             CCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhC-----CcCcCCCccccc
Confidence            45678999999999999866999999999999999977     899999988764

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

Probab=99.40  E-value=2.6e-13  Score=89.57  Aligned_cols=55  Identities=18%  Similarity=0.424  Sum_probs=44.6

Q ss_pred             CCCCCCcccccccccccC----ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNN----RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~----~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....+...|+||++.+.+    ++. .+|||.||..||..|+...  .....||+||+.+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~~~~-~~CgH~fC~~Ci~~~~~~~--~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           10 DALREVLECPICMESFTEEQLRPKL-LHCGHTICRQCLEKLLASS--INGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCSCCBCTTTCCBCCTTSSCEEE-CSSSCEEEHHHHHHHHHHC--SSCBCCTTTCCCBCC
T ss_pred             hhccCCCCCccCCccccccCCCeEE-CCCCChhhHHHHHHHHHcC--CCCcCCCCCCCcccc
Confidence            345667889999999998    777 4899999999999999853  234799999987654

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

Probab=99.40  E-value=8.1e-14  Score=89.96  Aligned_cols=51  Identities=22%  Similarity=0.518  Sum_probs=42.2

Q ss_pred             CCCCcccccccccccCc--cccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNR--SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~--~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...+..|+||++.+..+  +...+|+|.||..||.+|++.+     ..||+||+.+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~-----~~CP~Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKAN-----RTCPICRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHC-----SSCTTTCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcC-----CcCcCcCCcCCC
Confidence            34567899999998865  2335799999999999999988     899999987654

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

Probab=99.40  E-value=1.1e-13  Score=93.88  Aligned_cols=50  Identities=24%  Similarity=0.541  Sum_probs=44.3

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .+...|+||++.+.+|+.+.+|||.||..||..|+...     ..||+||..+..
T Consensus        20 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-----~~CP~Cr~~~~~   69 (99)
T 2y43_A           20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK-----TQCPTCCVTVTE   69 (99)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTC-----CBCTTTCCBCCG
T ss_pred             CCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCC-----CCCCCCCCcCCh
Confidence            34568999999999998866899999999999999977     899999998764

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

Probab=99.39  E-value=5.5e-14  Score=89.43  Aligned_cols=50  Identities=24%  Similarity=0.563  Sum_probs=42.8

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....+..|+||++.+.+ +. .+|||.||..||.+|+...     ..||+||+.+..
T Consensus        11 ~~~~~~~C~IC~~~~~~-~~-~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   60 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD-LI-LPCAHSFCQKCIDKWSDRH-----RNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS-EE-ETTTEEECHHHHHHSSCCC-----SSCHHHHHCTTC
T ss_pred             cCCCCCCCeeCCcCccC-cc-cCCCCcccHHHHHHHHHCc-----CcCCCcCCcccC
Confidence            34556789999999988 55 5899999999999999876     899999988765

>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=99.39  E-value=3.7e-13  Score=91.78  Aligned_cols=53  Identities=8%  Similarity=-0.098  Sum_probs=46.5

Q ss_pred             CCCCCCCcccccccccccCccccCccC-CcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCL-HEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....++..||||++.+.+|++ ++|| |+||..||.+|+...     .+||+|+.++..
T Consensus        16 ~~~~p~~~~CpI~~~~m~dPV~-~~cG~htf~r~cI~~~l~~~-----~~cP~~~~~l~~   69 (98)
T 1wgm_A           16 YADACDEFLDPIMSTLMCDPVV-LPSSRVTVDRSTIARHLLSD-----QTDPFNRSPLTM   69 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEE-CTTTCCEEEHHHHHHHTTTS-----CBCTTTCSBCCT
T ss_pred             hhcCcHhcCCcCccccccCCeE-CCCCCeEECHHHHHHHHHhC-----CCCCCCCCCCCh
Confidence            3455778999999999999999 5799 999999999999876     799999998764

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

Probab=99.39  E-value=3.1e-13  Score=82.61  Aligned_cols=49  Identities=24%  Similarity=0.556  Sum_probs=39.6

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      ....++..|+||++.+.+++. .+|||.||..||.+|+..  ......||+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~--~~~~~~CP~C   58 (58)
T 2ecj_A           10 ENLQVEASCSVCLEYLKEPVI-IECGHNFCKACITRWWED--LERDFPCPVC   58 (58)
T ss_dssp             SCSCCCCBCSSSCCBCSSCCC-CSSCCCCCHHHHHHHTTS--SCCSCCCSCC
T ss_pred             hccccCCCCccCCcccCccEe-CCCCCccCHHHHHHHHHh--cCCCCCCCCC
Confidence            344567789999999999988 589999999999999653  1124799998

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

Probab=99.39  E-value=1.3e-13  Score=90.72  Aligned_cols=49  Identities=20%  Similarity=0.538  Sum_probs=40.1

Q ss_pred             CCcccccccccccC--------------ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          44 PTSRCPICLLVLNN--------------RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        44 ~~~~C~ICl~~~~~--------------~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ++..|+||++.+.+              ++.+.+|||.||..||.+|+..+     .+||+||+.+..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN-----NRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC-----CBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC-----CCCCCcCCCcch
Confidence            45669999988865              34545699999999999999988     899999987653

>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=99.37  E-value=1.4e-13  Score=101.47  Aligned_cols=51  Identities=33%  Similarity=0.654  Sum_probs=44.1

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ...+..|+||++.+.+|+.+.+|||.||..||..|+...    ...||+||..+.
T Consensus        51 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~  101 (165)
T 2ckl_B           51 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSG----NKECPTCRKKLV  101 (165)
T ss_dssp             CHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTT----CCBCTTTCCBCC
T ss_pred             CCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhC----cCCCCCCCCcCC
Confidence            345568999999999998876999999999999999862    279999999875

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

Probab=99.36  E-value=2.2e-13  Score=91.34  Aligned_cols=49  Identities=24%  Similarity=0.457  Sum_probs=41.1

Q ss_pred             CCCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..+..|+||++.+..   +.. .+|||.||..||..|+..+     ..||+||..+..
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~-l~C~H~Fh~~Ci~~wl~~~-----~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATE-LPCHHYFHKPCVSIWLQKS-----GTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEE-ETTTEEEEHHHHHHHHTTT-----CBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEe-cCCCChHHHHHHHHHHHcC-----CcCcCcCccCCC
Confidence            456789999999875   444 4799999999999999987     899999987653

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

Probab=99.36  E-value=2.7e-13  Score=85.15  Aligned_cols=49  Identities=22%  Similarity=0.417  Sum_probs=40.1

Q ss_pred             Ccccccccc-cccCcc---ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLL-VLNNRS---YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~-~~~~~~---~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..|+||++ .+.++.   ++++|||.||..||.+|+...    ...||+||+.+..
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   55 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG----AGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT----SSSCTTTCCCCSS
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcC----CCcCCCCCCcccc
Confidence            567999999 888874   346899999999999997643    2789999988754

>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=99.36  E-value=3.5e-13  Score=92.23  Aligned_cols=52  Identities=12%  Similarity=-0.059  Sum_probs=46.0

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ........||||++.+.+|+++ +|||+||..||..|+...     .+||+|+.++..
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~~-----~~cP~~~~~l~~   75 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRL-PSGTIMDRSIILRHLLNS-----PTDPFNRQTLTE   75 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEE-TTTEEEEHHHHHHHTTSC-----SBCSSSCCBCCT
T ss_pred             ccCcHhhCCcCccCcccCCeEC-CCCCEEchHHHHHHHHcC-----CCCCCCCCCCCh
Confidence            4457789999999999999995 699999999999999866     899999988764

>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=99.36  E-value=5.6e-13  Score=92.35  Aligned_cols=53  Identities=23%  Similarity=0.365  Sum_probs=40.5

Q ss_pred             CcccccccccccCcc-----------------ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRS-----------------YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~-----------------~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +..|+||++.|.++.                 .+.+|+|.||..||..|+..........||+||..+..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            457999999997643                 14689999999999999964211223799999987764

>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=99.35  E-value=5.3e-13  Score=93.40  Aligned_cols=54  Identities=31%  Similarity=0.634  Sum_probs=46.2

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....++..|+||++.+.+|+. ++|||.||..||..|+...    ...||+||..+..
T Consensus        12 ~~~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   65 (118)
T 3hct_A           12 DPPLESKYECPICLMALREAVQ-TPCGHRFCKACIIKSIRDA----GHKCPVDNEILLE   65 (118)
T ss_dssp             SSCCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHH----CSBCTTTCCBCCG
T ss_pred             ccCCCCCCCCCcCChhhcCeEE-CCcCChhhHHHHHHHHhhC----CCCCCCCCCCcCH
Confidence            3456677899999999999988 5899999999999999876    1399999998865

>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=99.35  E-value=3.9e-13  Score=94.72  Aligned_cols=50  Identities=20%  Similarity=0.327  Sum_probs=43.0

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..+..|+||++.+.+|+.+ +|||+||..||..|+...    ...||+||..+..
T Consensus        50 ~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITT-VCQHNVCKDCLDRSFRAQ----VFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHTT----CCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCcEEe-eCCCcccHHHHHHHHhHC----cCCCCCCCccCCC
Confidence            4456899999999999884 899999999999999854    2599999998864

>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=99.30  E-value=2e-13  Score=94.90  Aligned_cols=52  Identities=21%  Similarity=0.543  Sum_probs=44.2

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...++..|+||++.+.+|+.+ +|||.||..||..|+...    ...||+||..+..
T Consensus        11 ~~~~~~~C~iC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   62 (115)
T 3l11_A           11 PSLSECQCGICMEILVEPVTL-PCNHTLCKPCFQSTVEKA----SLCCPFCRRRVSS   62 (115)
T ss_dssp             CCHHHHBCTTTCSBCSSCEEC-TTSCEECHHHHCCCCCTT----TSBCTTTCCBCHH
T ss_pred             CCCCCCCCccCCcccCceeEc-CCCCHHhHHHHHHHHhHC----cCCCCCCCcccCc
Confidence            445567899999999999985 899999999999998752    2799999998864

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

Probab=99.29  E-value=3e-12  Score=83.85  Aligned_cols=51  Identities=18%  Similarity=0.479  Sum_probs=39.5

Q ss_pred             CCCCccccccccccc--CccccCc--cCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLN--NRSYTDT--CLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~--~~~~~~~--CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..++..||||++.+.  ++.+ .+  |||.||..|+..++...    ...||.||+.+..
T Consensus         8 ~~~~~~CpICle~~~~~d~~~-~p~~CGH~fC~~Cl~~~~~~~----~~~CP~CR~~~~~   62 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINF-FPCTCGYQICRFCWHRIRTDE----NGLCPACRKPYPE   62 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTC-CSSTTSCCCCHHHHHHHTTSS----CSBCTTTCCBCSS
T ss_pred             cccCCcCCccCccCccccccc-cccCCCCCcCHHHHHHHHhcC----CCCCCCCCCccCC
Confidence            355678999999885  3333 34  99999999999976432    3799999998865

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

Probab=99.29  E-value=7.1e-13  Score=93.30  Aligned_cols=49  Identities=24%  Similarity=0.542  Sum_probs=43.0

Q ss_pred             CCCcccccccccccCc-------cccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNR-------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~-------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +++..|+||++.+.++       +. ++|||.||..||.+|++.+     ..||+||+.+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNA-----NTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEE-ETTCCEEEHHHHHHHHTTC-----SBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEe-cCCCChhhHHHHHHHHHhC-----CCCCCCCCcCcc
Confidence            4567899999999887       55 6899999999999999987     899999998864

>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=99.28  E-value=1.5e-12  Score=90.00  Aligned_cols=48  Identities=23%  Similarity=0.579  Sum_probs=40.6

Q ss_pred             CCcccccccccccCc-----------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNNR-----------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~-----------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .+..|+||++.|.++                 +++.+|+|.||..||..|+..+     .+||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-----~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-----QVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-----SBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC-----CcCcCCCCcce
Confidence            456799999998855                 3445899999999999999987     89999998754

>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=99.28  E-value=1.7e-12  Score=89.43  Aligned_cols=50  Identities=26%  Similarity=0.654  Sum_probs=41.9

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...|+||++.+.+|+. ++|||.||..||..|+...  .....||+||..+..
T Consensus        21 ~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~--~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           21 ILECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQK--KGPSQCPLCKNDITK   70 (112)
T ss_dssp             HTSCSSSCCCCSSCCB-CTTSCCCCSHHHHHHHHSS--SSSCCCTTTSCCCCT
T ss_pred             CCCCcccChhhcCeEE-CCCCCHHHHHHHHHHHHhC--CCCCCCcCCCCcCCH
Confidence            3569999999999988 5899999999999999854  223589999988764

>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=99.27  E-value=1.8e-12  Score=94.68  Aligned_cols=50  Identities=16%  Similarity=0.363  Sum_probs=43.1

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....|+||++.+.+|+. ++|||+||..||..|+...    ...||+||..+..
T Consensus        76 ~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVT-TECFHNVCKDCLQRSFKAQ----VFSCPACRHDLGQ  125 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEE-CTTSCEEEHHHHHHHHHTT----CCBCTTTCCBCCT
T ss_pred             ccCCEeecCChhhcCCEE-cCCCCchhHHHHHHHHHhC----CCcCCCCCccCCC
Confidence            345689999999999998 5899999999999999865    2589999998775

>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=99.26  E-value=2e-12  Score=89.98  Aligned_cols=50  Identities=22%  Similarity=0.527  Sum_probs=43.5

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .++..|+||++.+.+|+. ++|||.||..||..|+...    ...||+||..+..
T Consensus        21 ~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           21 VKSISCQICEHILADPVE-TSCKHLFCRICILRCLKVM----GSYCPSCRYPCFP   70 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHT----CSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCcHhcCcEE-cCCCCcccHHHHHHHHhHC----cCcCCCCCCCCCH
Confidence            456789999999999988 5899999999999999873    1799999998765

>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=99.24  E-value=1.4e-12  Score=94.25  Aligned_cols=51  Identities=20%  Similarity=0.411  Sum_probs=44.0

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      .....+..|+||++.+.+|+. ++|||.||..||.+|+...    ...||+||..+
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~-~~CgH~FC~~Ci~~~~~~~----~~~CP~Cr~~~   76 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQ-AQCGHRYCSFCLASILSSG----PQNCAACVHEG   76 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHGGGS----CEECHHHHHTT
T ss_pred             ccCCcCcCCCCCChhhcCcEE-CCCCCccCHHHHHHHHhcC----CCCCCCCCCcc
Confidence            455677899999999999988 5899999999999999865    25999999875

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=99.23  E-value=2.2e-12  Score=81.25  Aligned_cols=52  Identities=21%  Similarity=0.421  Sum_probs=43.9

Q ss_pred             CCCcccccccccccCcccc-CccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYT-DTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFA   99 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~-~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~   99 (153)
                      .++..|+||++...+++++ .+|||. ||..|+..|....     ..||+||+.+..++
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~-----~~CPiCR~~i~~~i   59 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRN-----KPCPVCRQPIQMIV   59 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTT-----CCCTTTCCCCCEEE
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcC-----CcCCCcCcchhceE
Confidence            4556799999999988763 389999 8999999999877     89999999887644

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.23  E-value=5e-12  Score=85.28  Aligned_cols=53  Identities=17%  Similarity=0.232  Sum_probs=42.5

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhc-CCCCCCcccC--cccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQIS-SESSPALCKM--SKQR   94 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~-~~~~~~~CP~--Cr~~   94 (153)
                      ...+..||||++.|.+|+++..|||+||..||..|+... .......||+  |+..
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            355688999999999999964599999999999998753 1122469999  9865

>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=99.22  E-value=2.2e-12  Score=90.07  Aligned_cols=47  Identities=21%  Similarity=0.438  Sum_probs=41.2

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .....|+||++.+.+|+.+.+|||+||..||..|+.       ..||+||..+.
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-------~~CP~Cr~~~~   66 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-------TGCPVCYTPAW   66 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-------TBCSSSCCBCS
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc-------CCCcCCCCcCc
Confidence            345779999999999998658999999999999876       58999999875

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

Probab=99.22  E-value=2.5e-12  Score=78.75  Aligned_cols=46  Identities=22%  Similarity=0.431  Sum_probs=38.4

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .+...|+||++.+.+|+. .+|||+||..||..|   .     ..||+||+.+..
T Consensus         4 ~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~---~-----~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKL-LPCLHTLCSGCLEAS---G-----MQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSC-STTSCCSBTTTCSSS---S-----SSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCCeEE-cCCCCcccHHHHccC---C-----CCCCcCCcEeec
Confidence            455779999999999988 579999999998662   3     799999987654

>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=99.20  E-value=9.3e-12  Score=97.52  Aligned_cols=53  Identities=9%  Similarity=-0.026  Sum_probs=44.8

Q ss_pred             CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ........||||++.+.+|++ ++|||+||..||..|+...    ..+||+|+.++..
T Consensus       203 ~~~~~~~~c~i~~~~~~dPv~-~~~gh~f~~~~i~~~~~~~----~~~cP~~~~~~~~  255 (281)
T 2c2l_A          203 RDIPDYLCGKISFELMREPCI-TPSGITYDRKDIEEHLQRV----GHFNPVTRSPLTQ  255 (281)
T ss_dssp             CCCCSTTBCTTTCSBCSSEEE-CSSCCEEETTHHHHHHHHT----CSSCTTTCCCCCG
T ss_pred             CCCCcccCCcCcCCHhcCCeE-CCCCCEECHHHHHHHHHHC----CCCCcCCCCCCch
Confidence            344677899999999999999 5799999999999999864    1459999998863

>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=99.18  E-value=5.9e-12  Score=79.00  Aligned_cols=52  Identities=19%  Similarity=0.419  Sum_probs=43.1

Q ss_pred             CCcccccccccccCcccc-CccCCc-ccHhhHHHHHHhcCCCCCCcccCcccccccccc
Q psy6056          44 PTSRCPICLLVLNNRSYT-DTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFAS  100 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~-~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~  100 (153)
                      ....|+||++...+++++ .+|||. ||..|+..|....     ..||+||+.+..+++
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~-----~~CPiCR~~i~~~i~   59 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG-----ASCPICKKEIQLVIK   59 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTT-----CBCTTTCCBCCEEEE
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhC-----CcCCCcCchhhceEE
Confidence            345799999998887652 489998 9999999998876     899999999876543

>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=99.18  E-value=1e-11  Score=91.70  Aligned_cols=54  Identities=31%  Similarity=0.634  Sum_probs=46.2

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....+...|+||++.+.+|+. ++|||+||..||.+|+...    ...||+||..+..
T Consensus        12 ~~~~~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           12 DPPLESKYECPICLMALREAVQ-TPCGHRFCKACIIKSIRDA----GHKCPVDNEILLE   65 (170)
T ss_dssp             SSCCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHH----CSBCTTTCCBCCG
T ss_pred             ccCCCCCCCCCCCChhhcCcEE-CCCCCHHHHHHHHHHHHhC----CCCCCCCccCcch
Confidence            3456777899999999999988 5899999999999999865    1499999988865

>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=99.17  E-value=3e-12  Score=90.01  Aligned_cols=48  Identities=23%  Similarity=0.579  Sum_probs=0.9

Q ss_pred             CCcccccccccccCc-----------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNNR-----------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~-----------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .+..|+||++.|.++                 +++.+|+|.||..||.+|+..+     .+||+||+.+.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~-----~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-----QVCPLDNREWE  111 (117)
T ss_dssp             CC--------------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC-----CcCCCCCCeee
Confidence            346799999998753                 3334899999999999999988     89999998754

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

Probab=99.12  E-value=1.7e-11  Score=86.12  Aligned_cols=50  Identities=24%  Similarity=0.541  Sum_probs=42.3

Q ss_pred             CCCcccccccccccCc------cccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNNR------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....|+||++.+.++      .+..+|||.||..||.+|++..     .+||+||..+..
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~  125 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA-----NTCPTCRKKINH  125 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC-----SBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcC-----CCCCCCCCcCCh
Confidence            4567799999999875      1335899999999999999988     899999988764

>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=4e-11  Score=94.56  Aligned_cols=56  Identities=18%  Similarity=0.159  Sum_probs=46.0

Q ss_pred             CCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccC--ccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM--SKQRLLL   97 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~--Cr~~~~~   97 (153)
                      ......+..||||++.|.+|+....|||+||..||..|+...   +...||+  |++.+..
T Consensus       175 v~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~---~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          175 IEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGY---TTRDCPQAACSQVVSM  232 (267)
T ss_dssp             CCSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTC---SCEECSGGGCSCEECG
T ss_pred             ecCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhC---CCCCCCcccccCcCch
Confidence            334567789999999999999866899999999999998742   2368999  9987653

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

Probab=99.09  E-value=1.2e-11  Score=79.87  Aligned_cols=46  Identities=20%  Similarity=0.355  Sum_probs=39.3

Q ss_pred             CCcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFA   99 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~   99 (153)
                      ++..|+||++.+.+++.+ +|||. ||..|+..|         ..||+||+.+...+
T Consensus        23 ~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~---------~~CP~Cr~~i~~~~   69 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV---------DKCPMCYTVITFKQ   69 (74)
T ss_dssp             HHTBCTTTSSSBCCEEEE-TTCCBCCCHHHHTTC---------SBCTTTCCBCSEEE
T ss_pred             cCCCCCCCCCCCCCEEEc-CCCChhHHHHhhhcC---------ccCCCcCcCccCcE
Confidence            456799999999999885 89999 999999766         59999999887643

>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=99.09  E-value=4.8e-11  Score=98.95  Aligned_cols=48  Identities=19%  Similarity=0.472  Sum_probs=42.2

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHH-hcCCCCCCcccCccccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ-ISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~-~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....|+||++.+.+++. .+|||.||..||..|.. ..     ..||+||+.+..
T Consensus       331 ~~~~C~ICle~~~~pv~-lpCGH~FC~~Ci~~wl~~~~-----~~CP~CR~~i~~  379 (389)
T 2y1n_A          331 TFQLCKICAENDKDVKI-EPCGHLMCTSCLTSWQESEG-----QGCPFCRCEIKG  379 (389)
T ss_dssp             SSSBCTTTSSSBCCEEE-ETTCCEECHHHHHHHHHHTC-----SBCTTTCCBCCE
T ss_pred             CCCCCCccCcCCCCeEE-eCCCChhhHHHHHHHHhcCC-----CCCCCCCCccCC
Confidence            34689999999999887 58999999999999998 45     899999998765

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

Probab=99.08  E-value=6.7e-11  Score=88.73  Aligned_cols=52  Identities=10%  Similarity=-0.048  Sum_probs=44.6

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..+....||||++.+.+|+++ +|||+||..||..|+...    ..+||+|+.++..
T Consensus       102 ~ip~~f~CPI~~elm~DPV~~-~~Ghtfer~~I~~~l~~~----~~tcP~t~~~l~~  153 (179)
T 2f42_A          102 EIPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRV----GHFDPVTRSPLTQ  153 (179)
T ss_dssp             CCCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHT----CSBCTTTCCBCCG
T ss_pred             CCcHhhcccCccccCCCCeEC-CCCCEECHHHHHHHHHhC----CCCCCCCcCCCCh
Confidence            456788999999999999995 899999999999999864    1479999988764

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

Probab=99.06  E-value=1.3e-10  Score=76.31  Aligned_cols=51  Identities=24%  Similarity=0.522  Sum_probs=40.0

Q ss_pred             CCCccccccccccc--CccccCccC-----CcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLN--NRSYTDTCL-----HEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~--~~~~~~~Cg-----H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .++..|.||++.+.  ++.+ .+|.     |.||..||.+|+..+   +..+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~l~-~pC~C~Gs~h~fH~~Cl~~Wl~~~---~~~~CplCr~~~~~   70 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPLI-TPCHCTGSLHFVHQACLQQWIKSS---DTRCCELCKYEFIM   70 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCEE-CSSSCCSSSCCEETTHHHHHHHHH---CCSBCSSSCCBCCC
T ss_pred             CCCCCCeEcCccccCCCeeE-eccccCCcCCeeCHHHHHHHHhhC---CCCCCCCCCCeeec
Confidence            44567999998875  4544 6896     999999999999875   12599999987654

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

Probab=99.05  E-value=1.8e-10  Score=73.28  Aligned_cols=48  Identities=23%  Similarity=0.369  Sum_probs=39.5

Q ss_pred             CCCcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCcccccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFAS  100 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~  100 (153)
                      .++..|.||++...+++. .+|||. ||..|+..    .     ..||+||+.+...+.
T Consensus        13 ~~~~~C~IC~~~~~~~v~-~pCgH~~~C~~C~~~----~-----~~CP~CR~~i~~~~~   61 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNWVL-LPCRHTCLCDGCVKY----F-----QQCPMCRQFVQESFA   61 (68)
T ss_dssp             CCSSCCSSSSSSCCCCEE-TTTTBCCSCTTHHHH----C-----SSCTTTCCCCCCEEC
T ss_pred             CCCCCCCCcCcCCCCEEE-ECCCChhhhHHHHhc----C-----CCCCCCCcchhceEE
Confidence            445679999999988877 589999 99999862    3     799999998876443

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

Probab=99.02  E-value=1.8e-10  Score=74.32  Aligned_cols=46  Identities=20%  Similarity=0.344  Sum_probs=38.4

Q ss_pred             CCCcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      .++..|+||++.+.+++. .+|||. ||..|+.    ..     ..||+||+.+...
T Consensus        23 ~~~~~C~IC~~~~~~~~~-~pCgH~~~C~~C~~----~~-----~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVF-VPCGHLVTCKQCAE----AV-----DKCPMCYTVITFK   69 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCC-SSSCCCCBCHHHHH----HC-----SBCTTTCCBCCCC
T ss_pred             CCCCCCCcCCCCCCCEEE-ecCCCHHHHHHHhh----CC-----CCCccCCceecCc
Confidence            345579999999999988 589999 9999984    23     7999999988764

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

Probab=98.89  E-value=2.1e-09  Score=69.51  Aligned_cols=51  Identities=18%  Similarity=0.365  Sum_probs=39.7

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .....|+||++.+..-..-..|+|.||..||.+|++..   +..+||+||+.+.
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~---~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN---AEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTC---SSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhc---CCCCCCCCcCcCC
Confidence            34467999999987544444799999999999999754   2378999997654

>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=98.85  E-value=1e-09  Score=73.59  Aligned_cols=51  Identities=25%  Similarity=0.525  Sum_probs=39.0

Q ss_pred             CCcccccccccccCcccc--CccCCcccHhhHHHHHHhcC---CCCCCcccC--cccc
Q psy6056          44 PTSRCPICLLVLNNRSYT--DTCLHEFCFLCIKQWSQISS---ESSPALCKM--SKQR   94 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~--~~CgH~FC~~Ci~~~~~~~~---~~~~~~CP~--Cr~~   94 (153)
                      ....|+||++.+..+..+  .+|||.||..|+..|+..+.   ......||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            456799999998876543  37999999999999876421   112468999  9987

>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=98.84  E-value=1.4e-09  Score=67.78  Aligned_cols=48  Identities=13%  Similarity=0.080  Sum_probs=42.2

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ...|+|+++.+.+|+++.++||.|++.||.+|+..+     .+||+.+.++..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~-----~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT-----GNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH-----SBCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhC-----CCCcCCcCCCCh
Confidence            357999999999999854899999999999999987     789999988754

>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=98.82  E-value=5.8e-10  Score=72.87  Aligned_cols=44  Identities=23%  Similarity=0.484  Sum_probs=37.1

Q ss_pred             CcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      +..|+||++.+.+++.+ +|||. ||..|+..|         ..||+||+.+...
T Consensus        18 ~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~---------~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEINSTFC-PCGHTVCCESCAAQL---------QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCCEEEE-TTCBCCBCHHHHTTC---------SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCcEEEE-CCCCHHHHHHHHHhc---------CcCCCCCchhhCe
Confidence            35699999999998884 89999 999998543         4999999988764

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

Probab=98.70  E-value=2.2e-09  Score=87.92  Aligned_cols=47  Identities=15%  Similarity=0.354  Sum_probs=40.1

Q ss_pred             CCCcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFA   99 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~   99 (153)
                      .++..|+||++.+.+++.+ +|||. ||..|+..|         ..||+||..+...+
T Consensus       293 ~~~~~C~IC~~~~~~~v~l-pCgH~~fC~~C~~~~---------~~CP~CR~~i~~~~  340 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSVVFI-PCGHLVVCQECAPSL---------RKCPICRGIIKGTV  340 (345)
T ss_dssp             HTTCBCTTTSSSBCCEEEE-TTCCEEECTTTGGGC---------SBCTTTCCBCCEEE
T ss_pred             cCCCCCCccCCcCCceEEc-CCCChhHhHHHHhcC---------CcCCCCCCCccCeE
Confidence            4567899999999999885 89999 999998755         58999999987643

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

Probab=98.55  E-value=3.6e-08  Score=80.52  Aligned_cols=56  Identities=20%  Similarity=0.466  Sum_probs=40.7

Q ss_pred             CCCCcccccccccccCcc-c------cCccCCcccHhhHHHHHHhcCC------CCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRS-Y------TDTCLHEFCFLCIKQWSQISSE------SSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~-~------~~~CgH~FC~~Ci~~~~~~~~~------~~~~~CP~Cr~~~~~   97 (153)
                      ......|+||+..+.+.. +      ...|+|.||..||.+|++....      .-...||.||+++..
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            345667999999887511 1      1379999999999999986310      012579999998875

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

Probab=98.54  E-value=3.4e-08  Score=66.91  Aligned_cols=48  Identities=19%  Similarity=0.392  Sum_probs=40.2

Q ss_pred             ccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056          47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF   98 (153)
Q Consensus        47 ~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~   98 (153)
                      -|++|--++..-..+.+|+|.||++|+..|.+..    ...||.|+.++..+
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~----~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKG----DKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTT----CCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhcc----CCCCcCcCCeeeee
Confidence            4889988888766667999999999999998654    28999999988764

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

Probab=98.45  E-value=1.9e-07  Score=57.78  Aligned_cols=49  Identities=22%  Similarity=0.442  Sum_probs=37.3

Q ss_pred             CCcccccccccccCccccCccC--C---cccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCL--H---EFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      +...|.||++...++.+ .||.  |   .||..||.+|+..+   ....||+|+..+.
T Consensus         5 ~~~~CrIC~~~~~~~l~-~PC~C~gs~~~~H~~Cl~~W~~~~---~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELGNERF-RACGCTGELENVHRSCLSTWLTIS---RNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCC-CSCCCSSGGGSCCHHHHHHHHHHH---TCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCCCcee-cCcCCCCchhhhHHHHHHHHHHhC---CCCccCCCCCeee
Confidence            45679999998666554 6754  4   89999999998753   1279999998764

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

Probab=97.47  E-value=6.5e-05  Score=58.35  Aligned_cols=49  Identities=18%  Similarity=0.375  Sum_probs=38.0

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      -..|.||.+.+.....-..|+|.||..|+..|++..   ....||.|+....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~---~~~~CP~C~~~W~  228 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSN---AEPRCPHCNDYWP  228 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTC---SSCBCTTTCCBCC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhC---CCCCCCCCCCCCC
Confidence            456999999887554445699999999999998754   2359999987543

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

Probab=96.82  E-value=0.0006  Score=45.44  Aligned_cols=33  Identities=24%  Similarity=0.423  Sum_probs=25.0

Q ss_pred             CCccccccccc-ccCcccc-CccCCcccHhhHHHH
Q psy6056          44 PTSRCPICLLV-LNNRSYT-DTCLHEFCFLCIKQW   76 (153)
Q Consensus        44 ~~~~C~ICl~~-~~~~~~~-~~CgH~FC~~Ci~~~   76 (153)
                      ++..|+||++. +..++.. ..|+|+||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            35779999976 4455541 479999999999873

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=96.42  E-value=0.005  Score=39.93  Aligned_cols=48  Identities=25%  Similarity=0.627  Sum_probs=34.2

Q ss_pred             CCCCcccccccccccCccccCcc----CCcccHhhHHHHHHhcCCCCCCcccC
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTC----LHEFCFLCIKQWSQISSESSPALCKM   90 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~C----gH~FC~~Ci~~~~~~~~~~~~~~CP~   90 (153)
                      ....+.|.+|.+.+.+.-.+ .|    .|.||+.|-...++..-......||-
T Consensus        12 ~~a~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sIk~q~~~~EvyCPS   63 (93)
T 2cs3_A           12 NSGPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKAQGATGEVYCPS   63 (93)
T ss_dssp             SCCSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHHHHSSSCCCCTT
T ss_pred             CCCeeEeecchhhhccCcee-eCCCccCCeeeccccHHHHHhcCCCCcEECCC
Confidence            35567899999999976543 34    79999999988877543344455654

>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=88.96  E-value=0.29  Score=44.76  Aligned_cols=50  Identities=10%  Similarity=0.010  Sum_probs=43.6

Q ss_pred             CCCCcccccccccccCccccCccC-CcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCL-HEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .++...|||-++.+.||+++ +-| ++|=+..|.+|+...     .+||.=|+++..
T Consensus       888 iP~~F~cPIs~~lM~DPVil-psG~~TydR~~I~~wl~~~-----~tdP~Tr~~L~~  938 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKDPVIL-PASKMNIDRSTIKAHLLSD-----STDPFNRMPLKL  938 (968)
T ss_dssp             SCGGGBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHHTTC-----CBCTTTCCBCCG
T ss_pred             CcHHhCCcchhhHHhCCeEc-CCCCEEECHHHHHHHHhcC-----CCCCCCCCCCCc
Confidence            46778999999999999995 676 699999999999877     899999888764

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

Probab=87.58  E-value=0.13  Score=42.17  Aligned_cols=54  Identities=19%  Similarity=0.289  Sum_probs=39.5

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ..-.+.|||-+..+..|+....|.|.-|++- ..|+........-.||+|.+.+.
T Consensus       246 ~~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl-~sfL~~~~~~~~W~CPIC~k~~~  299 (371)
T 3i2d_A          246 TIMSLQCPISYTRMKYPSKSINCKHLQCFDA-LWFLHSQLQIPTWQCPVCQIDIA  299 (371)
T ss_dssp             EEEESBCTTTSSBCSSEEEETTCCSSCCEEH-HHHHHHHHHSCCCBCTTTCCBCC
T ss_pred             eEEeecCCCccccccccCcCCcCCCcceECH-HHHHHHhhcCCceeCCCCCcccC
Confidence            3455789999999999998889999988876 23333222234579999987764

>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=86.87  E-value=0.18  Score=41.22  Aligned_cols=55  Identities=18%  Similarity=0.367  Sum_probs=40.0

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ...-.+.|||-+..+..|+....|.|.-|++-. .|+........-.||+|.+.+.
T Consensus       211 ~~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~-sfL~~~~~~~~W~CPiC~k~~~  265 (360)
T 4fo9_A          211 SLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAA-LYLQMNEKKPTWICPVCDKKAA  265 (360)
T ss_dssp             CEEEESBCTTTCSBCSSEEEETTCCCCCCEEHH-HHHHHHHHSCCCBCTTTCSBCC
T ss_pred             eeEEeeeCCCccceeccCCcCCCCCCCccCCHH-HHHHHHhhCCCeECCCCCcccC
Confidence            334557899999999999988899999887753 3333222234579999988775

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

Probab=86.27  E-value=0.61  Score=28.66  Aligned_cols=50  Identities=16%  Similarity=0.324  Sum_probs=32.9

Q ss_pred             CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056          43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR   94 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~   94 (153)
                      ..+..|.||.+. .+...-..|...||..|+...+...+ ...=.||.|...
T Consensus        10 ~~~~~C~vC~~~-~~ll~Cd~C~~~~H~~Cl~P~l~~~P-~g~W~C~~C~~~   59 (66)
T 2lri_C           10 APGARCGVCGDG-TDVLRCTHCAAAFHWRCHFPAGTSRP-GTGLRCRSCSGD   59 (66)
T ss_dssp             CTTCCCTTTSCC-TTCEECSSSCCEECHHHHCTTTCCCC-SSSCCCTTTTTC
T ss_pred             CCCCCcCCCCCC-CeEEECCCCCCceecccCCCccCcCC-CCCEECccccCC
Confidence            345569999764 33334457899999999976544321 223589999653

>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=84.80  E-value=3.7  Score=26.85  Aligned_cols=51  Identities=18%  Similarity=0.198  Sum_probs=35.1

Q ss_pred             CCCcccccccccccC-----cc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          43 SPTSRCPICLLVLNN-----RS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~-----~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....|.||-+.+..     +. .-..|+--.|..|..--.+..    ...||.|+..+..
T Consensus        14 ~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG----~q~CpqCktrYkr   70 (93)
T 1weo_A           14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREG----TQNCPQCKTRYKR   70 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTS----CSSCTTTCCCCCC
T ss_pred             cCCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhcc----CccccccCCcccc
Confidence            355789999988551     21 113688889999986533332    3899999988764

>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=84.61  E-value=0.14  Score=31.03  Aligned_cols=34  Identities=29%  Similarity=0.934  Sum_probs=23.7

Q ss_pred             ccccccccccc-----CccccCc--cCCcccHhhHHHHHHh
Q psy6056          46 SRCPICLLVLN-----NRSYTDT--CLHEFCFLCIKQWSQI   79 (153)
Q Consensus        46 ~~C~ICl~~~~-----~~~~~~~--CgH~FC~~Ci~~~~~~   79 (153)
                      ..||-|.-.+.     +.+.-..  |++.||+.|+..|...
T Consensus         7 k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~   47 (60)
T 1wd2_A            7 KECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPH   47 (60)
T ss_dssp             CCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGG
T ss_pred             eECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccC
Confidence            35888877665     3334334  9999999999888764

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

Probab=84.28  E-value=1.9  Score=27.94  Aligned_cols=36  Identities=19%  Similarity=0.496  Sum_probs=24.4

Q ss_pred             CCCCCCcccccccccccCccc--cCccCCcccHhhHHHH
Q psy6056          40 RPTSPTSRCPICLLVLNNRSY--TDTCLHEFCFLCIKQW   76 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~--~~~CgH~FC~~Ci~~~   76 (153)
                      ++...+..|.||-. +.....  -.-|+-.||..|+.+.
T Consensus        10 e~~~~D~~C~VC~~-~t~~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           10 EPVVNDEMCDVCEV-WTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTTCC-CCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cCCCCCcccCcccc-ccccceeccccccccccHhhcccc
Confidence            34457788999964 332222  1258899999999985

>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=80.38  E-value=1.2  Score=27.62  Aligned_cols=30  Identities=20%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             CcccccccccccCc---cccCccCCcccHhhHH
Q psy6056          45 TSRCPICLLVLNNR---SYTDTCLHEFCFLCIK   74 (153)
Q Consensus        45 ~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~   74 (153)
                      +..|.+|...|.--   ---..||..||..|..
T Consensus        11 ~~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~   43 (73)
T 1vfy_A           11 SDACMICSKKFSLLNRKHHCRSCGGVFCQEHSS   43 (73)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECGGGSC
T ss_pred             CCcccCCCCccCCccccccCCCCCEEEcccccC
Confidence            35799999988632   2223799999999963

---

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	153
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	9e-04
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	0.001
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	0.001

>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 = 39.2 bits (91), Expect = 1e-05
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSE 82
          +   RCPICL   +N S    CLH FC++CI +W + +  
Sbjct: 3  TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT 42

>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 = 34.8 bits (79), Expect = 9e-04
 Identities = 9/48 (18%), Positives = 13/48 (27%)

Query: 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR 94
          RC  C  +L        C H FC  C+                +   +
Sbjct: 24 RCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLK 71

>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 = 34.1 bits (78), Expect = 0.001
 Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 2/42 (4%)

Query: 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89
          C IC  +L +   T  C H FC +CI +  ++     P  C+
Sbjct: 26 CQICEHILADPVETS-CKHLFCRICILRCLKVMGSYCP-SCR 65

>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 = 33.3 bits (76), Expect = 0.001
 Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 8/53 (15%)

Query: 48 CPICLLVLNNRSYT---DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97
          C +CL  L +         C H F   C+  W    S      C + +  +++
Sbjct: 8  CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHST-----CPLCRLTVVV 55

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	153
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.69
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.52
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.51
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.48
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.47
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.41
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.41
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.39
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.38
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.36
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.35
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.34
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.33
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.31
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.29
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.09
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.61
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	96.17
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	91.46
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	89.06
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	84.22
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	83.85
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	83.72
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	80.18

>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=99.69  E-value=5.6e-18  Score=106.98  Aligned_cols=61  Identities=31%  Similarity=0.660  Sum_probs=52.2

Q ss_pred             CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccccccccccccccce
Q psy6056          45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINV  110 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~  110 (153)
                      ...|+||++.+.+++++.+|||.||..||.+|++.+     .+||+||+.+..+++.+..+.++..
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~-----~~CP~CR~~i~~~~~~~~~~~~~~~   65 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN-----PTCPLCKVPVESVVHTIESDSEFGD   65 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHS-----CSTTTTCCCCCCEECCCCSCCCCSS
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhC-----CcCCCCCcchHhhcccccCCCccce
Confidence            455999999998887778999999999999999988     8999999998887777766666544

>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=99.52  E-value=2e-15  Score=91.35  Aligned_cols=48  Identities=21%  Similarity=0.605  Sum_probs=39.7

Q ss_pred             CCCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056          43 SPTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL   95 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~   95 (153)
                      .++..|+||++.+.+   ...++.|+|.||..||.+|++.+     .+||+||+.+
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~-----~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSH-----STCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTC-----CSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhC-----CcCCCCCCEe
Confidence            344569999999974   23445799999999999999988     8999999865

>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=99.51  E-value=2.7e-15  Score=90.99  Aligned_cols=47  Identities=13%  Similarity=0.084  Sum_probs=42.9

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|+||++.+.+|+.+..|||.||+.||.+|++.+     ..||+||+++..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~-----~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT-----GNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH-----SBCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhc-----cCCCccCCcCCH
Confidence            36999999999999877899999999999999998     899999988764

>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=99.48  E-value=1.1e-14  Score=94.13  Aligned_cols=47  Identities=19%  Similarity=0.490  Sum_probs=40.9

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|+||++.+.++++ ++|||.||..||..|+..+    ...||+||+.+..
T Consensus        24 ~~C~IC~~~~~~~~~-~~CgH~fC~~Ci~~wl~~~----~~~CP~Cr~~i~~   70 (79)
T d1fbva4          24 QLCKICAENDKDVKI-EPCGHLMCTSCLTSWQESE----GQGCPFCRCEIKG   70 (79)
T ss_dssp             TBCTTTSSSBCCEEC-SSSCCEECHHHHHHHHHTT----CCSCTTTCCCCCC
T ss_pred             CCCccCCCcCCCeEE-eCCCCeeeHHHHHHHHHHC----cCcCCCCCcCccC
Confidence            469999999999988 5899999999999999753    2689999998865

>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=99.47  E-value=1.1e-14  Score=95.67  Aligned_cols=49  Identities=22%  Similarity=0.545  Sum_probs=42.1

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .+..|+||++.+.+|++ ++|||.||..||.+|++..    ...||.||.++..
T Consensus        22 ~~l~C~IC~~~~~~pv~-~~CgH~FC~~Ci~~~~~~~----~~~CP~Cr~p~~~   70 (86)
T d1rmda2          22 KSISCQICEHILADPVE-TSCKHLFCRICILRCLKVM----GSYCPSCRYPCFP   70 (86)
T ss_dssp             HHTBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHT----CSBCTTTCCBCCG
T ss_pred             cCcCCccCCcchhccee-cCCCChhhHHHHHHHHhhC----CCcCcccCCCCCh
Confidence            44679999999999988 5899999999999999754    2689999988754

>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=99.41  E-value=4.3e-14  Score=88.01  Aligned_cols=50  Identities=18%  Similarity=0.363  Sum_probs=38.8

Q ss_pred             CCcccccccccccC----ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          44 PTSRCPICLLVLNN----RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        44 ~~~~C~ICl~~~~~----~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ++..||||++.+..    ..++++|||.||..||.+|+...    ...||+||+.+..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~----~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG----AGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT----SSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcC----cCCCCCCCcCccc
Confidence            35679999987542    23446899999999999998754    1689999988754

>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=99.41  E-value=5.8e-14  Score=94.75  Aligned_cols=48  Identities=27%  Similarity=0.699  Sum_probs=40.8

Q ss_pred             cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ..|+||++.+.+|+. ++|||+||..||..|+...  .....||.||..+.
T Consensus        22 l~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~--~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          22 LECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQK--KGPSQCPLCKNDIT   69 (103)
T ss_dssp             TSCSSSCCCCSSCCB-CTTSCCCCSHHHHHHHHSS--SSSCCCTTTSCCCC
T ss_pred             cCCCccCchhCCeEE-cCCCCchhhHHHHHHHHHC--CCCCcCcCCCCcCC
Confidence            469999999999988 5799999999999999753  23358999998875

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=7.7e-14  Score=83.20  Aligned_cols=46  Identities=22%  Similarity=0.540  Sum_probs=37.1

Q ss_pred             ccccccccccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          47 RCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        47 ~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      .|+||++.+...   ..+.+|||.||..||.+|++..    ...||+||+++.
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~----~~~CP~CR~~~~   50 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDE----NGLCPACRKPYP   50 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTS----CCBCTTTCCBCS
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhc----CCCCCccCCcCC
Confidence            599999998632   2334899999999999999864    268999999875

>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=99.38  E-value=1.1e-13  Score=89.28  Aligned_cols=51  Identities=8%  Similarity=-0.053  Sum_probs=44.1

Q ss_pred             CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .+++..||||++.|.+|++ ++|||+||..||.+|+...    ...||.|+..+..
T Consensus         4 iP~~l~CpIc~~l~~dPv~-~~cGhtfc~~ci~~~l~~~----~~~cP~c~~~l~~   54 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCI-TPSGITYDRKDIEEHLQRV----GHFNPVTRSPLTQ   54 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEE-CSSCCEEETTHHHHHHHHT----CSSCTTTCCCCCG
T ss_pred             CCccccCcCcCchhhhhcc-cCCcCeecHHHHHHHHhcC----CccCCCccccccc
Confidence            4678899999999999987 5899999999999998764    2689999988753

>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=99.36  E-value=1.5e-13  Score=88.18  Aligned_cols=52  Identities=21%  Similarity=0.378  Sum_probs=44.7

Q ss_pred             CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      +.++++.|+||++.|.+|+++ +|||+||..||.+|+...    ...||.|+..+..
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~-~cgh~fc~~ci~~~~~~~----~~~cP~~~~~l~~   55 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDAG----HKTCPKSQETLLH   55 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTTT----CCBCTTTCCBCSS
T ss_pred             CCCccCCCcCcCchhhCceEc-cCCCcchHHHHHHHHHHC----CCCCCcccccCCc
Confidence            356788999999999999985 799999999999999764    2689999988754

>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=99.35  E-value=7.1e-14  Score=93.32  Aligned_cols=46  Identities=22%  Similarity=0.446  Sum_probs=40.1

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      ....|+||++.|.+|+.+++|||+||..||.+|+.       ..||.||..+.
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~-------~~CP~Cr~~~~   66 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG-------TGCPVCYTPAW   66 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT-------TBCSSSCCBCS
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh-------ccccccCCcCc
Confidence            34579999999999998778999999999999974       46999998765

>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=99.34  E-value=3.2e-13  Score=92.33  Aligned_cols=52  Identities=21%  Similarity=0.378  Sum_probs=39.7

Q ss_pred             CcccccccccccCc-----------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          45 TSRCPICLLVLNNR-----------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        45 ~~~C~ICl~~~~~~-----------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      +..|+||++.+..+                 +.+++|||.||..||..|+.........+||+||+.+.
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~   93 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhc
Confidence            44699999987532                 24468999999999999998653233468999998654

>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=99.33  E-value=9.4e-14  Score=84.11  Aligned_cols=45  Identities=22%  Similarity=0.462  Sum_probs=37.8

Q ss_pred             CCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ....|+||++.+.++++ .+|||.||..||.+|   +     ..||+||+.+..
T Consensus         5 ~~l~C~IC~~~~~~p~~-lpCgH~fC~~Ci~~~---~-----~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKL-LPCLHTLCSGCLEAS---G-----MQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCCSC-STTSCCSBTTTCSSS---S-----SSCSSCCSSSSC
T ss_pred             CCCCCcccCcccCCCEE-ecCCCHHhHHHHHcC---C-----CcCcCCCCcccC
Confidence            44679999999999988 479999999998653   3     689999988753

>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=99.31  E-value=1.1e-12  Score=87.91  Aligned_cols=55  Identities=7%  Similarity=-0.081  Sum_probs=46.4

Q ss_pred             CCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          38 GDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        38 ~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      .....++++.||||++.|.+|+++..|+|+||..||.+|+..+     ..||.|+.++..
T Consensus        15 ~~~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~-----~~~P~~~~~l~~   69 (98)
T d1wgma_          15 TYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD-----QTDPFNRSPLTM   69 (98)
T ss_dssp             CCCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTS-----CBCTTTCSBCCT
T ss_pred             hhcCCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhc-----CCcccccccccc
Confidence            3345677899999999999999965455689999999999887     899999998764

>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=99.29  E-value=5.8e-13  Score=87.45  Aligned_cols=47  Identities=23%  Similarity=0.632  Sum_probs=37.9

Q ss_pred             cccccccccccC-----------------ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056          46 SRCPICLLVLNN-----------------RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL   97 (153)
Q Consensus        46 ~~C~ICl~~~~~-----------------~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~   97 (153)
                      ..|+||++.+.+                 .+.+.+|||.||..||.+|++.+     .+||+||+.+..
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~~~~   85 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-----QVCPLDNREWEF   85 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC-----SBCSSSCSBCCE
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC-----CcCCCCCCcccc
Confidence            348888877654                 23445899999999999999988     899999988753

>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=99.09  E-value=3.2e-11  Score=73.41  Aligned_cols=49  Identities=24%  Similarity=0.512  Sum_probs=38.1

Q ss_pred             CCcccccccccccCccccCcc-----CCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTC-----LHEFCFLCIKQWSQISSESSPALCKMSKQRLL   96 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~C-----gH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~   96 (153)
                      +...|+||++.+.++.+ .+|     +|.||..||.+|+..+   +..+||+||+.+.
T Consensus         5 d~~~C~IC~~~~~~~~~-~~c~c~~c~h~~H~~Cl~~W~~~~---~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELGNERF-RACGCTGELENVHRSCLSTWLTIS---RNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECSCCCC-CSCCCSSGGGSCCHHHHHHHHHHH---TCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCCCcee-EecccCCCCCEEcHHHHHHHHhhC---CCCCCcccCCeee
Confidence            45679999998886654 344     5999999999998653   1268999998764

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=6.6e-09  Score=67.95  Aligned_cols=49  Identities=24%  Similarity=0.516  Sum_probs=35.0

Q ss_pred             CCccccccccccc--CccccCccCCcccHhhHHHHHHhcC---CCCCCcccCcc
Q psy6056          44 PTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISS---ESSPALCKMSK   92 (153)
Q Consensus        44 ~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~---~~~~~~CP~Cr   92 (153)
                      ....|+||++.+.  +...+.+|+|.||..|+..|+...-   ......||.|.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            3456999999876  3334468999999999999986421   22234799864

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.17  E-value=0.0029  Score=38.47  Aligned_cols=47  Identities=23%  Similarity=0.624  Sum_probs=34.4

Q ss_pred             CCcccccccccccCccccCcc----CCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          44 PTSRCPICLLVLNNRSYTDTC----LHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~~C----gH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      ....|.+|.+.+.+.-.+ .|    +|.||+.|-...++..-.++...||.=
T Consensus         7 ~~l~CtlC~erLEdtHFV-QCPsv~~HkFCFpCsr~sik~q~~~~evyCPSG   57 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFV-QCPSVPSHKFCFPCSRESIKAQGATGEVYCPSG   57 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSE-ECSSCSSCEECHHHHHHHHHHHHSSSCCCCTTS
T ss_pred             CceeeeeehhhhcCCceE-eCCCCcCCceeccccHHHHHhcCCCCcEECCCC
Confidence            347899999999976543 34    799999999988775435555666643

>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=91.46  E-value=0.69  Score=28.56  Aligned_cols=59  Identities=15%  Similarity=0.206  Sum_probs=38.3

Q ss_pred             CCCCCCCccccccccccc-----Cccc-cCccCCcccHhhHHHHHHhcCCCCCCcccCccccccccccc
Q psy6056          39 DRPTSPTSRCPICLLVLN-----NRSY-TDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASA  101 (153)
Q Consensus        39 ~~~~~~~~~C~ICl~~~~-----~~~~-~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~  101 (153)
                      .........|.||-+.+.     ++.+ -..|+--.|..|..==.+..    ...||.|+.++....-.
T Consensus        10 p~~~~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG----~q~CpqCkt~Ykr~kgs   74 (93)
T d1weoa_          10 PLKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREG----TQNCPQCKTRYKRLRGS   74 (93)
T ss_dssp             CCSCCSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTS----CSSCTTTCCCCCCCTTC
T ss_pred             ChhhcccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhcc----CccCcccCChhhhhcCC
Confidence            334456678999998866     2221 12678888999975423322    38999999887764333

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.06  E-value=0.38  Score=29.58  Aligned_cols=36  Identities=22%  Similarity=0.492  Sum_probs=25.9

Q ss_pred             CCCCCCcccccccccccCccccC--ccCCcccHhhHHHH
Q psy6056          40 RPTSPTSRCPICLLVLNNRSYTD--TCLHEFCFLCIKQW   76 (153)
Q Consensus        40 ~~~~~~~~C~ICl~~~~~~~~~~--~CgH~FC~~Ci~~~   76 (153)
                      ++...+..|.|| +.+.......  -|+-.||..|+.+.
T Consensus        10 e~v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          10 EPVVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHH
T ss_pred             cCCCcCcccccc-CcccccceecceeecchhhHHHHHHh
Confidence            445678889999 6666433321  47889999999885

>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=84.22  E-value=0.049  Score=30.64  Aligned_cols=42  Identities=24%  Similarity=0.534  Sum_probs=26.6

Q ss_pred             ccccccccccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          47 RCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        47 ~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      .|.+|...|..-   ---..||..||..|........     ..|..|.+
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~-----RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGP-----RLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----C-----CEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCC-----eECHhHhh
Confidence            488888877632   1223799999999965433322     78888853

>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=83.85  E-value=0.28  Score=28.26  Aligned_cols=42  Identities=21%  Similarity=0.356  Sum_probs=28.5

Q ss_pred             CcccccccccccCcc--ccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056          45 TSRCPICLLVLNNRS--YTDTCLHEFCFLCIKQWSQISSESSPALCKMS   91 (153)
Q Consensus        45 ~~~C~ICl~~~~~~~--~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C   91 (153)
                      ...|--|+..+.+..  .-..|++.||.+|=. ++...    .-.||-|
T Consensus        15 ~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~-fiHe~----lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQHVYVCAVCQNVFCVDCDV-FVHDS----LHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTSEEECCTTTTCCBCHHHHH-TTTTT----SCSSSTT
T ss_pred             CCCccCCCCcCCCCceEECcCCCCccccccch-hhhhh----hcCCCCC
Confidence            346999988887653  234799999999942 22222    3688877

>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=83.72  E-value=0.43  Score=28.33  Aligned_cols=32  Identities=19%  Similarity=0.411  Sum_probs=22.8

Q ss_pred             CCCcccccccccccCc---cccCccCCcccHhhHH
Q psy6056          43 SPTSRCPICLLVLNNR---SYTDTCLHEFCFLCIK   74 (153)
Q Consensus        43 ~~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~   74 (153)
                      .++..|.+|...|..-   .--..||+.||..|..
T Consensus        11 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~   45 (72)
T d1dvpa2          11 ADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTA   45 (72)
T ss_dssp             CCCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSC
T ss_pred             CcCCccccCCCcccCccccccccccCCeeChhhhC
Confidence            3445799999988632   2223799999999963

>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=80.18  E-value=1.1  Score=26.38  Aligned_cols=46  Identities=17%  Similarity=0.362  Sum_probs=27.1

Q ss_pred             CCcccccccccccCccccC---ccC-CcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056          44 PTSRCPICLLVLNNRSYTD---TCL-HEFCFLCIKQWSQISSESSPALCKMSKQ   93 (153)
Q Consensus        44 ~~~~C~ICl~~~~~~~~~~---~Cg-H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~   93 (153)
                      +...| ||.+.....++.-   .|- ..||..|+.  +.. .....-.||.|+.
T Consensus        15 e~~~C-iC~~~~~~~~i~c~~~~C~~~wfH~~Cvg--l~~-~p~~~w~C~~C~~   64 (71)
T d1wesa_          15 EPTYC-LCNQVSYGEMIGCDNEQCPIEWFHFSCVS--LTY-KPKGKWYCPKCRG   64 (71)
T ss_dssp             SCCCS-TTCCCCCSSEECCSCTTCSCCCEETTTTT--CSS-CCSSCCCCTTTSS
T ss_pred             CCCEE-EeCCCCCCCEEEEECCCCCCcCccCccCC--CCc-CCCCcEECcCCcc
Confidence            34556 9987654333222   343 469999973  121 2334578999974