Citrus Sinensis ID: 034125

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100---
Protein Sequence
MRELSRGACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWIKEDAYWETWMEE
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccEEcccccccccEEEEcccccccccccHHHHHHccccccccccccccccccccccHHHHHccccccccccccHHcHHcc
Secondary Structure Prediction (SSPRO)
ccHHccccccHHHHccccccccccEEEccHHccccccEEEccccccccHHHHHHHHHHHHcccccccEEEEEcccccHHHcccccccccccHHccEEEEEccc
Coil and Loop (DISEMBL)
mrelsrgacgegqrsnhtdeEAECAICLEKEYSDESAMIRMQCShifhadcitpwleerlgkscacpvcpfqmplpsfeelsskvksnnwikeDAYWETWMEE
Flexible Loop (DISEMBL)
mrelsrgacgegqrsnhtdeeaECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFeelsskvksnnwiKEDAYWETWMEE
Low Complexity Region (SEG)
MRELSRGACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWIKEDAYWETWMEE
Disordered region (IsUnstruct)
***********************CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWIKEDAYWETW***
Disordered Region (DISOPRED)
***********************CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM***************************M**
Disordered Region (DISEMBL)
********************EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWIKEDAYWETWMEE
Disordered Region (DISPRO)
*********************AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE********NNWIKEDAYWETWMEE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MRELSRGACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWIKEDAYWETWMEE
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	103	2.2.26 [Sep-21-2011]
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.485	0.152	0.436	3e-07
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.592	0.180	0.338	6e-07
Q8RXX9	398	E3 ubiquitin-protein liga	no	no	0.436	0.113	0.448	2e-06
Q1MTR5	556	Uncharacterized RING fing	yes	no	0.524	0.097	0.440	3e-06
Q66HG0	380	E3 ubiquitin-protein liga	yes	no	0.524	0.142	0.440	5e-06
O54965	381	E3 ubiquitin-protein liga	yes	no	0.524	0.141	0.440	5e-06
Q8VEM1	419	E3 ubiquitin-protein liga	no	no	0.436	0.107	0.36	8e-06
Q6Y290	419	E3 ubiquitin-protein liga	no	no	0.436	0.107	0.36	9e-06
Q90972	381	E3 ubiquitin-protein liga	yes	no	0.631	0.170	0.385	1e-05
Q5RCV8	381	E3 ubiquitin-protein liga	yes	no	0.524	0.141	0.423	1e-05

>sp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like OS=Arabidopsis thaliana GN=At3g19950 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 36/55 (65%), Gaps = 5/55 (9%)

Query: 20  EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74
           E  +CA+C++ E+ D S + +M C H+FH DC+ PWLE       +CPVC F++P
Sbjct: 212 EMNQCAVCMD-EFEDGSDVKQMPCKHVFHQDCLLPWLELH----NSCPVCRFELP 261

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|P0CH30|RING1_GOSHI E3 ubiquitin-protein ligase RING1 OS=Gossypium hirsutum GN=RING1 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 23/68 (33%), Positives = 40/68 (58%), Gaps = 7/68 (10%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
           +SN   E  +CA+C++ ++ + +   +M C H++H DC+ PWLE       +CPVC  ++
Sbjct: 214 KSNLNSEFNQCAVCMD-DFEEGTEAKQMPCKHLYHKDCLLPWLELH----NSCPVCRHEL 268

Query: 74  PL--PSFE 79
           P   P +E
Sbjct: 269 PTDDPDYE 276

E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Promotes polyubiquitination of target proteins.

Gossypium hirsutum (taxid: 3635)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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

 Score = 51.6 bits (122), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/49 (44%), Positives = 28/49 (57%), Gaps = 4/49 (8%)

Query: 21  EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           E ECAICL +   DE+  +  +C H+FH  CI  WLE  +     CPVC
Sbjct: 125 ELECAICLNEFEDDETLRLLPKCDHVFHPHCIDAWLEAHV----TCPVC 169

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

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q1MTR5|YG66_SCHPO Uncharacterized RING finger membrane protein C15C4.06c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC15C4.06c PE=4 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 5/59 (8%)

Query: 12  GQRSNHTDEEAECAICLEKEYSDESAMIR-MQCSHIFHADCITPWLEERLGKSCACPVC 69
            +R +   ++ EC ICL  EYS+ES + R + C HIFH  CI P+L   L  S  CP+C
Sbjct: 486 AERGSKYFDQRECTICL-CEYSEESPLYRELPCHHIFHPACIDPYL---LKNSDLCPLC 540

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

>sp|Q66HG0|RNF13_RAT E3 ubiquitin-protein ligase RNF13 OS=Rattus norvegicus GN=Rnf13 PE=2 SV=1

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/59 (44%), Positives = 32/59 (54%), Gaps = 5/59 (8%)

Query: 19  DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77
           DE   CAICLE EY D   +  + CSH +H  C+ PWL +       CPVC  Q  +PS
Sbjct: 235 DEYDVCAICLE-EYEDGDKLRILPCSHAYHCKCVDPWLTK---TKKTCPVCK-QKVVPS 288

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O54965|RNF13_MOUSE E3 ubiquitin-protein ligase RNF13 OS=Mus musculus GN=Rnf13 PE=1 SV=2

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/59 (44%), Positives = 32/59 (54%), Gaps = 5/59 (8%)

Query: 19  DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77
           DE   CAICLE EY D   +  + CSH +H  C+ PWL +       CPVC  Q  +PS
Sbjct: 235 DEYDVCAICLE-EYEDGDKLRILPCSHAYHCKCVDPWLTK---TKKTCPVCK-QKVVPS 288

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8VEM1|GOLI_MOUSE E3 ubiquitin-protein ligase RNF130 OS=Mus musculus GN=Rnf130 PE=2 SV=1

 Score = 48.9 bits (115), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 5/50 (10%)

Query: 24  CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
           CA+C+E  Y     +  + C H+FH  C+ PWL E     C CP+C   +
Sbjct: 264 CAVCIE-SYKQNDVVRVLPCKHVFHKSCVDPWLSEH----CTCPMCKLNI 308

Acts as an E3 ubiquitin-protein ligase (By similarity). May have a role during the programmed cell death of hematopoietic cells.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6Y290|GOLI_RAT E3 ubiquitin-protein ligase RNF130 OS=Rattus norvegicus GN=Rnf130 PE=1 SV=1

 Score = 48.9 bits (115), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 5/50 (10%)

Query: 24  CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
           CA+C+E  Y     +  + C H+FH  C+ PWL E     C CP+C   +
Sbjct: 264 CAVCIE-SYKQNDVVRVLPCKHVFHKSCVDPWLSEH----CTCPMCKLNI 308

Acts as an E3 ubiquitin-protein ligase (By similarity). May have a role during the programmed cell death of hematopoietic cells.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q90972|RNF13_CHICK E3 ubiquitin-protein ligase RNF13 OS=Gallus gallus GN=RNF13 PE=1 SV=1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/70 (38%), Positives = 37/70 (52%), Gaps = 5/70 (7%)

Query: 19  DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF 78
           DE   CAICL+ EY D   +  + CSH +H  C+ PWL +       CPVC  Q  +PS 
Sbjct: 235 DEYDVCAICLD-EYEDGDKLRILPCSHAYHCKCVDPWLTK---TKKTCPVCK-QKVVPSQ 289

Query: 79  EELSSKVKSN 88
            +  S+  S+
Sbjct: 290 GDSDSETDSS 299

E3 ubiquitin-protein ligase. May play a role in controlling cell proliferation, including that of muscle cells.

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RCV8|RNF13_PONAB E3 ubiquitin-protein ligase RNF13 OS=Pongo abelii GN=RNF13 PE=2 SV=1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 32/59 (54%), Gaps = 5/59 (8%)

Query: 19  DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77
           DE   CAICL+ EY D   +  + CSH +H  C+ PWL +       CPVC  Q  +PS
Sbjct: 235 DEYDVCAICLD-EYEDGDKLRILPCSHAYHCKCVDPWLTK---TKKTCPVCK-QKVVPS 288

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.

Pongo abelii (taxid: 9601)

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	103
255934830	890	Pc12g16440 [Penicillium chrysogenum Wisc	0.514	0.059	0.428	2e-07
295660094	890	PA domain-containing protein [Paracoccid	0.514	0.059	0.428	2e-07
358395013	749	hypothetical protein TRIATDRAFT_181807,	0.582	0.080	0.421	3e-07
225678822	890	RING-9 protein [Paracoccidioides brasili	0.514	0.059	0.428	3e-07
226293657	889	PA domain-containing protein [Paracoccid	0.514	0.059	0.428	3e-07
296815022	857	PA and RING finger domain-containing pro	0.514	0.061	0.410	3e-07
315054111	867	PA domain-containing protein [Arthroderm	0.514	0.061	0.410	6e-07
326477811	867	PA and RING finger domain-containing pro	0.514	0.061	0.410	6e-07
406868513	898	C3HC4 type (RING finger) zinc finger con	0.621	0.071	0.373	6e-07
317147263	875	PA and RING finger domain protein [Asper	0.514	0.060	0.410	7e-07

>gi|255934830|ref|XP_002558442.1| Pc12g16440 [Penicillium chrysogenum Wisconsin 54-1255] gi|211583061|emb|CAP81271.1| Pc12g16440 [Penicillium chrysogenum Wisconsin 54-1255]

 Score = 60.1 bits (144), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + EC +CLE+    +S ++R+ C H FHA+CITPWL  R      CP+C
Sbjct: 738 RRKYTGRQVECVVCLEEYIDGQSRVMRLPCGHEFHAECITPWLTTR---RRTCPIC 790

Source: Penicillium chrysogenum Wisconsin 54-1255

Species: Penicillium chrysogenum

Genus: Penicillium

Family: Trichocomaceae

Order: Eurotiales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|295660094|ref|XP_002790604.1| PA domain-containing protein [Paracoccidioides sp. 'lutzii' Pb01] gi|226281479|gb|EEH37045.1| PA domain-containing protein [Paracoccidioides sp. 'lutzii' Pb01]

 Score = 59.3 bits (142), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + ECA+CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 730 RRRYTSRQVECAVCLEEYIDGQSRVMSLPCGHEFHAECITPWLTTR---RRTCPIC 782

Source: Paracoccidioides sp. 'lutzii' Pb01

Species: Paracoccidioides sp. 'lutzii'

Genus: Paracoccidioides

Order: Onygenales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|358395013|gb|EHK44406.1| hypothetical protein TRIATDRAFT_181807, partial [Trichoderma atroviride IMI 206040]

 Score = 59.3 bits (142), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/64 (42%), Positives = 36/64 (56%), Gaps = 4/64 (6%)

Query: 6   RGACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCA 65
           RGA   G+   +   + EC +CLE+     S ++R+ C H FHADCITPWL  R      
Sbjct: 664 RGAI-SGEWRKYMGRQVECVVCLEEYVDGVSRVMRLPCGHEFHADCITPWLTTR---RRT 719

Query: 66  CPVC 69
           CP+C
Sbjct: 720 CPIC 723

Source: Trichoderma atroviride IMI 206040

Species: Trichoderma atroviride

Genus: Hypocrea

Family: Hypocreaceae

Order: Hypocreales

Class: Sordariomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|225678822|gb|EEH17106.1| RING-9 protein [Paracoccidioides brasiliensis Pb03]

 Score = 59.3 bits (142), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + ECA+CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 730 RRRYTSRQVECAVCLEEYIDGQSRVMSLPCGHEFHAECITPWLTTR---RRTCPIC 782

Source: Paracoccidioides brasiliensis Pb03

Species: Paracoccidioides brasiliensis

Genus: Paracoccidioides

Order: Onygenales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|226293657|gb|EEH49077.1| PA domain-containing protein [Paracoccidioides brasiliensis Pb18]

 Score = 58.9 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + ECA+CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 729 RRRYTSRQVECAVCLEEYIDGQSRVMSLPCGHEFHAECITPWLTTR---RRTCPIC 781

Source: Paracoccidioides brasiliensis Pb18

Species: Paracoccidioides brasiliensis

Genus: Paracoccidioides

Order: Onygenales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|296815022|ref|XP_002847848.1| PA and RING finger domain-containing protein [Arthroderma otae CBS 113480] gi|238840873|gb|EEQ30535.1| PA and RING finger domain-containing protein [Arthroderma otae CBS 113480]

 Score = 58.9 bits (141), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + EC +CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 702 RRKYTGRQVECVVCLEEYVDGQSKVMSLPCGHEFHAECITPWLTTR---RRTCPIC 754

Source: Arthroderma otae CBS 113480

Species: Arthroderma otae

Genus: Arthroderma

Family: Arthrodermataceae

Order: Onygenales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|315054111|ref|XP_003176430.1| PA domain-containing protein [Arthroderma gypseum CBS 118893] gi|311338276|gb|EFQ97478.1| PA domain-containing protein [Arthroderma gypseum CBS 118893]

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + EC +CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 712 RRKYTGRQVECVVCLEEYVDGQSKVMSLPCGHEFHAECITPWLTTR---RRTCPIC 764

Source: Arthroderma gypseum CBS 118893

Species: Arthroderma gypseum

Genus: Arthroderma

Family: Arthrodermataceae

Order: Onygenales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|326477811|gb|EGE01821.1| PA and RING finger domain-containing protein [Trichophyton equinum CBS 127.97]

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + EC +CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 712 RRKYTGRQVECVVCLEEYVDGQSKVMSLPCGHEFHAECITPWLTTR---RRTCPIC 764

Source: Trichophyton equinum CBS 127.97

Species: Trichophyton equinum

Genus: Trichophyton

Family: Arthrodermataceae

Order: Onygenales

Class: Eurotiomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|406868513|gb|EKD21550.1| C3HC4 type (RING finger) zinc finger containing protein [Marssonina brunnea f. sp. 'multigermtubi' MB_m1]

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/67 (37%), Positives = 36/67 (53%), Gaps = 3/67 (4%)

Query: 3   ELSRGACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGK 62
           E  + A    +   H  ++ EC +CLE+     S ++ + C H FHADCITPWL +R   
Sbjct: 738 EHEKNASESSEWKKHMSKQVECVVCLEEYVDGVSRVMSLPCGHEFHADCITPWLTKR--- 794

Query: 63  SCACPVC 69
              CP+C
Sbjct: 795 RRTCPIC 801

Source: Marssonina brunnea f. sp. 'multigermtubi' MB_m1

Species: Marssonina brunnea

Genus: Marssonina

Family: Dermateaceae

Order: Helotiales

Class: Leotiomycetes

Phylum: Ascomycota

>gi|317147263|ref|XP_001822003.2| PA and RING finger domain protein [Aspergillus oryzae RIB40]

 Score = 57.8 bits (138), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 3/56 (5%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R  +T  + EC +CLE+    +S ++ + C H FHA+CITPWL  R      CP+C
Sbjct: 719 RRKYTGRQVECVVCLEEYVDGQSRVMSLPCGHEFHAECITPWLTTR---RRTCPIC 771

Source: Aspergillus oryzae RIB40

Species: Aspergillus oryzae

Genus: Aspergillus

Family: Trichocomaceae

Order: Eurotiales

Class: Eurotiomycetes

Phylum: Ascomycota

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	103
TAIR|locus:2092231	328	AT3G19950 [Arabidopsis thalian	0.563	0.176	0.446	4.5e-10
TAIR|locus:2101447	306	AT3G60080 [Arabidopsis thalian	0.446	0.150	0.470	8.3e-10
TAIR|locus:2200610	204	AT1G26800 [Arabidopsis thalian	0.640	0.323	0.391	8.4e-10
RGD|1359698	165	Rnf181 "ring finger protein 18	0.533	0.333	0.403	2.2e-09
UNIPROTKB|Q6AXU4	165	Rnf181 "E3 ubiquitin-protein l	0.533	0.333	0.403	2.2e-09
ASPGD|ASPL0000044927	238	AN1658 [Emericella nidulans (t	0.495	0.214	0.4	3.5e-09
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.533	0.395	0.387	3.6e-09
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.533	0.359	0.387	3.6e-09
ASPGD|ASPL0000072677	812	AN4637 [Emericella nidulans (t	0.504	0.064	0.438	5.8e-09
TAIR|locus:2075175	395	RDUF1 "RING and Domain of Unkn	0.504	0.131	0.491	6.6e-09

TAIR|locus:2092231 AT3G19950 [Arabidopsis thaliana (taxid:3702)]

 Score = 149 (57.5 bits), Expect = 4.5e-10, P = 4.5e-10
 Identities = 29/65 (44%), Positives = 41/65 (63%)

Query:    20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL--PS 77
             E  +CA+C++ E+ D S + +M C H+FH DC+ PWLE  L  SC  PVC F++P   P 
Sbjct:   212 EMNQCAVCMD-EFEDGSDVKQMPCKHVFHQDCLLPWLE--LHNSC--PVCRFELPTDDPD 266

Query:    78 FEELS 82
             +E  S
Sbjct:   267 YENRS 271

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

GO:0010200 "response to chitin" evidence=RCA

TAIR|locus:2101447 AT3G60080 [Arabidopsis thaliana (taxid:3702)]

 Score = 133 (51.9 bits), Expect = 8.3e-10, Sum P(2) = 8.3e-10
 Identities = 24/51 (47%), Positives = 33/51 (64%)

Query:    24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74
             CA+C E     ESA  R+ CSHI+H+DCI PWL +      +CP+C F++P
Sbjct:   169 CAVCKEDFIIGESAR-RLPCSHIYHSDCIVPWLSDHN----SCPLCRFELP 214

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2200610 AT1G26800 [Arabidopsis thaliana (taxid:3702)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 29/74 (39%), Positives = 39/74 (52%)

Query:    21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEE 80
             E EC ICLE E+  E  +  M C H FH  CI  WL    G   +CPVC ++MP+   +E
Sbjct:   110 EGECVICLE-EWKSEETVKEMPCKHRFHGGCIEKWL----GFHGSCPVCRYEMPVDG-DE 163

Query:    81 LSSKVKSNN--WIK 92
             +  K    N  W++
Sbjct:   164 IGKKRNDGNEIWVR 177

GO:0005634 "nucleus" evidence=ISM

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

RGD|1359698 Rnf181 "ring finger protein 181" [Rattus norvegicus (taxid:10116)]

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 25/62 (40%), Positives = 39/62 (62%)

Query:    21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP--SF 78
             E +C +CL  E+ +E  +I M C H+FH++CI PWL     K+ +CP+C  ++P    S+
Sbjct:    85 ELKCPVCL-LEFEEEETVIEMPCHHLFHSNCILPWLS----KTNSCPLCRHELPTDDDSY 139

Query:    79 EE 80
             EE
Sbjct:   140 EE 141

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

UNIPROTKB|Q6AXU4 Rnf181 "E3 ubiquitin-protein ligase RNF181" [Rattus norvegicus (taxid:10116)]

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 25/62 (40%), Positives = 39/62 (62%)

Query:    21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP--SF 78
             E +C +CL  E+ +E  +I M C H+FH++CI PWL     K+ +CP+C  ++P    S+
Sbjct:    85 ELKCPVCL-LEFEEEETVIEMPCHHLFHSNCILPWLS----KTNSCPLCRHELPTDDDSY 139

Query:    79 EE 80
             EE
Sbjct:   140 EE 141

GO:0008270 "zinc ion binding" evidence=IEA

ASPGD|ASPL0000044927 AN1658 [Emericella nidulans (taxid:162425)]

 Score = 137 (53.3 bits), Expect = 3.5e-09, P = 3.5e-09
 Identities = 22/55 (40%), Positives = 35/55 (63%)

Query:    15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
             S+H D   ECAIC+E ++ D+ ++  + C HI+HA C+ PW  +R  +   CP+C
Sbjct:   158 SSHGDAHRECAICME-DFDDDDSIRALTCDHIYHATCLDPWFTKRQAR---CPLC 208

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|C9J1C6 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 24/62 (38%), Positives = 38/62 (61%)

Query:    21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP--SF 78
             E +C +CL  E+ +E   I M C H+FH+ CI PWL     K+ +CP+C +++P    ++
Sbjct:    73 ELKCPVCL-LEFEEEETAIEMPCHHLFHSSCILPWLS----KTNSCPLCRYELPTDDDTY 127

Query:    79 EE 80
             EE
Sbjct:   128 EE 129

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9P0P0 RNF181 "E3 ubiquitin-protein ligase RNF181" [Homo sapiens (taxid:9606)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 24/62 (38%), Positives = 38/62 (61%)

Query:    21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP--SF 78
             E +C +CL  E+ +E   I M C H+FH+ CI PWL     K+ +CP+C +++P    ++
Sbjct:    73 ELKCPVCL-LEFEEEETAIEMPCHHLFHSSCILPWLS----KTNSCPLCRYELPTDDDTY 127

Query:    79 EE 80
             EE
Sbjct:   128 EE 129

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

ASPGD|ASPL0000072677 AN4637 [Emericella nidulans (taxid:162425)]

 Score = 135 (52.6 bits), Expect = 5.8e-09, Sum P(2) = 5.8e-09
 Identities = 25/57 (43%), Positives = 34/57 (59%)

Query:    14 RSNHTDEEAECAICLEKEYSD-ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
             R  +T  + EC +CLE EY D +S ++ + C H FH +CITPWL  R      CP+C
Sbjct:   668 RRKYTGRQIECVVCLE-EYIDGQSRVMSLPCGHEFHVECITPWLTTRRR---TCPIC 720

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2075175 RDUF1 "RING and Domain of Unknown Function 1117 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 140 (54.3 bits), Expect = 6.6e-09, P = 6.6e-09
 Identities = 29/59 (49%), Positives = 33/59 (55%)

Query:    17 HTDEEAECAICLEK-EYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74
             HT  EA CA+C E  E   E     M C HIFH DCI PWL  R     +CPVC F++P
Sbjct:   208 HTKAEANCAVCTEVFEAGIEGR--EMPCKHIFHGDCIVPWLSIRN----SCPVCRFELP 260

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

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

GO:0051865 "protein autoubiquitination" evidence=IDA

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

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

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

GO:0035556 "intracellular signal transduction" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	103
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	2e-08
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-07
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	8e-06
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	9e-06
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	8e-05
smart00184	40	smart00184, RING, Ring finger	9e-05
PHA02926	242	PHA02926, PHA02926, zinc finger-like protein; Prov	1e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	8e-04

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

 Score = 45.8 bits (109), Expect = 2e-08
 Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 5/47 (10%)

Query: 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          EC ICL+ E+     ++ + C H+FH +C+  WL      S  CP+C
Sbjct: 2  ECPICLD-EFEPGEEVVVLPCGHVFHKECLDKWLR----SSNTCPLC 43

Length = 46

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

 Score = 46.9 bits (111), Expect = 2e-07
 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 4/54 (7%)

Query: 23  ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76
           ECAIC+     ++   + + C H FH  C+  WL   LG S  CPVC   +P P
Sbjct: 325 ECAICMSNFIKNDRLRV-LPCDHRFHVGCVDKWL---LGYSNKCPVCRTAIPPP 374

Length = 374

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

 Score = 42.1 bits (99), Expect = 8e-06
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 8/54 (14%)

Query: 20  EEAECAICLEKEYSDESAM----IRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           ++ ECAIC+EK Y  E       I   C+H+F  +CI  W +E+      CPVC
Sbjct: 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----NTCPVC 222

Length = 238

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

 Score = 39.4 bits (92), Expect = 9e-06
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 6/47 (12%)

Query: 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          EC ICLE+       ++ + C H+F   CI  WL+        CP+C
Sbjct: 1  ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNT---CPLC 41

Length = 45

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

 Score = 39.7 bits (93), Expect = 1e-05
 Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 13/59 (22%)

Query: 20 EEAECAICLE---------KEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          E+  CAIC           K   D+  ++  +C H FH  CI+ WL+ R      CP+C
Sbjct: 18 EDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRN----TCPLC 72

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

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

 Score = 39.6 bits (92), Expect = 8e-05
 Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 16/75 (21%)

Query: 24  CAICLEKEYSDESAMI---------RMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74
           C IC+++ +  +   +         R+ C HI H  C+  WLE    +   CP+C  + P
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE----RQQTCPIC--RRP 343

Query: 75  LPSFEELSSKVKSNN 89
           +  F++ S    S N
Sbjct: 344 V-IFDQSSPTPASPN 357

Length = 491

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

 Score = 36.3 bits (84), Expect = 9e-05
 Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 6/46 (13%)

Query: 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          C ICLE+   D    + + C H F   CI  WLE        CP+C
Sbjct: 1  CPICLEEYLKD---PVILPCGHTFCRSCIRKWLESGNNT---CPIC 40

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

>gnl|CDD|165237 PHA02926, PHA02926, zinc finger-like protein; Provisional

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 22/57 (38%), Positives = 26/57 (45%), Gaps = 7/57 (12%)

Query: 20  EEAECAICLEKEYS-----DESAMIRMQCSHIFHADCITPWLEER--LGKSCACPVC 69
           +E EC IC E  YS     D    +   C+HIF   CI  W   R   G S  CP+C
Sbjct: 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPIC 225

Length = 242

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

 Score = 36.6 bits (84), Expect = 8e-04
 Identities = 16/59 (27%), Positives = 22/59 (37%), Gaps = 13/59 (22%)

Query: 23   ECAICLEKEYSDESAMIRM-------QCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74
            ECAIC    YS    + R         C + FH  C+  W          CP+C  ++ 
Sbjct: 1471 ECAIC----YSVLDMVDRSLPSKRCATCKNKFHTRCLYKWF--ASSARSNCPLCRSEIT 1523

Length = 1525

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	103
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.59
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.46
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.36
PHA02929	238	N1R/p28-like protein; Provisional	99.32
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.31
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.3
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.29
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.28
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.27
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.26
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.24
PHA02926	242	zinc finger-like protein; Provisional	99.17
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.14
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.14
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.12
PF14634	44	zf-RING_5: zinc-RING finger domain	99.09
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.02
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.01
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.96
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.95
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.94
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.94
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.9
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.88
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.82
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.82
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.71
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.65
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.6
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.6
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.53
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.53
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.51
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.49
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.46
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.46
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.45
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.44
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.34
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.27
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.22
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.21
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.17
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.13
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.09
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	98.03
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	98.01
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.95
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.84
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.79
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.69
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.68
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.66
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.65
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.55
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.52
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.38
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	97.33
KOG2660	331	consensus Locus-specific chromosome binding protei	97.28
PHA02825	162	LAP/PHD finger-like protein; Provisional	97.26
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.18
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.1
KOG1940	276	consensus Zn-finger protein [General function pred	97.01
PHA02862	156	5L protein; Provisional	96.99
KOG4739	233	consensus Uncharacterized protein involved in syna	96.88
COG5152	259	Uncharacterized conserved protein, contains RING a	96.85
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.84
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.8
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.79
PHA03096	284	p28-like protein; Provisional	96.75
PF04641	260	Rtf2: Rtf2 RING-finger	96.74
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.74
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.72
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.71
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	96.71
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	96.68
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.65
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	96.63
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	96.57
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.56
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.51
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	96.46
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	96.41
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	96.37
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.35
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.29
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.23
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.17
KOG3053	293	consensus Uncharacterized conserved protein [Funct	96.03
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.86
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.5
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	95.21
KOG3002	299	consensus Zn finger protein [General function pred	95.01
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	94.89
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.76
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	94.45
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	94.42
KOG1001	674	consensus Helicase-like transcription factor HLTF/	94.22
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	94.2
KOG3899	381	consensus Uncharacterized conserved protein [Funct	94.17
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	94.13
KOG4367	699	consensus Predicted Zn-finger protein [Function un	93.58
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	93.49
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.33
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	92.81
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	92.31
COG5109	396	Uncharacterized conserved protein, contains RING Z	92.03
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.73
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	91.36
KOG3799	169	consensus Rab3 effector RIM1 and related proteins,	91.32
PF10497	105	zf-4CXXC_R1: Zinc-finger domain of monoamine-oxida	91.3
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	90.89
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	90.83
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	89.91
KOG1609	323	consensus Protein involved in mRNA turnover and st	89.84
KOG1829	580	consensus Uncharacterized conserved protein, conta	88.71
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	87.98
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	87.24
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	85.94
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	84.24
KOG3113	293	consensus Uncharacterized conserved protein [Funct	83.5
KOG2068	327	consensus MOT2 transcription factor [Transcription	82.71
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	82.22
KOG2807	378	consensus RNA polymerase II transcription initiati	80.85
KOG1245	1404	consensus Chromatin remodeling complex WSTF-ISWI,	80.55
KOG0269	839	consensus WD40 repeat-containing protein [Function	80.17

>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=99.59  E-value=4.5e-16  Score=79.87  Aligned_cols=44  Identities=45%  Similarity=1.228  Sum_probs=37.7

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      .+|+||++ .+..+..+..++|+|.||..||..|++.+    .+||+||
T Consensus         1 d~C~IC~~-~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~----~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLE-EFEDGEKVVKLPCGHVFHRSCIKEWLKRN----NSCPVCR   44 (44)
T ss_dssp             -CETTTTC-BHHTTSCEEEETTSEEEEHHHHHHHHHHS----SB-TTTH
T ss_pred             CCCcCCCh-hhcCCCeEEEccCCCeeCHHHHHHHHHhC----CcCCccC
Confidence            37999999 77667777788999999999999999998    7999997

...

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

Probab=99.46  E-value=4.6e-14  Score=99.31  Aligned_cols=52  Identities=42%  Similarity=0.968  Sum_probs=46.1

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ..|+||+| +|..+..++.|||.|.||..||.+|+....   ..||+|+..++...
T Consensus       230 ~~CaIClE-dY~~GdklRiLPC~H~FH~~CIDpWL~~~r---~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  230 DTCAICLE-DYEKGDKLRILPCSHKFHVNCIDPWLTQTR---TFCPVCKRDIRTDS  281 (348)
T ss_pred             ceEEEeec-ccccCCeeeEecCCCchhhccchhhHhhcC---ccCCCCCCcCCCCC
Confidence            49999999 999999999999999999999999998772   56999999876443

>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=99.36  E-value=6.9e-13  Score=74.92  Aligned_cols=45  Identities=42%  Similarity=1.068  Sum_probs=34.1

Q ss_pred             ccccccccccccCC----------CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSD----------ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        21 ~~~C~IC~~~~~~~----------~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      +..|+||++ .+..          ...+...+|+|.||..||.+|+...    .+||+||
T Consensus        19 ~d~C~IC~~-~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICRE-PLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN----NTCPLCR   73 (73)
T ss_dssp             CSBETTTTS-BTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS----SB-TTSS
T ss_pred             CCcccccCh-hhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC----CcCCCCC
Confidence            445999999 5521          1234445799999999999999988    7999997

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.32  E-value=1.8e-12  Score=87.68  Aligned_cols=51  Identities=37%  Similarity=0.879  Sum_probs=39.8

Q ss_pred             CCccccccccccccCCCCc-----eEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESA-----MIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~-----~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ..+.+|+||++ .+...+.     ....+|+|.||..||..|+...    .+||+||..+.
T Consensus       172 ~~~~eC~ICle-~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~----~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICME-KVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----NTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCc-ccccCccccccceecCCCCCcccHHHHHHHHhcC----CCCCCCCCEee
Confidence            45689999999 5444321     2334699999999999999877    79999998764

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

Probab=99.31  E-value=1.6e-12  Score=89.66  Aligned_cols=53  Identities=36%  Similarity=0.923  Sum_probs=45.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHH-hcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLE-ERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~-~~~~~~~~CP~Cr~~~~~~   76 (103)
                      +-+.+|+||++ .+.....+..+||.|.||..|+.+|+. .+    ..||+||..++++
T Consensus       321 ~~GveCaICms-~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~----~~CPvCrt~iPPp  374 (374)
T COG5540         321 DKGVECAICMS-NFIKNDRLRVLPCDHRFHVGCVDKWLLGYS----NKCPVCRTAIPPP  374 (374)
T ss_pred             CCCceEEEEhh-hhcccceEEEeccCceechhHHHHHHhhhc----ccCCccCCCCCCC
Confidence            34578999999 777777788889999999999999998 44    7899999998753

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.30  E-value=5.5e-12  Score=82.51  Aligned_cols=57  Identities=25%  Similarity=0.640  Sum_probs=41.8

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc------------CCCCCCCCCCCCCCCCCChh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER------------LGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~------------~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      .++..|+||++ .+ ..+.  .++|||.||..||..|+...            ..+...||+||..+....+.
T Consensus        16 ~~~~~CpICld-~~-~dPV--vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv   84 (193)
T PLN03208         16 GGDFDCNICLD-QV-RDPV--VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV   84 (193)
T ss_pred             CCccCCccCCC-cC-CCcE--EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence            56789999999 43 3333  34899999999999998642            12346899999988654443

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

Probab=99.29  E-value=3.9e-12  Score=84.75  Aligned_cols=57  Identities=28%  Similarity=0.745  Sum_probs=45.5

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ....++|.||++  ...++++.  .|||.||..||.+|+... .....||+|+..+..+.+.
T Consensus        44 ~~~~FdCNICLd--~akdPVvT--lCGHLFCWpClyqWl~~~-~~~~~cPVCK~~Vs~~~vv  100 (230)
T KOG0823|consen   44 DGGFFDCNICLD--LAKDPVVT--LCGHLFCWPCLYQWLQTR-PNSKECPVCKAEVSIDTVV  100 (230)
T ss_pred             CCCceeeeeecc--ccCCCEEe--ecccceehHHHHHHHhhc-CCCeeCCccccccccceEE
Confidence            467789999999  45555544  799999999999999887 4567899999888655544

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

Probab=99.28  E-value=4.2e-12  Score=86.90  Aligned_cols=61  Identities=26%  Similarity=0.631  Sum_probs=47.4

Q ss_pred             CCCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           11 EGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        11 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      +............|.+|++  ....  ...+||||.||..||..|...+    .-||+||..+.+.++.
T Consensus       229 s~~~~~i~~a~~kC~LCLe--~~~~--pSaTpCGHiFCWsCI~~w~~ek----~eCPlCR~~~~pskvi  289 (293)
T KOG0317|consen  229 SNSLSSIPEATRKCSLCLE--NRSN--PSATPCGHIFCWSCILEWCSEK----AECPLCREKFQPSKVI  289 (293)
T ss_pred             ccCCccCCCCCCceEEEec--CCCC--CCcCcCcchHHHHHHHHHHccc----cCCCcccccCCCccee
Confidence            3444555677789999999  3333  3455999999999999999998    7799999988766543

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

Probab=99.27  E-value=2.6e-12  Score=90.75  Aligned_cols=54  Identities=31%  Similarity=0.857  Sum_probs=44.0

Q ss_pred             CCCCCCccccccccccccCCCC----------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           15 SNHTDEEAECAICLEKEYSDES----------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~----------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .+...++..|.||++ ++...+          ...++||||.+|..|++.|+++.    .+||+||.++
T Consensus       281 eql~n~D~~C~ICmd-e~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq----QTCPICr~p~  344 (491)
T COG5243         281 EQLTNSDRTCTICMD-EMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ----QTCPICRRPV  344 (491)
T ss_pred             hhhcCCCCeEEEecc-cccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc----cCCCcccCcc
Confidence            444678889999999 533222          34678999999999999999999    8999999884

>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=99.26  E-value=4.3e-12  Score=66.64  Aligned_cols=47  Identities=30%  Similarity=0.872  Sum_probs=37.0

Q ss_pred             CccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ++..|.||++ .   ...+..+||||. ||..|+..|+...    ..||+||+++.
T Consensus         1 ~~~~C~iC~~-~---~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CP~Cr~~i~   48 (50)
T PF13920_consen    1 EDEECPICFE-N---PRDVVLLPCGHLCFCEECAERLLKRK----KKCPICRQPIE   48 (50)
T ss_dssp             -HSB-TTTSS-S---BSSEEEETTCEEEEEHHHHHHHHHTT----SBBTTTTBB-S
T ss_pred             CcCCCccCCc-c---CCceEEeCCCChHHHHHHhHHhcccC----CCCCcCChhhc
Confidence            3578999999 3   333566799999 9999999999976    89999998764

...

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

Probab=99.24  E-value=3.9e-12  Score=64.54  Aligned_cols=42  Identities=31%  Similarity=0.887  Sum_probs=29.9

Q ss_pred             cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      |+||++  +...+  ..++|||+||..||..|+.........||.|
T Consensus         1 CpiC~~--~~~~P--v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLD--LFKDP--VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTS--B-SSE--EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccch--hhCCc--cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999  45554  4459999999999999998764444789987

>PHA02926 zinc finger-like protein; Provisional

Probab=99.17  E-value=3.6e-11  Score=79.94  Aligned_cols=55  Identities=35%  Similarity=0.725  Sum_probs=39.6

Q ss_pred             CCccccccccccccCCC-----CceEe-cCCCchhhHHHHHHHHHhcC--CCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDE-----SAMIR-MQCSHIFHADCITPWLEERL--GKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~-----~~~~~-~~C~H~f~~~Cl~~~~~~~~--~~~~~CP~Cr~~~~   74 (103)
                      ..+.+|+||++ ....+     ..... .+|+|.||..||..|...++  +...+||+||..+.
T Consensus       168 SkE~eCgICmE-~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYE-VVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCcc-ccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            55789999999 43222     11223 36999999999999998642  34567999998763

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

Probab=99.14  E-value=6.3e-11  Score=76.25  Aligned_cols=53  Identities=26%  Similarity=0.723  Sum_probs=41.5

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ...+.|||||+ .+..... ....|||+||..||+..+...    ..||+|++.+..+.
T Consensus       129 ~~~~~CPiCl~-~~sek~~-vsTkCGHvFC~~Cik~alk~~----~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLD-SVSEKVP-VSTKCGHVFCSQCIKDALKNT----NKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceec-chhhccc-cccccchhHHHHHHHHHHHhC----CCCCCcccccchhh
Confidence            45678999999 5444432 224799999999999999888    89999998776544

>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=99.14  E-value=3.7e-11  Score=59.96  Aligned_cols=39  Identities=44%  Similarity=1.083  Sum_probs=30.8

Q ss_pred             cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      |+||++ .+..  .+..++|||.||..|+.+|++..    ..||+|
T Consensus         1 C~iC~~-~~~~--~~~~~~CGH~fC~~C~~~~~~~~----~~CP~C   39 (39)
T PF13923_consen    1 CPICLD-ELRD--PVVVTPCGHSFCKECIEKYLEKN----PKCPVC   39 (39)
T ss_dssp             ETTTTS-B-SS--EEEECTTSEEEEHHHHHHHHHCT----SB-TTT
T ss_pred             CCCCCC-cccC--cCEECCCCCchhHHHHHHHHHCc----CCCcCC
Confidence            899999 4433  33556899999999999999886    899987

>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=99.12  E-value=1.2e-10  Score=58.79  Aligned_cols=45  Identities=38%  Similarity=1.064  Sum_probs=34.3

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .|+||++ .+  ...+...+|+|.||..|+..|+...   ...||+|+..+
T Consensus         1 ~C~iC~~-~~--~~~~~~~~C~H~~c~~C~~~~~~~~---~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLE-EF--REPVVLLPCGHVFCRSCIDKWLKSG---KNTCPLCRTPI   45 (45)
T ss_pred             CCCcCch-hh--hCceEecCCCChhcHHHHHHHHHhC---cCCCCCCCCcC
Confidence            5899999 54  2333444699999999999999872   26899998753

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.09  E-value=1.3e-10  Score=59.40  Aligned_cols=44  Identities=36%  Similarity=0.854  Sum_probs=35.1

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .|+||++ .+........++|||.||..|+......    ...||+||+
T Consensus         1 ~C~~C~~-~~~~~~~~~l~~CgH~~C~~C~~~~~~~----~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFE-KYSEERRPRLTSCGHIFCEKCLKKLKGK----SVKCPICRK   44 (44)
T ss_pred             CCcCcCc-cccCCCCeEEcccCCHHHHHHHHhhcCC----CCCCcCCCC
Confidence            4899999 6644455677789999999999998732    379999984

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

Probab=99.02  E-value=4.9e-10  Score=64.42  Aligned_cols=53  Identities=28%  Similarity=0.762  Sum_probs=37.3

Q ss_pred             CccccccccccccCC----------CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSD----------ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~----------~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+..|.||.. .|..          .-.+..-.|+|.||..||.+|+.... ...+||+||+.+.
T Consensus        20 ~dd~CgICr~-~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~-~~~~CPmCR~~w~   82 (85)
T PF12861_consen   20 NDDVCGICRM-PFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS-SKGQCPMCRQPWK   82 (85)
T ss_pred             CCCceeeEec-ccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc-CCCCCCCcCCeee
Confidence            3667888877 4321          11223336999999999999998752 3469999998764

>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=99.01  E-value=2.8e-10  Score=57.15  Aligned_cols=41  Identities=46%  Similarity=1.177  Sum_probs=32.1

Q ss_pred             cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      |+||++ .+...  ...++|+|.||..|+..|+...  +...||+|
T Consensus         1 C~iC~~-~~~~~--~~~~~C~H~fC~~C~~~~~~~~--~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLE-PFEDP--VILLPCGHSFCRDCLRKWLENS--GSVKCPLC   41 (41)
T ss_dssp             ETTTSS-BCSSE--EEETTTSEEEEHHHHHHHHHHT--SSSBTTTT
T ss_pred             CCcCCc-cccCC--CEEecCCCcchHHHHHHHHHhc--CCccCCcC
Confidence            799999 43332  2466899999999999999963  44789987

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 ....

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

Probab=98.96  E-value=3.3e-10  Score=82.76  Aligned_cols=55  Identities=33%  Similarity=0.832  Sum_probs=42.0

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCCCCCCChh
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      +..||||++    ......++.|||.||..||.+++... ..+...||+||..+..+++.
T Consensus       186 ~~~CPICL~----~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~  241 (513)
T KOG2164|consen  186 DMQCPICLE----PPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL  241 (513)
T ss_pred             CCcCCcccC----CCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence            788999999    33333444699999999999998766 34667899999887664443

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

Probab=98.95  E-value=4.1e-10  Score=84.23  Aligned_cols=52  Identities=35%  Similarity=0.848  Sum_probs=42.6

Q ss_pred             CCCCccccccccccccCCCCc--eEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESA--MIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~--~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ....+..|+||++ .+.....  ..+++|+|.||..|+..|+++.    .+||+||..+
T Consensus       287 ~~~~~~~C~IC~e-~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~----qtCP~CR~~~  340 (543)
T KOG0802|consen  287 LALSDELCIICLE-ELHSGHNITPKRLPCGHIFHDSCLRSWFERQ----QTCPTCRTVL  340 (543)
T ss_pred             hhhcCCeeeeech-hhccccccccceeecccchHHHHHHHHHHHh----CcCCcchhhh
Confidence            3355789999999 6665432  5667999999999999999998    8999999844

>smart00504 Ubox Modified RING finger domain

Probab=98.94  E-value=1.1e-09  Score=59.74  Aligned_cols=50  Identities=18%  Similarity=0.311  Sum_probs=39.5

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ..|+||.+ . ...+.  .++|||+|+..||..|+...    ..||+|+..+...++.
T Consensus         2 ~~Cpi~~~-~-~~~Pv--~~~~G~v~~~~~i~~~~~~~----~~cP~~~~~~~~~~l~   51 (63)
T smart00504        2 FLCPISLE-V-MKDPV--ILPSGQTYERRAIEKWLLSH----GTDPVTGQPLTHEDLI   51 (63)
T ss_pred             cCCcCCCC-c-CCCCE--ECCCCCEEeHHHHHHHHHHC----CCCCCCcCCCChhhce
Confidence            57999999 4 44443  34899999999999999875    7999999887554443

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

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

Probab=98.94  E-value=8.9e-10  Score=56.00  Aligned_cols=43  Identities=28%  Similarity=0.700  Sum_probs=24.0

Q ss_pred             cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACP   67 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP   67 (103)
                      |+||.+ ..........|+|||+|+..|+.+++..+..+...||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 4344445566799999999999999986633456776

>smart00184 RING Ring finger

Probab=98.90  E-value=2.5e-09  Score=52.16  Aligned_cols=39  Identities=41%  Similarity=1.079  Sum_probs=30.3

Q ss_pred             cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      |+||++ .   ......++|+|.||..|+..|+...   ...||+|
T Consensus         1 C~iC~~-~---~~~~~~~~C~H~~c~~C~~~~~~~~---~~~CP~C   39 (39)
T smart00184        1 CPICLE-E---LKDPVVLPCGHTFCRSCIRKWLKSG---NNTCPIC   39 (39)
T ss_pred             CCcCcc-C---CCCcEEecCCChHHHHHHHHHHHhC---cCCCCCC
Confidence            789999 3   3334556899999999999999832   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)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.88  E-value=2.2e-09  Score=77.37  Aligned_cols=51  Identities=29%  Similarity=0.622  Sum_probs=40.7

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .+....|+||++ .+ ..+.  .++|+|.||..||..|+...    ..||+|+..+...
T Consensus        23 Le~~l~C~IC~d-~~-~~Pv--itpCgH~FCs~CI~~~l~~~----~~CP~Cr~~~~~~   73 (397)
T TIGR00599        23 LDTSLRCHICKD-FF-DVPV--LTSCSHTFCSLCIRRCLSNQ----PKCPLCRAEDQES   73 (397)
T ss_pred             cccccCCCcCch-hh-hCcc--CCCCCCchhHHHHHHHHhCC----CCCCCCCCccccc
Confidence            366789999999 44 4443  35899999999999999876    6899999887543

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

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

Probab=98.82  E-value=2.7e-09  Score=72.53  Aligned_cols=53  Identities=23%  Similarity=0.614  Sum_probs=40.2

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHH-HHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITP-WLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~-~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ..+..|+||++    .......++|||.||..||.. |-.++   ...||+||+...++.+
T Consensus       213 ~~d~kC~lC~e----~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~~pk~v  266 (271)
T COG5574         213 LADYKCFLCLE----EPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccccceeeeec----ccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhccchhh
Confidence            56788999999    333345568999999999999 66555   2459999998765544

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

Probab=98.82  E-value=1.2e-09  Score=76.73  Aligned_cols=53  Identities=30%  Similarity=0.715  Sum_probs=43.9

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      +.-..|-||++  |+..+.++  ||+|.||..||+.++..+    ..||.|+..+....+.
T Consensus        21 D~lLRC~IC~e--yf~ip~it--pCsHtfCSlCIR~~L~~~----p~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   21 DDLLRCGICFE--YFNIPMIT--PCSHTFCSLCIRKFLSYK----PQCPTCCVTVTESDLR   73 (442)
T ss_pred             HHHHHHhHHHH--HhcCceec--cccchHHHHHHHHHhccC----CCCCceecccchhhhh
Confidence            56678999999  56655555  899999999999999998    8999999888655543

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.71  E-value=1.5e-08  Score=70.75  Aligned_cols=55  Identities=20%  Similarity=0.551  Sum_probs=39.9

Q ss_pred             CccccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ++..||||....+..+.....+ +|||.||..|+...+...   ...||.|+..+....
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~---~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---SGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC---CCCCCCCCCccchhh
Confidence            3568999999445555432222 699999999999977543   268999998876544

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).

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

Probab=98.65  E-value=6.2e-09  Score=71.10  Aligned_cols=68  Identities=26%  Similarity=0.630  Sum_probs=47.6

Q ss_pred             CCccccccccccccCCCC-------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhhhhhhccCCcc
Q 034125           19 DEEAECAICLEKEYSDES-------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWI   91 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~-------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~   91 (103)
                      -++..|+||-. .+....       .+..+.|+|+||..||+.|..-.  +..+||.|+..+.       .+.+.+|.|.
T Consensus       222 l~d~vCaVCg~-~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG--KkqtCPYCKekVd-------l~rmfsnpWe  291 (328)
T KOG1734|consen  222 LSDSVCAVCGQ-QIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG--KKQTCPYCKEKVD-------LKRMFSNPWE  291 (328)
T ss_pred             CCcchhHhhcc-hheeecchhhhhhhheeeecccchHHHhhhhheeec--CCCCCchHHHHhh-------HhhhccCccc
Confidence            56778999987 443332       45677899999999999998644  3479999977553       3334456666


Q ss_pred             ccchh
Q 034125           92 KEDAY   96 (103)
Q Consensus        92 ~~~~~   96 (103)
                      +....
T Consensus       292 kph~~  296 (328)
T KOG1734|consen  292 KPHVW  296 (328)
T ss_pred             cchhH
Confidence            55543

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

Probab=98.60  E-value=1.1e-07  Score=49.56  Aligned_cols=44  Identities=30%  Similarity=0.805  Sum_probs=32.5

Q ss_pred             ccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      .|-||++ .. .+......||.     +.+|..|+.+|+..+  +..+||+|+
T Consensus         1 ~CrIC~~-~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~--~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EG-DEGDPLVSPCRCKGSLKYVHQECLERWINES--GNKTCEICK   49 (49)
T ss_pred             CccCCCC-CC-CCCCeeEeccccCCchhHHHHHHHHHHHHHc--CCCcCCCCC
Confidence            4889998 33 33334456874     889999999999877  336899994

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

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

Probab=98.60  E-value=2.1e-08  Score=72.56  Aligned_cols=54  Identities=30%  Similarity=0.852  Sum_probs=39.5

Q ss_pred             CCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .....+..+||||++..-.....+....|.|.||..|+..|...      +||+||.-..
T Consensus       169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~------scpvcR~~q~  222 (493)
T KOG0804|consen  169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS------SCPVCRYCQS  222 (493)
T ss_pred             CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC------cChhhhhhcC
Confidence            33447888999999922222224455579999999999999774      5999997554

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

Probab=98.53  E-value=1.3e-07  Score=66.76  Aligned_cols=50  Identities=22%  Similarity=0.687  Sum_probs=40.7

Q ss_pred             CCCCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ..+...+|.||+.    ..+.+..|||.|. .|..|.+...-+.    ..||+||..+.
T Consensus       286 ~~~~gkeCVICls----e~rdt~vLPCRHLCLCs~Ca~~Lr~q~----n~CPICRqpi~  336 (349)
T KOG4265|consen  286 ESESGKECVICLS----ESRDTVVLPCRHLCLCSGCAKSLRYQT----NNCPICRQPIE  336 (349)
T ss_pred             cccCCCeeEEEec----CCcceEEecchhhehhHhHHHHHHHhh----cCCCccccchH
Confidence            3466889999999    5556788899997 8999998876555    78999999874

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

Probab=98.53  E-value=6.1e-08  Score=71.03  Aligned_cols=54  Identities=28%  Similarity=0.757  Sum_probs=38.1

Q ss_pred             CCccccccccccccCC--C-----------CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSD--E-----------SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~--~-----------~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .....|+||+.+....  +           ......||.|.||..|+.+|+..-+   ..||+||.+++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk---l~CPvCR~pLPp  635 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK---LICPVCRCPLPP  635 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc---ccCCccCCCCCC
Confidence            3456899999822110  0           0012348999999999999999441   699999998864

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

Probab=98.51  E-value=4.4e-08  Score=67.75  Aligned_cols=47  Identities=30%  Similarity=0.530  Sum_probs=38.2

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      +....|-||.+  +...+..  .+|||.||..||...+...    ..||+||...
T Consensus        23 Ds~lrC~IC~~--~i~ip~~--TtCgHtFCslCIR~hL~~q----p~CP~Cr~~~   69 (391)
T COG5432          23 DSMLRCRICDC--RISIPCE--TTCGHTFCSLCIRRHLGTQ----PFCPVCREDP   69 (391)
T ss_pred             hhHHHhhhhhh--eeeccee--cccccchhHHHHHHHhcCC----CCCccccccH
Confidence            55678999999  4444433  3899999999999999988    8999999765

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

Probab=98.49  E-value=6e-08  Score=75.68  Aligned_cols=53  Identities=25%  Similarity=0.696  Sum_probs=39.5

Q ss_pred             CCccccccccccccC-CC---CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYS-DE---SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~-~~---~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ....+|+||+. .+. .+   +.-++..|.|.||..|+.+|++++  +..+||+||..++
T Consensus      1467 sG~eECaICYs-vL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss--~~s~CPlCRseit 1523 (1525)
T COG5219        1467 SGHEECAICYS-VLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS--ARSNCPLCRSEIT 1523 (1525)
T ss_pred             CCcchhhHHHH-HHHHHhccCCccccchhhhhhhHHHHHHHHHhc--CCCCCCccccccc
Confidence            45678999997 433 11   122344599999999999999987  5689999997664

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

Probab=98.46  E-value=1.2e-07  Score=65.77  Aligned_cols=56  Identities=27%  Similarity=0.497  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhhh
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELS   82 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~   82 (103)
                      -..+|+||+.    .......++|+|.||..||+......   ..+|++||+++........+
T Consensus         6 ~~~eC~IC~n----t~n~Pv~l~C~HkFCyiCiKGsy~nd---k~~CavCR~pids~i~~~ps   61 (324)
T KOG0824|consen    6 KKKECLICYN----TGNCPVNLYCFHKFCYICIKGSYKND---KKTCAVCRFPIDSTIDFEPS   61 (324)
T ss_pred             cCCcceeeec----cCCcCccccccchhhhhhhcchhhcC---CCCCceecCCCCcchhcchh
Confidence            3568999999    33333567899999999998855444   26799999998755444333

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

Probab=98.46  E-value=2.9e-07  Score=52.09  Aligned_cols=29  Identities=34%  Similarity=0.861  Sum_probs=26.7

Q ss_pred             CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           42 QCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .|.|.||..||.+|+..+    ..||++|+.+.
T Consensus        53 ~CnHaFH~HCI~rWL~Tk----~~CPld~q~w~   81 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTK----GVCPLDRQTWV   81 (88)
T ss_pred             ecchHHHHHHHHHHHhhC----CCCCCCCceeE
Confidence            499999999999999998    89999998764

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

Probab=98.45  E-value=2.6e-08  Score=55.75  Aligned_cols=53  Identities=26%  Similarity=0.599  Sum_probs=23.7

Q ss_pred             ccccccccccccC-CCC--ceEec--CCCchhhHHHHHHHHHhcCC-------CCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYS-DES--AMIRM--QCSHIFHADCITPWLEERLG-------KSCACPVCPFQMP   74 (103)
Q Consensus        21 ~~~C~IC~~~~~~-~~~--~~~~~--~C~H~f~~~Cl~~~~~~~~~-------~~~~CP~Cr~~~~   74 (103)
                      +..|.||+. ... .+.  .+..-  .|+..||..||..|+.....       -...||.|+.++.
T Consensus         2 ~~~C~IC~~-~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYS-YRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS---SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCc-EecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            468999999 443 222  22222  58999999999999976411       1135999988764

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

Probab=98.44  E-value=7.8e-08  Score=65.50  Aligned_cols=47  Identities=36%  Similarity=0.781  Sum_probs=37.8

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ...+...|+||++ .+...   ..++|+|.||..|+..++..    ...||.||.
T Consensus         9 ~~~~~~~C~iC~~-~~~~p---~~l~C~H~~c~~C~~~~~~~----~~~Cp~cr~   55 (386)
T KOG2177|consen    9 VLQEELTCPICLE-YFREP---VLLPCGHNFCRACLTRSWEG----PLSCPVCRP   55 (386)
T ss_pred             hccccccChhhHH-HhhcC---ccccccchHhHHHHHHhcCC----CcCCcccCC
Confidence            3467889999999 55554   55689999999999998882    389999993

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

Probab=98.34  E-value=2e-07  Score=52.46  Aligned_cols=53  Identities=19%  Similarity=0.384  Sum_probs=37.6

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      +.+.|+|+.+  +...+++.  ++||.|...+|..|+...   ...||+++..+....+.
T Consensus         3 ~~f~CpIt~~--lM~dPVi~--~~G~tyer~~I~~~l~~~---~~~~P~t~~~l~~~~l~   55 (73)
T PF04564_consen    3 DEFLCPITGE--LMRDPVIL--PSGHTYERSAIERWLEQN---GGTDPFTRQPLSESDLI   55 (73)
T ss_dssp             GGGB-TTTSS--B-SSEEEE--TTSEEEEHHHHHHHHCTT---SSB-TTT-SB-SGGGSE
T ss_pred             cccCCcCcCc--HhhCceeC--CcCCEEcHHHHHHHHHcC---CCCCCCCCCcCCcccce
Confidence            5688999999  55555444  899999999999999982   28999998887654443

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 ....

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

Probab=98.28  E-value=4.9e-07  Score=64.67  Aligned_cols=51  Identities=33%  Similarity=0.945  Sum_probs=37.0

Q ss_pred             ccccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ...|.||.+ .+.....+..+ .|||+||..|+.+|+...+ ....||+|+-.+
T Consensus         4 ~A~C~Ic~d-~~p~~~~l~~i~~cGhifh~~cl~qwfe~~P-s~R~cpic~ik~   55 (465)
T KOG0827|consen    4 MAECHICID-GRPNDHELGPIGTCGHIFHTTCLTQWFEGDP-SNRGCPICQIKL   55 (465)
T ss_pred             cceeeEecc-CCccccccccccchhhHHHHHHHHHHHccCC-ccCCCCceeecc
Confidence            357999977 44444444433 4999999999999999873 225899998333

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

Probab=98.27  E-value=2.5e-07  Score=48.76  Aligned_cols=46  Identities=26%  Similarity=0.634  Sum_probs=33.3

Q ss_pred             ccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..+|.||++  ...+.++.  .|||. .|..|..+.+...   +..||+||+++
T Consensus         7 ~dECTICye--~pvdsVlY--tCGHMCmCy~Cg~rl~~~~---~g~CPiCRapi   53 (62)
T KOG4172|consen    7 SDECTICYE--HPVDSVLY--TCGHMCMCYACGLRLKKAL---HGCCPICRAPI   53 (62)
T ss_pred             ccceeeecc--CcchHHHH--HcchHHhHHHHHHHHHHcc---CCcCcchhhHH
Confidence            479999999  33333332  69997 8899988766532   27899999876

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

Probab=98.22  E-value=3.1e-07  Score=51.56  Aligned_cols=32  Identities=38%  Similarity=0.882  Sum_probs=26.8

Q ss_pred             CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           42 QCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .|.|.||..||.+|+.... +...||+||+.+.
T Consensus        50 ~C~h~fh~hCI~~wl~~~t-sq~~CPmcRq~~~   81 (84)
T KOG1493|consen   50 YCLHAFHAHCILKWLNTPT-SQGQCPMCRQTWQ   81 (84)
T ss_pred             HHHHHHHHHHHHHHhcCcc-ccccCCcchheeE
Confidence            4999999999999998763 3378999998764

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

Probab=98.21  E-value=6.1e-07  Score=68.48  Aligned_cols=54  Identities=22%  Similarity=0.575  Sum_probs=41.2

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      .+-..|++|.. .   ........|+|.||..|+...+..++   ..||.|...|...++.
T Consensus       641 K~~LkCs~Cn~-R---~Kd~vI~kC~H~FC~~Cvq~r~etRq---RKCP~Cn~aFganDv~  694 (698)
T KOG0978|consen  641 KELLKCSVCNT-R---WKDAVITKCGHVFCEECVQTRYETRQ---RKCPKCNAAFGANDVH  694 (698)
T ss_pred             HhceeCCCccC-c---hhhHHHHhcchHHHHHHHHHHHHHhc---CCCCCCCCCCCccccc
Confidence            45678999998 3   22233346999999999999987764   7899999998766553

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

Probab=98.17  E-value=1.4e-06  Score=62.05  Aligned_cols=54  Identities=30%  Similarity=0.752  Sum_probs=38.6

Q ss_pred             CCccccccccccccCCCC----ceEec-CCCchhhHHHHHHHHHhcC---CCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDES----AMIRM-QCSHIFHADCITPWLEERL---GKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~----~~~~~-~C~H~f~~~Cl~~~~~~~~---~~~~~CP~Cr~~~   73 (103)
                      ..+.+|.||++ ......    ....+ +|.|.||..|+..|....+   .-+..||+||...
T Consensus       159 s~~k~CGICme-~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICME-TINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhh-hccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            56789999999 433322    12233 4999999999999985542   1257899999764

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

Probab=98.13  E-value=4.2e-07  Score=49.57  Aligned_cols=51  Identities=29%  Similarity=0.677  Sum_probs=23.6

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      .-..|++|.+  +...+ +....|.|.||..|+...+.      ..||+|+.+.-..++.
T Consensus         6 ~lLrCs~C~~--~l~~p-v~l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    6 ELLRCSICFD--ILKEP-VCLGGCEHIFCSSCIRDCIG------SECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             HTTS-SSS-S----SS--B---SSS--B-TTTGGGGTT------TB-SSS--B-S-SS--
T ss_pred             HhcCCcHHHH--HhcCC-ceeccCccHHHHHHhHHhcC------CCCCCcCChHHHHHHH
Confidence            3467999999  44443 23336999999999976433      3499998876555544

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

Probab=98.09  E-value=3e-06  Score=50.23  Aligned_cols=28  Identities=39%  Similarity=0.949  Sum_probs=25.5

Q ss_pred             CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           42 QCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .|+|.||..||.+|++.+    ..||++.+..
T Consensus        80 ~CNHaFH~hCisrWlktr----~vCPLdn~eW  107 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTR----NVCPLDNKEW  107 (114)
T ss_pred             ecchHHHHHHHHHHHhhc----CcCCCcCcce
Confidence            499999999999999999    8999997654

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

Probab=98.03  E-value=1.9e-06  Score=62.05  Aligned_cols=46  Identities=24%  Similarity=0.805  Sum_probs=36.7

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      -|.||-+    .+..+.+-||||..|..|+..|-.+.  .+.+||+||..+.
T Consensus       371 LCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIK  416 (563)
T KOG1785|consen  371 LCKICAE----NDKDVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIK  416 (563)
T ss_pred             HHHHhhc----cCCCcccccccchHHHHHHHhhcccC--CCCCCCceeeEec
Confidence            4899999    44445555999999999999997654  4589999998774

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

Probab=98.01  E-value=3.7e-06  Score=60.60  Aligned_cols=52  Identities=33%  Similarity=0.948  Sum_probs=38.5

Q ss_pred             CCccccccccccccCCC-C-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDE-S-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~-~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      +...+||||++ .+... . .+..+.|||.|...||++|+.+.  ....||.|...-
T Consensus         2 d~g~tcpicld-s~~~~g~hr~vsl~cghlFgs~cie~wl~k~--~~~~cp~c~~ka   55 (463)
T KOG1645|consen    2 DCGTTCPICLD-SYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK--TKMQCPLCSGKA   55 (463)
T ss_pred             CccccCceeee-eeeecCceEEeeecccccccHHHHHHHHhhh--hhhhCcccCChh
Confidence            34678999999 55433 2 34445799999999999999533  457899997654

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

Probab=98.00  E-value=9.1e-07  Score=62.59  Aligned_cols=49  Identities=33%  Similarity=0.656  Sum_probs=36.5

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..+..|+||++ .+...  +...-|.|.||..||..-+...   +..||.||+.+
T Consensus        41 ~~~v~c~icl~-llk~t--mttkeClhrfc~~ci~~a~r~g---n~ecptcRk~l   89 (381)
T KOG0311|consen   41 DIQVICPICLS-LLKKT--MTTKECLHRFCFDCIWKALRSG---NNECPTCRKKL   89 (381)
T ss_pred             hhhhccHHHHH-HHHhh--cccHHHHHHHHHHHHHHHHHhc---CCCCchHHhhc
Confidence            45778999999 43332  2223599999999998877655   37999999876

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

Probab=97.95  E-value=1.1e-05  Score=55.48  Aligned_cols=55  Identities=25%  Similarity=0.511  Sum_probs=39.7

Q ss_pred             CCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ++....+.+|++|-+ . ...+. ...+|+|.||..|+..-....  .+.+||.|..+..
T Consensus       233 ss~~t~~~~C~~Cg~-~-PtiP~-~~~~C~HiyCY~Ci~ts~~~~--asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  233 SSTGTSDTECPVCGE-P-PTIPH-VIGKCGHIYCYYCIATSRLWD--ASFTCPLCGENVE  287 (298)
T ss_pred             cccccCCceeeccCC-C-CCCCe-eeccccceeehhhhhhhhcch--hhcccCccCCCCc
Confidence            344577889999999 3 33332 233699999999998866543  3489999987664

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

Probab=97.84  E-value=5.6e-06  Score=57.68  Aligned_cols=53  Identities=28%  Similarity=0.706  Sum_probs=41.5

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-------------------CCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-------------------LGKSCACPVCPFQMP   74 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-------------------~~~~~~CP~Cr~~~~   74 (103)
                      ...|.||+- -|..++.++..+|.|.||..|+.+++..-                   ......||+||..+.
T Consensus       115 ~gqCvICLy-gfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~  186 (368)
T KOG4445|consen  115 NGQCVICLY-GFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK  186 (368)
T ss_pred             CCceEEEEE-eecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence            457999999 88888878888999999999999987421                   112346999998774

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

Probab=97.79  E-value=4.5e-06  Score=64.40  Aligned_cols=50  Identities=24%  Similarity=0.536  Sum_probs=37.6

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ....|++|+. .+.........+|+|.||..||..|-+..    .+||+||..+.
T Consensus       122 ~~~~CP~Ci~-s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a----qTCPiDR~EF~  171 (1134)
T KOG0825|consen  122 VENQCPNCLK-SCNDQLEESEKHTAHYFCEECVGSWSRCA----QTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhHHHH-HHHHHhhccccccccccHHHHhhhhhhhc----ccCchhhhhhh
Confidence            3445677776 44444444445799999999999999988    89999998764

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

Probab=97.69  E-value=2.2e-05  Score=58.54  Aligned_cols=78  Identities=24%  Similarity=0.543  Sum_probs=48.9

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCCCCCCC----hhhhhhhhccCCcccc
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQMPLPS----FEELSSKVKSNNWIKE   93 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~~~~~~----~~~~~~~~~~~~~~~~   93 (103)
                      .+..+|.+|.+  .....  ....|.|.||..|+..++..- .+.+.+||.|-..+..+.    +.......-.+..+-+
T Consensus       534 k~~~~C~lc~d--~aed~--i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIln  609 (791)
T KOG1002|consen  534 KGEVECGLCHD--PAEDY--IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILN  609 (791)
T ss_pred             cCceeecccCC--hhhhh--HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhh
Confidence            55678999999  23332  333799999999999988654 234589999987665332    2223333333444444


Q ss_pred             chhhhhh
Q 034125           94 DAYWETW  100 (103)
Q Consensus        94 ~~~~~~w  100 (103)
                      .-+++.|
T Consensus       610 Rinm~~~  616 (791)
T KOG1002|consen  610 RINMDDW  616 (791)
T ss_pred             hcchhhh
Confidence            4445454

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

Probab=97.68  E-value=2.2e-05  Score=56.97  Aligned_cols=50  Identities=24%  Similarity=0.598  Sum_probs=40.1

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ..++.|.||+.  ....+.+.  +|||.||..||.+-+...    ..||.||..+...
T Consensus        82 ~sef~c~vc~~--~l~~pv~t--pcghs~c~~Cl~r~ld~~----~~cp~Cr~~l~e~  131 (398)
T KOG4159|consen   82 RSEFECCVCSR--ALYPPVVT--PCGHSFCLECLDRSLDQE----TECPLCRDELVEL  131 (398)
T ss_pred             cchhhhhhhHh--hcCCCccc--cccccccHHHHHHHhccC----CCCcccccccccc
Confidence            56789999998  45554444  999999999999977765    8999999988753

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

Probab=97.66  E-value=4e-05  Score=59.63  Aligned_cols=54  Identities=28%  Similarity=0.679  Sum_probs=41.2

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc---CCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER---LGKSCACPVCPF   71 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~---~~~~~~CP~Cr~   71 (103)
                      .....+|.||.+..-...+....-.|.|+||..||..|..+.   ......||.|..
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            355678999999443445556666799999999999999765   235689999973

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

Probab=97.65  E-value=2.7e-05  Score=63.79  Aligned_cols=62  Identities=31%  Similarity=0.658  Sum_probs=45.5

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc------CCCCCCCCCCCCCCCCCChhh
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER------LGKSCACPVCPFQMPLPSFEE   80 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~------~~~~~~CP~Cr~~~~~~~~~~   80 (103)
                      .+.+..|.||+. +-......+.|.|+|.||..|....++.+      -.+-.+||+|+.++..-.+++
T Consensus      3483 QD~DDmCmICFT-E~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkD 3550 (3738)
T KOG1428|consen 3483 QDADDMCMICFT-EALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKD 3550 (3738)
T ss_pred             cccCceEEEEeh-hhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHH
Confidence            366789999999 44444445667899999999999988876      123457999998876444443

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

Probab=97.55  E-value=0.00011  Score=49.46  Aligned_cols=76  Identities=24%  Similarity=0.571  Sum_probs=51.0

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc----CCCCCCCCCCCCCCCCC------Chhhhhhhhcc
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER----LGKSCACPVCPFQMPLP------SFEELSSKVKS   87 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~----~~~~~~CP~Cr~~~~~~------~~~~~~~~~~~   87 (103)
                      .+....|..|-. .+..+. .+++.|.|.||..|+..|...-    ...+..||-|..++..+      ....+.+....
T Consensus        47 sDY~pNC~LC~t-~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~q  124 (299)
T KOG3970|consen   47 SDYNPNCRLCNT-PLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQ  124 (299)
T ss_pred             cCCCCCCceeCC-ccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHh
Confidence            356677999988 555555 4456799999999999998654    23457899998876422      23344444555


Q ss_pred             CCccccch
Q 034125           88 NNWIKEDA   95 (103)
Q Consensus        88 ~~~~~~~~   95 (103)
                      .+|.+...
T Consensus       125 vNWaRagL  132 (299)
T KOG3970|consen  125 VNWARAGL  132 (299)
T ss_pred             hhHHhhcc
Confidence            66665543

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

Probab=97.52  E-value=5.3e-05  Score=54.67  Aligned_cols=48  Identities=33%  Similarity=0.753  Sum_probs=37.6

Q ss_pred             ccccccccccccC-CCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        21 ~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      +..|..|-+ .+- .++.+..+||.|+||..|+..++.++  ...+||.||+
T Consensus       365 ~L~Cg~CGe-~~Glk~e~LqALpCsHIfH~rCl~e~L~~n--~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGE-SIGLKNERLQALPCSHIFHLRCLQEILENN--GTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhh-hhcCCcccccccchhHHHHHHHHHHHHHhC--CCCCCccHHH
Confidence            567888988 443 33456678999999999999999766  4578999984

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

Probab=97.38  E-value=8.2e-05  Score=54.08  Aligned_cols=50  Identities=32%  Similarity=0.699  Sum_probs=39.6

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+++..|++|.. .+..+...  ..|||.||..|+..|+...    ..||.|+..+.
T Consensus        18 ~~~~l~C~~C~~-vl~~p~~~--~~cgh~fC~~C~~~~~~~~----~~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMS-VLRDPVQT--TTCGHRFCAGCLLESLSNH----QKCPVCRQELT   67 (391)
T ss_pred             CcccccCccccc-cccCCCCC--CCCCCcccccccchhhccC----cCCcccccccc
Confidence            467889999999 44333222  4799999999999999986    89999987664

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

Probab=97.33  E-value=0.00016  Score=51.73  Aligned_cols=49  Identities=27%  Similarity=0.458  Sum_probs=39.1

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      +.++..||||+.  -....+..  ||+|.-|..||.+.+-..    +.|=+|++.+.
T Consensus       419 ~sEd~lCpICyA--~pi~Avf~--PC~H~SC~~CI~qHlmN~----k~CFfCktTv~  467 (489)
T KOG4692|consen  419 DSEDNLCPICYA--GPINAVFA--PCSHRSCYGCITQHLMNC----KRCFFCKTTVI  467 (489)
T ss_pred             CcccccCcceec--ccchhhcc--CCCCchHHHHHHHHHhcC----CeeeEecceee
Confidence            478889999998  22333333  899999999999988877    78999988765

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

Probab=97.33  E-value=0.00021  Score=51.80  Aligned_cols=51  Identities=24%  Similarity=0.553  Sum_probs=37.5

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc----CCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER----LGKSCACPVCPF   71 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~----~~~~~~CP~Cr~   71 (103)
                      ....|.||++ .......+..+||+|+||..|+..+....    ..+...||-+..
T Consensus       183 slf~C~ICf~-e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFE-EQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeeh-hhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            4568999999 44444567778999999999999998544    223457877654

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

Probab=97.28  E-value=8.1e-05  Score=52.41  Aligned_cols=48  Identities=29%  Similarity=0.716  Sum_probs=37.3

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ....+|.+|-.  |..+.. .+.-|-|.||..||..++...    ..||.|...+
T Consensus        13 n~~itC~LC~G--YliDAT-TI~eCLHTFCkSCivk~l~~~----~~CP~C~i~i   60 (331)
T KOG2660|consen   13 NPHITCRLCGG--YLIDAT-TITECLHTFCKSCIVKYLEES----KYCPTCDIVI   60 (331)
T ss_pred             ccceehhhccc--eeecch-hHHHHHHHHHHHHHHHHHHHh----ccCCccceec
Confidence            45568999999  444432 223599999999999999997    8999998655

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=97.26  E-value=0.00054  Score=43.81  Aligned_cols=51  Identities=25%  Similarity=0.661  Sum_probs=36.7

Q ss_pred             CCCCccccccccccccCCCCceEecCCC--c---hhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCS--H---IFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~--H---~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ....+..|-||++ ...  ...  .||.  .   ..|..|+..|+..+  +...|++|+.++.
T Consensus         4 ~s~~~~~CRIC~~-~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s--~~~~CeiC~~~Y~   59 (162)
T PHA02825          4 VSLMDKCCWICKD-EYD--VVT--NYCNCKNENKIVHKECLEEWINTS--KNKSCKICNGPYN   59 (162)
T ss_pred             cCCCCCeeEecCC-CCC--Ccc--CCcccCCCchHHHHHHHHHHHhcC--CCCcccccCCeEE
Confidence            3456779999999 422  222  3653  3   57999999999876  5578999987653

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

Probab=97.18  E-value=0.00021  Score=38.34  Aligned_cols=46  Identities=24%  Similarity=0.629  Sum_probs=28.0

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV   68 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~   68 (103)
                      ......|||.+. .+ ..+ +....|+|.|-...|..|+...  +...||+
T Consensus         8 ~~~~~~CPiT~~-~~-~~P-V~s~~C~H~fek~aI~~~i~~~--~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQ-PF-EDP-VKSKKCGHTFEKEAILQYIQRN--GSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSS-B--SSE-EEESSS--EEEHHHHHHHCTTT--S-EE-SC
T ss_pred             cEeccCCCCcCC-hh-hCC-cCcCCCCCeecHHHHHHHHHhc--CCCCCCC
Confidence            345678999999 43 333 4444799999999999999433  4578998

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

Probab=97.10  E-value=0.00025  Score=36.50  Aligned_cols=42  Identities=29%  Similarity=0.834  Sum_probs=26.3

Q ss_pred             cccccccccCCCCceEecCC--Cc---hhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQC--SH---IFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C--~H---~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      |-||++ ...... ....||  .-   ..|..||.+|+..+  +..+|++|
T Consensus         1 CrIC~~-~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~--~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLE-GEEEDE-PLISPCRCKGSMKYVHRSCLERWIRES--GNRKCEIC   47 (47)
T ss_dssp             ETTTTE-E-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHH--T-SB-TTT
T ss_pred             CeEeCC-cCCCCC-ceecccccCCCcchhHHHHHHHHHHhc--CCCcCCCC
Confidence            679998 433333 233465  33   68999999999876  34678887

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

Probab=97.01  E-value=0.00027  Score=49.02  Aligned_cols=47  Identities=28%  Similarity=0.656  Sum_probs=36.2

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ...||||.+..+...+.+..++|||..|..|+.......    .+||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~----y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG----YTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC----CCCCcccc
Confidence            344999999333344456667899999999998877666    99999987

>PHA02862 5L protein; Provisional

Probab=96.99  E-value=0.00094  Score=42.11  Aligned_cols=47  Identities=21%  Similarity=0.587  Sum_probs=34.1

Q ss_pred             ccccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ...|=||++ ..  ++...  ||.     ...|..|+.+|+..+  +...|++|+.+..
T Consensus         2 ~diCWIC~~-~~--~e~~~--PC~C~GS~K~VHq~CL~~WIn~S--~k~~CeLCkteY~   53 (156)
T PHA02862          2 SDICWICND-VC--DERNN--FCGCNEEYKVVHIKCMQLWINYS--KKKECNLCKTKYN   53 (156)
T ss_pred             CCEEEEecC-cC--CCCcc--cccccCcchhHHHHHHHHHHhcC--CCcCccCCCCeEE
Confidence            357999999 32  22233  653     468999999999765  5589999998764

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

Probab=96.88  E-value=0.0003  Score=47.64  Aligned_cols=46  Identities=20%  Similarity=0.717  Sum_probs=33.2

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      ..|..|.-  +..+.....+.|.|+||..|...-      ....||+|+..+..
T Consensus         4 VhCn~C~~--~~~~~~f~LTaC~HvfC~~C~k~~------~~~~C~lCkk~ir~   49 (233)
T KOG4739|consen    4 VHCNKCFR--FPSQDPFFLTACRHVFCEPCLKAS------SPDVCPLCKKSIRI   49 (233)
T ss_pred             EEeccccc--cCCCCceeeeechhhhhhhhcccC------Cccccccccceeee
Confidence            35888888  445556666689999999998531      11389999988653

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

Probab=96.85  E-value=0.0005  Score=45.62  Aligned_cols=48  Identities=23%  Similarity=0.498  Sum_probs=36.9

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .-.+.|-||-. .|..+ ++.  .|||.||..|...-++..    ..|-+|.+...
T Consensus       194 ~IPF~C~iCKk-dy~sp-vvt--~CGH~FC~~Cai~~y~kg----~~C~~Cgk~t~  241 (259)
T COG5152         194 KIPFLCGICKK-DYESP-VVT--ECGHSFCSLCAIRKYQKG----DECGVCGKATY  241 (259)
T ss_pred             CCceeehhchh-hccch-hhh--hcchhHHHHHHHHHhccC----Ccceecchhhc
Confidence            34568999999 65554 223  699999999998877776    89999977654

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

Probab=96.84  E-value=0.00098  Score=34.43  Aligned_cols=46  Identities=24%  Similarity=0.543  Sum_probs=21.4

Q ss_pred             ccccccccc-CCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           24 CAICLEKEY-SDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        24 C~IC~~~~~-~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ||+|.+ .+ ..+..+.--+|+..+|..|....+..   ....||-||.+.
T Consensus         1 cp~C~e-~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~---~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDE-ELDETDKDFYPCECGFQICRFCYHDILEN---EGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS--B--CCCTT--SSTTS----HHHHHHHTTS---S-SB-TTT--B-
T ss_pred             CCCccc-ccccCCCccccCcCCCcHHHHHHHHHHhc---cCCCCCCCCCCC
Confidence            788988 44 23333332248999999998887753   237899999753

>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=96.80  E-value=0.00045  Score=40.97  Aligned_cols=33  Identities=27%  Similarity=0.799  Sum_probs=25.9

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHH
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCIT   53 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~   53 (103)
                      ++...|++|.. .+.. ......||||.||..|+.
T Consensus        76 ~~~~~C~vC~k-~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGK-PLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCC-cCCC-ceEEEeCCCeEEeccccc
Confidence            55678999999 4443 556677999999999974

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 [].

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.79  E-value=0.00057  Score=36.19  Aligned_cols=44  Identities=18%  Similarity=0.464  Sum_probs=29.4

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .|..|..    .+.+-..++|+|..+..|+.-+--      ..||+|.+++...
T Consensus         9 ~~~~~~~----~~~~~~~~pCgH~I~~~~f~~~rY------ngCPfC~~~~~~~   52 (55)
T PF14447_consen    9 PCVFCGF----VGTKGTVLPCGHLICDNCFPGERY------NGCPFCGTPFEFD   52 (55)
T ss_pred             eEEEccc----cccccccccccceeeccccChhhc------cCCCCCCCcccCC
Confidence            4555555    333345569999999999864322      5699998887544

>PHA03096 p28-like protein; Provisional

Probab=96.75  E-value=0.0011  Score=46.31  Aligned_cols=48  Identities=27%  Similarity=0.431  Sum_probs=33.1

Q ss_pred             cccccccccccCCC----CceEecC-CCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDE----SAMIRMQ-CSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        22 ~~C~IC~~~~~~~~----~~~~~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ..|.||++ .....    .....|+ |.|.||..|+..|...+. ...+||.||.
T Consensus       179 k~c~ic~e-~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~-~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLE-NIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL-YKETEPENRR  231 (284)
T ss_pred             hhcccchh-hhhhhccccccccccccCCcHHHHHHHHHHHHhhh-hcccCccccc
Confidence            67999999 43322    2233444 999999999999997662 3356666654

>PF04641 Rtf2: Rtf2 RING-finger

Probab=96.74  E-value=0.0017  Score=44.83  Aligned_cols=56  Identities=14%  Similarity=0.361  Sum_probs=41.3

Q ss_pred             CCCccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           18 TDEEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ....+.|||... .+... ..+...+|||+|...++.... ..    ..||+|-.++...++.
T Consensus       110 ~~~~~~CPvt~~-~~~~~~~fv~l~~cG~V~s~~alke~k-~~----~~Cp~c~~~f~~~DiI  166 (260)
T PF04641_consen  110 SEGRFICPVTGK-EFNGKHKFVYLRPCGCVFSEKALKELK-KS----KKCPVCGKPFTEEDII  166 (260)
T ss_pred             CCceeECCCCCc-ccCCceeEEEEcCCCCEeeHHHHHhhc-cc----ccccccCCccccCCEE
Confidence            466789999998 55332 245556899999999999873 23    6799999888655444

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.74  E-value=0.0013  Score=45.02  Aligned_cols=59  Identities=10%  Similarity=0.238  Sum_probs=46.5

Q ss_pred             CccccccccccccCCCCceEe-cCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhhhh
Q 034125           20 EEAECAICLEKEYSDESAMIR-MQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSS   83 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~-~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~   83 (103)
                      .-+.||||.+ .+.+.-.... -+|||+|+..|..+++...    ..||+|-.++..+++..+..
T Consensus       220 ~ryiCpvtrd-~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D----~v~pv~d~plkdrdiI~Lqr  279 (303)
T KOG3039|consen  220 KRYICPVTRD-TLTNTTPCAVLRPSGHVVTKECVEKLIRKD----MVDPVTDKPLKDRDIIGLQR  279 (303)
T ss_pred             cceecccchh-hhcCccceEEeccCCcEeeHHHHHHhcccc----ccccCCCCcCcccceEeeec
Confidence            5678999999 6665443333 3799999999999999888    89999999888777765443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.72  E-value=0.0016  Score=46.57  Aligned_cols=57  Identities=19%  Similarity=0.403  Sum_probs=37.1

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      .+++..||+|+++.-..+....--+||...|.-|.....+.-   ...||.||.......
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l---ngrcpacrr~y~den   67 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL---NGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc---cCCChHhhhhccccc
Confidence            345556999999332333333333799999999977655443   368999998664443

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

Probab=96.71  E-value=0.00011  Score=51.16  Aligned_cols=41  Identities=24%  Similarity=0.703  Sum_probs=30.2

Q ss_pred             ccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..-|.||++    .+..-..|+|||. -|..|...+        ..||+||+.+
T Consensus       300 ~~LC~ICmD----aP~DCvfLeCGHmVtCt~CGkrm--------~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMD----APRDCVFLECGHMVTCTKCGKRM--------NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhc----CCcceEEeecCcEEeehhhcccc--------ccCchHHHHH
Confidence            678999999    3333455689996 678886543        4799999765

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

Probab=96.71  E-value=0.0026  Score=39.59  Aligned_cols=55  Identities=24%  Similarity=0.410  Sum_probs=39.1

Q ss_pred             CccccccccccccCCCCceEecC--CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQ--CSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~--C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      --.+|.||.+ ...+...+. ..  ||-..|..|-...++.. .-...||+|++++....
T Consensus        79 ~lYeCnIC~e-tS~ee~FLK-PneCCgY~iCn~Cya~LWK~~-~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKE-TSAEERFLK-PNECCGYSICNACYANLWKFC-NLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCccc-ccchhhcCC-cccccchHHHHHHHHHHHHHc-ccCCCCCcccccccccc
Confidence            4568999999 433332222 12  89999999999977765 24578999999886544

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

Probab=96.68  E-value=0.0041  Score=39.80  Aligned_cols=57  Identities=21%  Similarity=0.535  Sum_probs=35.3

Q ss_pred             CccccccccccccCCCCceEe----------cCCCc-hhhHHHHHHHHHhcC---------------------------C
Q 034125           20 EEAECAICLEKEYSDESAMIR----------MQCSH-IFHADCITPWLEERL---------------------------G   61 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~----------~~C~H-~f~~~Cl~~~~~~~~---------------------------~   61 (103)
                      ++..||||++  +.-+.++.+          .-|+. .-|..||.++.+...                           .
T Consensus         1 ed~~CpICme--~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (162)
T PF07800_consen    1 EDVTCPICME--HPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ   78 (162)
T ss_pred             CCccCceecc--CCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence            4678999999  443332221          11543 357889999875430                           0


Q ss_pred             CCCCCCCCCCCCCCCCh
Q 034125           62 KSCACPVCPFQMPLPSF   78 (103)
Q Consensus        62 ~~~~CP~Cr~~~~~~~~   78 (103)
                      ....||+||..+....+
T Consensus        79 ~~L~CPLCRG~V~GWtv   95 (162)
T PF07800_consen   79 PELACPLCRGEVKGWTV   95 (162)
T ss_pred             ccccCccccCceeceEE
Confidence            24579999998864443

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.

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

Probab=96.65  E-value=0.0041  Score=44.64  Aligned_cols=48  Identities=23%  Similarity=0.540  Sum_probs=34.9

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHH--HhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL--EERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~--~~~~~~~~~CP~Cr~~~   73 (103)
                      +++...|.||.+ ..+.   ..++||+|..|-.|..+.-  -..    ..||+||+..
T Consensus        58 DEen~~C~ICA~-~~TY---s~~~PC~H~~CH~Ca~RlRALY~~----K~C~~CrTE~  107 (493)
T COG5236          58 DEENMNCQICAG-STTY---SARYPCGHQICHACAVRLRALYMQ----KGCPLCRTET  107 (493)
T ss_pred             ccccceeEEecC-CceE---EEeccCCchHHHHHHHHHHHHHhc----cCCCcccccc
Confidence            355667999999 4332   4567999999999987642  233    6899999864

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

Probab=96.63  E-value=0.0022  Score=44.63  Aligned_cols=49  Identities=18%  Similarity=0.558  Sum_probs=37.9

Q ss_pred             ccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .||+|..+.|..+.....+ +|+|..|..|+...+...+   ..||-|...+.
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~---~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP---AQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC---CCCCcccchhh
Confidence            5999998667766644333 6999999999999887653   78999976554

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

Probab=96.57  E-value=0.002  Score=43.93  Aligned_cols=49  Identities=22%  Similarity=0.576  Sum_probs=37.1

Q ss_pred             CCccccccccccccCCCCceE-ecC-CCchhhHHHHHHHHHhcCCCCCCCC--CCC
Q 034125           19 DEEAECAICLEKEYSDESAMI-RMQ-CSHIFHADCITPWLEERLGKSCACP--VCP   70 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~-~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP--~Cr   70 (103)
                      ..+..||||..+.|..+.... .-| |.|..|.+|..+.+...+   ..||  -|.
T Consensus         8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp---AqCP~~gC~   60 (314)
T COG5220           8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP---AQCPYKGCG   60 (314)
T ss_pred             hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC---CCCCCccHH
Confidence            445689999986666665433 335 999999999999887664   7899  664

>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=96.56  E-value=0.0015  Score=40.69  Aligned_cols=38  Identities=29%  Similarity=0.742  Sum_probs=27.9

Q ss_pred             ccccccccccccCCCCceEecCCC------chhhHHHHHHHHHhc
Q 034125           21 EAECAICLEKEYSDESAMIRMQCS------HIFHADCITPWLEER   59 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~------H~f~~~Cl~~~~~~~   59 (103)
                      ..+|.||++ .+.....+..++|+      |.||..|+.+|-+..
T Consensus        26 ~~EC~IC~~-~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   26 TVECQICFD-RIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             Ceeehhhhh-hhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence            568999999 55553445555664      789999999995444

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.

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

Probab=96.51  E-value=0.003  Score=44.74  Aligned_cols=49  Identities=18%  Similarity=0.521  Sum_probs=36.2

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..+...||||+. ...++-++.  .-|-+||..|+..++...    ..||+=..+.
T Consensus       297 ~~~~~~CpvClk-~r~Nptvl~--vSGyVfCY~Ci~~Yv~~~----~~CPVT~~p~  345 (357)
T KOG0826|consen  297 PPDREVCPVCLK-KRQNPTVLE--VSGYVFCYPCIFSYVVNY----GHCPVTGYPA  345 (357)
T ss_pred             CCccccChhHHh-ccCCCceEE--ecceEEeHHHHHHHHHhc----CCCCccCCcc
Confidence            355678999999 433333222  479999999999999987    8899865544

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

Probab=96.46  E-value=0.0029  Score=41.38  Aligned_cols=34  Identities=32%  Similarity=0.757  Sum_probs=25.4

Q ss_pred             cCCCchhhHHHHHHHHHhc--CCC-----CCCCCCCCCCCC
Q 034125           41 MQCSHIFHADCITPWLEER--LGK-----SCACPVCPFQMP   74 (103)
Q Consensus        41 ~~C~H~f~~~Cl~~~~~~~--~~~-----~~~CP~Cr~~~~   74 (103)
                      ..||..||.-|+..|++.-  ..+     -..||+|..++.
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia  228 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA  228 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence            4699999999999999754  111     135999987764

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

Probab=96.41  E-value=0.0024  Score=46.17  Aligned_cols=53  Identities=25%  Similarity=0.551  Sum_probs=38.5

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ...+.|||=.+ .-........|.|||+....-+.+..+.. ..++.||+|-...
T Consensus       332 HSvF~CPVlKe-qtsdeNPPm~L~CGHVISkdAlnrLS~ng-~~sfKCPYCP~e~  384 (394)
T KOG2817|consen  332 HSVFICPVLKE-QTSDENPPMMLICGHVISKDALNRLSKNG-SQSFKCPYCPVEQ  384 (394)
T ss_pred             cceeecccchh-hccCCCCCeeeeccceecHHHHHHHhhCC-CeeeeCCCCCccc
Confidence            34678999877 44444455667899999999999876655 2358999996543

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

Probab=96.37  E-value=0.003  Score=44.06  Aligned_cols=49  Identities=31%  Similarity=0.668  Sum_probs=37.2

Q ss_pred             ccccccccccccCCCC---ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDES---AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~---~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ...|-||-+ +|....   ..+.+.|||.||..|+.+.+...   ...||+||...
T Consensus         3 ~~~c~~c~~-~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~---~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNE-DYSSEDGDHIPRVLKCGHTICQNCASKLLGNS---RILCPFCRETT   54 (296)
T ss_pred             CCceeecCc-cccccCcccCCcccccCceehHhHHHHHhcCc---eeeccCCCCcc
Confidence            357999998 666542   34555799999999999877654   26789999874

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

Probab=96.35  E-value=0.001  Score=46.38  Aligned_cols=46  Identities=24%  Similarity=0.447  Sum_probs=35.8

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+.|-||.. . +..+++.  .|+|.||..|...-++..    ..|++|.+.+.
T Consensus       241 Pf~c~icr~-~-f~~pVvt--~c~h~fc~~ca~~~~qk~----~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRK-Y-FYRPVVT--KCGHYFCEVCALKPYQKG----EKCYVCSQQTH  286 (313)
T ss_pred             Ccccccccc-c-cccchhh--cCCceeehhhhccccccC----Ccceecccccc
Confidence            456999999 4 4444444  799999999998877766    78999987664

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

Probab=96.29  E-value=0.0038  Score=43.97  Aligned_cols=44  Identities=25%  Similarity=0.554  Sum_probs=31.8

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      +.|+.|..  +...+.-. --|+|.||..||...+....   +.||.|..
T Consensus       275 LkCplc~~--Llrnp~kT-~cC~~~fc~eci~~al~dsD---f~CpnC~r  318 (427)
T COG5222         275 LKCPLCHC--LLRNPMKT-PCCGHTFCDECIGTALLDSD---FKCPNCSR  318 (427)
T ss_pred             ccCcchhh--hhhCcccC-ccccchHHHHHHhhhhhhcc---ccCCCccc
Confidence            78999988  44433222 23899999999998665442   89999954

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

Probab=96.23  E-value=0.0025  Score=45.57  Aligned_cols=46  Identities=24%  Similarity=0.579  Sum_probs=30.6

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .....-|.||++ ..   .....+||||.-|  |..-... -    ..||+||..+.
T Consensus       302 ~~~p~lcVVcl~-e~---~~~~fvpcGh~cc--ct~cs~~-l----~~CPvCR~rI~  347 (355)
T KOG1571|consen  302 LPQPDLCVVCLD-EP---KSAVFVPCGHVCC--CTLCSKH-L----PQCPVCRQRIR  347 (355)
T ss_pred             cCCCCceEEecC-Cc---cceeeecCCcEEE--chHHHhh-C----CCCchhHHHHH
Confidence            355667999999 32   2245669999865  5543222 2    56999998764

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

Probab=96.17  E-value=0.0019  Score=32.56  Aligned_cols=41  Identities=27%  Similarity=0.685  Sum_probs=21.3

Q ss_pred             cccccccccCCCCceEec--CCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRM--QCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~--~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      |.+|.+ ....+.  ...  .|+-.+|..|+..+++...  ...||.|
T Consensus         1 C~~C~~-iv~~G~--~C~~~~C~~r~H~~C~~~y~r~~~--~~~CP~C   43 (43)
T PF08746_consen    1 CEACKE-IVTQGQ--RCSNRDCNVRLHDDCFKKYFRHRS--NPKCPNC   43 (43)
T ss_dssp             -TTT-S-B-SSSE--E-SS--S--EE-HHHHHHHTTT-S--S-B-TTT
T ss_pred             Ccccch-hHeeec--cCCCCccCchHHHHHHHHHHhcCC--CCCCcCC
Confidence            567777 444442  222  4888999999999998772  2379987

; PDB: 3NW0_A 2CT0_A.

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.03  E-value=0.0074  Score=41.55  Aligned_cols=57  Identities=25%  Similarity=0.695  Sum_probs=37.3

Q ss_pred             CCCCCccccccccccccCCCC-ceEecCC-----CchhhHHHHHHHHHhcC----CCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDES-AMIRMQC-----SHIFHADCITPWLEERL----GKSCACPVCPFQM   73 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~-~~~~~~C-----~H~f~~~Cl~~~~~~~~----~~~~~CP~Cr~~~   73 (103)
                      +..+.+..|-||+..+ .... ..=.-||     .|..|..|+..|...+.    .+...||.|++..
T Consensus        15 ~~~e~eR~CWiCF~Td-eDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   15 DNQELERCCWICFATD-EDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             CccccceeEEEEeccC-cccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            3345566789999822 2222 1112255     47899999999997662    3556899998764

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

Probab=95.86  E-value=0.008  Score=43.36  Aligned_cols=35  Identities=23%  Similarity=0.834  Sum_probs=27.3

Q ss_pred             CCchhhHHHHHHHHHhcCC---------CCCCCCCCCCCCCCCC
Q 034125           43 CSHIFHADCITPWLEERLG---------KSCACPVCPFQMPLPS   77 (103)
Q Consensus        43 C~H~f~~~Cl~~~~~~~~~---------~~~~CP~Cr~~~~~~~   77 (103)
                      |....|..|+-+|+.++++         +...||+||+.+...+
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            4567899999999987732         4678999999886544

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

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=95.50  E-value=0.003  Score=32.43  Aligned_cols=31  Identities=29%  Similarity=0.771  Sum_probs=21.4

Q ss_pred             CC-CchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           42 QC-SHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        42 ~C-~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .| .|..|..|+...+..+    ..||+|..+++.+
T Consensus        17 ~C~dHYLCl~CLt~ml~~s----~~C~iC~~~LPtk   48 (50)
T PF03854_consen   17 KCSDHYLCLNCLTLMLSRS----DRCPICGKPLPTK   48 (50)
T ss_dssp             E-SS-EEEHHHHHHT-SSS----SEETTTTEE----
T ss_pred             eecchhHHHHHHHHHhccc----cCCCcccCcCccc
Confidence            57 5999999999988877    8999999887643

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.

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

Probab=95.21  E-value=0.0065  Score=39.18  Aligned_cols=31  Identities=35%  Similarity=0.883  Sum_probs=26.9

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhH
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHA   49 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~   49 (103)
                      .++..+|.||++ ++..+..+.+|||-.+||.
T Consensus       174 ~ddkGECvICLE-dL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLE-DLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhh-hccCCCceeccceEEEeec
Confidence            467789999999 9999999999999888874

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

Probab=95.01  E-value=0.031  Score=39.48  Aligned_cols=46  Identities=24%  Similarity=0.654  Sum_probs=32.5

Q ss_pred             CCCCccccccccccccCCCCceEecCC--CchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQC--SHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C--~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ...+-.+||||.+ .+.. + +.  +|  ||..|..|-.+   ..    ..||.||.++.
T Consensus        44 ~~~~lleCPvC~~-~l~~-P-i~--QC~nGHlaCssC~~~---~~----~~CP~Cr~~~g   91 (299)
T KOG3002|consen   44 LDLDLLDCPVCFN-PLSP-P-IF--QCDNGHLACSSCRTK---VS----NKCPTCRLPIG   91 (299)
T ss_pred             cchhhccCchhhc-cCcc-c-ce--ecCCCcEehhhhhhh---hc----ccCCccccccc
Confidence            3456778999999 4333 2 23  46  79999888642   23    68999998886

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

Probab=94.89  E-value=0.014  Score=42.49  Aligned_cols=49  Identities=29%  Similarity=0.704  Sum_probs=32.6

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LGKSCACPV   68 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~~~~~CP~   68 (103)
                      ...+|.||+..............|+|.||..|+.+.+..+  .+....||.
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            4678999994133332333344699999999999998765  223445644

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

Probab=94.76  E-value=0.018  Score=45.43  Aligned_cols=42  Identities=24%  Similarity=0.656  Sum_probs=29.4

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ   72 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~   72 (103)
                      ...|..|-. .+.. +.+. ..|+|.||..|+.   .    +...||.|+..
T Consensus       840 ~skCs~C~~-~Ldl-P~Vh-F~CgHsyHqhC~e---~----~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEG-TLDL-PFVH-FLCGHSYHQHCLE---D----KEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCC-cccc-ceee-eecccHHHHHhhc---c----CcccCCccchh
Confidence            357999987 3333 3232 2599999999997   2    33789999763

>smart00249 PHD PHD zinc finger

Probab=94.45  E-value=0.018  Score=28.49  Aligned_cols=46  Identities=24%  Similarity=0.556  Sum_probs=26.6

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHH-hcCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLE-ERLGKSCACPVC   69 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~-~~~~~~~~CP~C   69 (103)
                      .|.+|.. ....+..+..-.|...||..|+..-.. ........||.|
T Consensus         1 ~C~~C~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~~C~~C   47 (47)
T smart00249        1 YCSVCGK-PDDGGELLQCDGCDRWYHQTCLGPPLLEEEPDGKWYCPKC   47 (47)
T ss_pred             CcccCCC-cCCCCCEEECCCCCchhhhhhCCCcccCCCCCCCEECcCC
Confidence            3778877 433444444446999999999855333 112233455544

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

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

Probab=94.42  E-value=0.063  Score=42.62  Aligned_cols=53  Identities=21%  Similarity=0.720  Sum_probs=37.9

Q ss_pred             CCCccccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+++..|-||..+.....+.  ..||.     ...|.+|+..|+..+  +...|-+|..++.
T Consensus         9 N~d~~~CRICr~e~~~d~pL--fhPCKC~GSIkYiH~eCL~eW~~~s--~~~kCdiChy~~~   66 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDPL--FHPCKCSGSIKYIHRECLMEWMECS--GTKKCDICHYEYK   66 (1175)
T ss_pred             CccchhceeecCCCCCCCcC--cccccccchhHHHHHHHHHHHHhcC--CCcceeeecceee
Confidence            45668999999833333333  33664     358999999999965  5578999987654

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

Probab=94.22  E-value=0.027  Score=43.87  Aligned_cols=46  Identities=24%  Similarity=0.656  Sum_probs=34.5

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ..|.||.+   .....+  .+|+|.||..|+...+....  ...||.||..+.
T Consensus       455 ~~c~ic~~---~~~~~i--t~c~h~~c~~c~~~~i~~~~--~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD---LDSFFI--TRCGHDFCVECLKKSIQQSE--NAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc---ccccee--ecccchHHHHHHHhcccccc--CCCCcHHHHHHH
Confidence            79999999   222222  37999999999999887662  248999987653

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

Probab=94.20  E-value=0.031  Score=37.46  Aligned_cols=38  Identities=26%  Similarity=0.685  Sum_probs=28.0

Q ss_pred             cccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      |-+|.+    ....+..+||.|. +|..|-..        ...||+|+...
T Consensus       161 Cr~C~~----~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGE----REATVLLLPCRHLCLCGICDES--------LRICPICRSPK  199 (207)
T ss_pred             ceecCc----CCceEEeecccceEeccccccc--------CccCCCCcChh
Confidence            888888    4555778899985 77778532        26799998754

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.17  E-value=0.021  Score=40.13  Aligned_cols=40  Identities=18%  Similarity=0.483  Sum_probs=30.3

Q ss_pred             CCchhhHHHHHHHHHhcC---------CCCCCCCCCCCCCCCCChhhhh
Q 034125           43 CSHIFHADCITPWLEERL---------GKSCACPVCPFQMPLPSFEELS   82 (103)
Q Consensus        43 C~H~f~~~Cl~~~~~~~~---------~~~~~CP~Cr~~~~~~~~~~~~   82 (103)
                      |....|.+|+-+|+..++         .++.+||+||+.+...++..+.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~  373 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVD  373 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEE
Confidence            567889999999986652         2568999999998766655443

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

Probab=94.13  E-value=0.034  Score=44.10  Aligned_cols=37  Identities=22%  Similarity=0.548  Sum_probs=27.8

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHH
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLE   57 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~   57 (103)
                      +-+..|.+|.. .+...+ ....+|||.||..|+.+-..
T Consensus       815 ep~d~C~~C~~-~ll~~p-F~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  815 EPQDSCDHCGR-PLLIKP-FYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             cCccchHHhcc-hhhcCc-ceeeeccchHHHHHHHHHHH
Confidence            45678999999 444443 44458999999999998764

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

Probab=93.58  E-value=0.05  Score=40.40  Aligned_cols=37  Identities=30%  Similarity=0.646  Sum_probs=28.7

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER   59 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~   59 (103)
                      +++..|+||..  |...+  ++++|+|..|..|....+.+.
T Consensus         2 eeelkc~vc~~--f~~ep--iil~c~h~lc~~ca~~~~~~t   38 (699)
T KOG4367|consen    2 EEELKCPVCGS--FYREP--IILPCSHNLCQACARNILVQT   38 (699)
T ss_pred             cccccCceehh--hccCc--eEeecccHHHHHHHHhhcccC
Confidence            46789999999  44444  455999999999998766544

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

Probab=93.49  E-value=0.034  Score=39.45  Aligned_cols=28  Identities=25%  Similarity=0.778  Sum_probs=20.6

Q ss_pred             EecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125           39 IRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ   72 (103)
Q Consensus        39 ~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~   72 (103)
                      +.++|.|+||.+|...  .    ..+.||.|-..
T Consensus       105 RmIPCkHvFCl~CAr~--~----~dK~Cp~C~d~  132 (389)
T KOG2932|consen  105 RMIPCKHVFCLECARS--D----SDKICPLCDDR  132 (389)
T ss_pred             cccccchhhhhhhhhc--C----ccccCcCcccH
Confidence            4458999999999753  2    23789999643

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

Probab=93.33  E-value=0.036  Score=45.63  Aligned_cols=45  Identities=27%  Similarity=0.685  Sum_probs=36.7

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ....|.||.+ .......+.  .|||.+|..|+..|+..+    ..||+|..
T Consensus      1152 ~~~~c~ic~d-il~~~~~I~--~cgh~~c~~c~~~~l~~~----s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLD-ILRNQGGIA--GCGHEPCCRCDELWLYAS----SRCPICKS 1196 (1394)
T ss_pred             cccchHHHHH-HHHhcCCee--eechhHhhhHHHHHHHHh----ccCcchhh
Confidence            4558999999 655444444  699999999999999998    89999974

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

Probab=92.81  E-value=0.065  Score=42.22  Aligned_cols=39  Identities=31%  Similarity=0.710  Sum_probs=27.1

Q ss_pred             cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC
Q 034125           24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV   68 (103)
Q Consensus        24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~   68 (103)
                      |.||.-  -..+....+..|+|+.|..|.+.|++..    ..||.
T Consensus      1031 C~~C~l--~V~gss~~Cg~C~Hv~H~sc~~eWf~~g----d~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHL--AVRGSSNFCGTCGHVGHTSCMMEWFRTG----DVCPS 1069 (1081)
T ss_pred             eeeEee--EeeccchhhccccccccHHHHHHHHhcC----CcCCC
Confidence            555544  1223334456799999999999999988    56764

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

Probab=92.31  E-value=0.17  Score=37.58  Aligned_cols=39  Identities=31%  Similarity=0.805  Sum_probs=30.8

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER   59 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~   59 (103)
                      ......|-||.+ .+..  .+..+.|+|.||..|+..++..+
T Consensus        67 ~~~~~~c~ic~~-~~~~--~~~~~~c~H~~c~~cw~~yl~~k  105 (444)
T KOG1815|consen   67 KKGDVQCGICVE-SYDG--EIIGLGCGHPFCPPCWTGYLGTK  105 (444)
T ss_pred             CCccccCCcccC-CCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence            356678999999 4333  45566899999999999999877

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

Probab=92.03  E-value=0.11  Score=37.10  Aligned_cols=51  Identities=22%  Similarity=0.482  Sum_probs=35.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ..-+.|||=-+ .-........+.|||+.-..-+...-+.+ ...+.||+|-.
T Consensus       334 Hs~FiCPVlKe-~~t~ENpP~ml~CgHVIskeal~~LS~nG-~~~FKCPYCP~  384 (396)
T COG5109         334 HSLFICPVLKE-LCTDENPPVMLECGHVISKEALSVLSQNG-VLSFKCPYCPE  384 (396)
T ss_pred             cceeeccccHh-hhcccCCCeeeeccceeeHHHHHHHhhcC-cEEeeCCCCCc
Confidence            34578998766 33333344566899999998888765554 34689999954

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

Probab=91.73  E-value=0.0081  Score=43.61  Aligned_cols=54  Identities=24%  Similarity=0.620  Sum_probs=40.8

Q ss_pred             CccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           20 EEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ....|+||.. .+... ..+..+.|||.+|..||.+|+...    ..||.|+..++....
T Consensus       195 lv~sl~I~~~-slK~~y~k~~~~~~g~~~~~~kL~k~L~~~----~kl~~~~rel~~~~~  249 (465)
T KOG0827|consen  195 LVGSLSICFE-SLKQNYDKISAIVCGHIYHHGKLSKWLATK----RKLPSCRRELPKNGF  249 (465)
T ss_pred             HHhhhHhhHH-HHHHHHHHHHHHhhcccchhhHHHHHHHHH----HHhHHHHhhhhhhhH
Confidence            3557899988 55443 334445699999999999999988    789999988764433

>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=91.36  E-value=0.12  Score=26.78  Aligned_cols=46  Identities=20%  Similarity=0.501  Sum_probs=18.5

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPF   71 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~   71 (103)
                      ..|||-.. .+..  .++...|.|.-|.+ +..|+... ..+...||+|.+
T Consensus         3 L~CPls~~-~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~   49 (50)
T PF02891_consen    3 LRCPLSFQ-RIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK   49 (50)
T ss_dssp             SB-TTTSS-B-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred             eeCCCCCC-EEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence            46887777 3333  34555799975433 23344332 124478999975

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.

>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.32  E-value=0.028  Score=35.26  Aligned_cols=57  Identities=21%  Similarity=0.377  Sum_probs=36.0

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ   72 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~   72 (103)
                      ....++.+|-||+...|..+-......|.-.||..|..+.-..+......|-+|+..
T Consensus        60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~  116 (169)
T KOG3799|consen   60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ  116 (169)
T ss_pred             cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence            334778899999995666655555445666677777655333222234578889754

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

Probab=91.30  E-value=0.49  Score=28.39  Aligned_cols=51  Identities=20%  Similarity=0.410  Sum_probs=32.3

Q ss_pred             CCccccccccccccCCCCceEe------cCC---CchhhHHHHHHHHHhc-----CCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIR------MQC---SHIFHADCITPWLEER-----LGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~------~~C---~H~f~~~Cl~~~~~~~-----~~~~~~CP~Cr~   71 (103)
                      .....|-.|.. . ..+..+..      ..|   .-.||..||.......     .+....||.||.
T Consensus         5 ~~g~~CHqCrq-K-t~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg   69 (105)
T PF10497_consen    5 VNGKTCHQCRQ-K-TLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG   69 (105)
T ss_pred             CCCCCchhhcC-C-CCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence            34556777776 2 22222332      345   6679999999877543     345688999985

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

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

Probab=90.89  E-value=0.11  Score=40.25  Aligned_cols=41  Identities=24%  Similarity=0.627  Sum_probs=28.4

Q ss_pred             CccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACP   67 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP   67 (103)
                      +...|+||+. .+... .....+.|||..|..|+....+      .+||
T Consensus        10 ~~l~c~ic~n-~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp   51 (861)
T KOG3161|consen   10 LLLLCDICLN-LFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP   51 (861)
T ss_pred             HHhhchHHHH-HHHHHhcCcccccccchHHHHHHHhHhh------ccCC
Confidence            3456999977 44433 2344557999999999987555      3588

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=90.83  E-value=0.39  Score=25.36  Aligned_cols=35  Identities=20%  Similarity=0.651  Sum_probs=25.4

Q ss_pred             CCccccccccccccC-CCCceEecCCCchhhHHHHHH
Q 034125           19 DEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITP   54 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~   54 (103)
                      .....|++|-+ .+. .+..+....|+-.+|+.|...
T Consensus         3 ~~~~~C~~Cg~-~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    3 YEGCKCPVCGK-KFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             ccCccChhhCC-cccCCCCEEECCCCCCcccHHHHhh
Confidence            34568999999 665 444455555999999999754

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

Probab=89.91  E-value=0.082  Score=41.11  Aligned_cols=53  Identities=26%  Similarity=0.621  Sum_probs=38.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .-..+|+||.. -+..+   ..+.|.|.|+..|+..-+.... ....||+|+..+...
T Consensus        19 ~k~lEc~ic~~-~~~~p---~~~kc~~~~l~~~~n~~f~~~~-~~~~~~lc~~~~eK~   71 (684)
T KOG4362|consen   19 QKILECPICLE-HVKEP---SLLKCDHIFLKFCLNKLFESKK-GPKQCALCKSDIEKR   71 (684)
T ss_pred             hhhccCCceeE-Eeecc---chhhhhHHHHhhhhhceeeccC-ccccchhhhhhhhhh
Confidence            34578999999 44443   4457999999999988776552 257899998666433

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

Probab=89.84  E-value=0.45  Score=33.18  Aligned_cols=53  Identities=23%  Similarity=0.610  Sum_probs=35.2

Q ss_pred             CCccccccccccccCCCC-ceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDES-AMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~-~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .++..|-||.. ...... .....||.     ...|..|+..|...+  +...|.+|.....
T Consensus        76 ~~~~~cRIc~~-~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~--~~~~CeiC~~~~~  134 (323)
T KOG1609|consen   76 SSGPICRICHE-EDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIK--GNITCEICKSFFI  134 (323)
T ss_pred             CCCCcEEEEec-ccccccccccccCccccCcHHHHHHHHHHhhhccc--cCeeeecccccce
Confidence            34578999999 332211 02333553     457999999999855  4489999976543

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

Probab=88.71  E-value=0.22  Score=38.20  Aligned_cols=44  Identities=23%  Similarity=0.638  Sum_probs=27.4

Q ss_pred             CCccccccccccccC----CCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYS----DESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~----~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      ...+.|.+|......    .........|+++||..|+..    +   +..||.|
T Consensus       509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~---s~~CPrC  556 (580)
T KOG1829|consen  509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----K---SPCCPRC  556 (580)
T ss_pred             cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----c---CCCCCch
Confidence            345678888542211    112244556999999999854    2   2459999

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

Probab=87.98  E-value=0.22  Score=33.56  Aligned_cols=50  Identities=24%  Similarity=0.511  Sum_probs=36.8

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..++-..|.+|.. ....+  +++-.|+-.+|..|+..++++.    ..||.|.--+
T Consensus       177 y~dnlk~Cn~Ch~-LvIqg--~rCg~c~i~~h~~c~qty~q~~----~~cphc~d~w  226 (235)
T KOG4718|consen  177 YADNLKNCNLCHC-LVIQG--IRCGSCNIQYHRGCIQTYLQRR----DICPHCGDLW  226 (235)
T ss_pred             hHHHHHHHhHhHH-Hhhee--eccCcccchhhhHHHHHHhccc----CcCCchhccc
Confidence            3456678999998 32222  3444688889999999999987    8999995444

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=87.24  E-value=0.4  Score=31.96  Aligned_cols=42  Identities=24%  Similarity=0.663  Sum_probs=27.6

Q ss_pred             CccccccccccccCC----CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSD----ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~----~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      -++.|.||.+++..-    ...+..-.|+..||..|+..         ..||-|.
T Consensus       151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~  196 (202)
T PF13901_consen  151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCA  196 (202)
T ss_pred             CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcH
Confidence            357888888623211    12334445999999999862         4699994

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

Probab=85.94  E-value=0.27  Score=25.06  Aligned_cols=47  Identities=21%  Similarity=0.566  Sum_probs=30.8

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LGKSCACPVCP   70 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~~~~~CP~Cr   70 (103)
                      .|.||.. ....+..+..-.|+..||..|+..-....  ......||.|+
T Consensus         1 ~C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~   49 (51)
T PF00628_consen    1 YCPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR   49 (51)
T ss_dssp             EBTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred             eCcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence            4788888 54555556655799999999987654322  11246777663

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

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

Probab=84.24  E-value=0.48  Score=21.16  Aligned_cols=7  Identities=29%  Similarity=0.767  Sum_probs=3.9

Q ss_pred             ccccccc
Q 034125           23 ECAICLE   29 (103)
Q Consensus        23 ~C~IC~~   29 (103)
                      .||-|..
T Consensus         2 ~CP~C~~    8 (26)
T PF10571_consen    2 TCPECGA    8 (26)
T ss_pred             cCCCCcC
Confidence            4555655

Several members are annotated as putative helicases.

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.50  E-value=1.1  Score=31.11  Aligned_cols=54  Identities=13%  Similarity=0.189  Sum_probs=36.3

Q ss_pred             CCccccccccccccCCCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           19 DEEAECAICLEKEYSDES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ...+.|||=-- .+...- .....+|||+|-..-+.+...      ..|++|...+...+..
T Consensus       109 ~a~fiCPvtgl-eMng~~~F~~l~~CGcV~SerAlKeika------s~C~~C~a~y~~~dvI  163 (293)
T KOG3113|consen  109 RARFICPVTGL-EMNGKYRFCALRCCGCVFSERALKEIKA------SVCHVCGAAYQEDDVI  163 (293)
T ss_pred             cceeecccccc-eecceEEEEEEeccceeccHHHHHHhhh------ccccccCCcccccCeE
Confidence            55678998655 333322 334457999999988877542      6799998877655543

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=82.71  E-value=1.1  Score=32.19  Aligned_cols=52  Identities=19%  Similarity=0.389  Sum_probs=33.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .-...|+||.++.........-.+|++..|..|+.......    ..||.||....
T Consensus       247 ~v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~----~~~~~~rk~~~  298 (327)
T KOG2068|consen  247 SVPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGD----GRCPGCRKPYE  298 (327)
T ss_pred             ccCCCCCCCCCcccccccccccccccccchhhhhhcccccC----CCCCccCCccc
Confidence            33468999999222222222322578887777777665555    89999996653

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

Probab=82.22  E-value=0.66  Score=36.82  Aligned_cols=40  Identities=20%  Similarity=0.618  Sum_probs=28.7

Q ss_pred             CccccccccccccCCC---CceEecCCCchhhHHHHHHHHHhc
Q 034125           20 EEAECAICLEKEYSDE---SAMIRMQCSHIFHADCITPWLEER   59 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~---~~~~~~~C~H~f~~~Cl~~~~~~~   59 (103)
                      .+..|.-|+++....+   ..+....|+|.||..|+.....+.
T Consensus       783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~  825 (846)
T KOG2066|consen  783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN  825 (846)
T ss_pred             ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence            3448999999444333   334556799999999998876655

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

Probab=80.85  E-value=2.4  Score=30.51  Aligned_cols=46  Identities=24%  Similarity=0.440  Sum_probs=33.9

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ...|-.|.+ ........+.-.|.+.||.+|-.-.-+.-    ..||.|-.
T Consensus       330 ~~~Cf~C~~-~~~~~~~y~C~~Ck~~FCldCDv~iHesL----h~CpgCeh  375 (378)
T KOG2807|consen  330 SRFCFACQG-ELLSSGRYRCESCKNVFCLDCDVFIHESL----HNCPGCEH  375 (378)
T ss_pred             Ccceeeecc-ccCCCCcEEchhccceeeccchHHHHhhh----hcCCCcCC
Confidence            344888977 55666666666799999999977655555    68999963

>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]

Probab=80.55  E-value=0.81  Score=38.72  Aligned_cols=54  Identities=26%  Similarity=0.515  Sum_probs=41.0

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .....|.||.. .......+....|.-.||..|+..-+...+.+...||-||..-
T Consensus      1106 ~~~~~c~~cr~-k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRR-KKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred             cchhhhhhhhh-cccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence            45568999998 4333344444458899999999999988877789999998654

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

Probab=80.17  E-value=1.6  Score=34.71  Aligned_cols=43  Identities=19%  Similarity=0.414  Sum_probs=30.0

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV   68 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~   68 (103)
                      ....|.+|-.  ...+..+-.-.|+|.-|..|+.+|+...    ..||.
T Consensus       778 a~~~CtVC~~--vi~G~~~~c~~C~H~gH~sh~~sw~~~~----s~ca~  820 (839)
T KOG0269|consen  778 ASAKCTVCDL--VIRGVDVWCQVCGHGGHDSHLKSWFFKA----SPCAK  820 (839)
T ss_pred             hhcCceeecc--eeeeeEeecccccccccHHHHHHHHhcC----CCCcc
Confidence            3446888877  3333333333599999999999999887    55655

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	103
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-05
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		3e-04

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G      H     EC +C E +Y+   ++ ++ C+H+FH  CI PWLE+      +C
Sbjct: 1  GSSGSSGTEEHVGSGLECPVCKE-DYALGESVRQLPCNHLFHDSCIVPWLEQHD----SC 55
Query: 67 PVC 69
          PVC
Sbjct: 56 PVC 58

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
          D+  ECA+CL +    E A    +C H FHA+C+  W    LG    CP+C   +
Sbjct: 3  DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMW----LGSHSTCPLCRLTV 53

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	103
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	4e-16
2ect_A	78	Ring finger protein 126; metal binding protein, st	5e-15
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-13
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-12
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-12
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	1e-11
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	3e-11
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	7e-10
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	9e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	5e-08
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	7e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-07
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	1e-06
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-06
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	5e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	6e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-05
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-04
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	2e-04
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-04
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	4e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	5e-04
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	8e-04

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

 Score = 66.2 bits (162), Expect = 4e-16
 Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 5/59 (8%)

Query: 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76
            +E  C IC   EY        + C H FH  C++ WL++       CPVC    P P
Sbjct: 37 VGQEMCCPICCS-EYVKGDVATELPCHHYFHKPCVSIWLQKS----GTCPVCRCMFPPP 90

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

 Score = 63.2 bits (154), Expect = 5e-15
 Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 5/68 (7%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G      H     EC +C E +Y+   ++ ++ C+H+FH  CI PWLE+      +C
Sbjct: 1  GSSGSSGTEEHVGSGLECPVCKE-DYALGESVRQLPCNHLFHDSCIVPWLEQH----DSC 55

Query: 67 PVCPFQMP 74
          PVC   + 
Sbjct: 56 PVCRKSLT 63

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

 Score = 59.4 bits (144), Expect = 1e-13
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 5/68 (7%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G   +    +    CA+CLE ++     +    C H FH  C+  WLE R      C
Sbjct: 1  GSSGSSGKVKELNLHELCAVCLE-DFKPRDELGICPCKHAFHRKCLIKWLEVR----KVC 55

Query: 67 PVCPFQMP 74
          P+C   + 
Sbjct: 56 PLCNMPVL 63

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

 Score = 56.2 bits (136), Expect = 2e-12
 Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 5/59 (8%)

Query: 11 EGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          +G+     D E +C ICL     +   + R+ C H+FH  C+  WL      +  CP+C
Sbjct: 4  DGEEGTEEDTEEKCTICLS-ILEEGEDVRRLPCMHLFHQVCVDQWLIT----NKKCPIC 57

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

 Score = 55.5 bits (134), Expect = 4e-12
 Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 9/63 (14%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G   R     +E EC IC++       A + + C+H F   CI  W +    +   C
Sbjct: 1  GSSGSSGRVKQLTDEEECCICMDGR-----ADLILPCAHSFCQKCIDKWSD----RHRNC 51

Query: 67 PVC 69
          P+C
Sbjct: 52 PIC 54

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

 Score = 54.3 bits (131), Expect = 1e-11
 Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 5/57 (8%)

Query: 13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
            +NH  E+  C +C+  ++     +  + C+H FHA C+  WL+     +  CP+C
Sbjct: 15 NPNNHQSEQTLCVVCMC-DFESRQLLRVLPCNHEFHAKCVDKWLKA----NRTCPIC 66

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

 Score = 52.7 bits (127), Expect = 3e-11
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 4/51 (7%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
             + C ICLE  ++       + C H+ H  C    L+E       CP+C
Sbjct: 3  SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE----GYRCPLC 49

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

 Score = 49.5 bits (119), Expect = 7e-10
 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 8/53 (15%)

Query: 19 DEEAECAICLEKEYSDESAMIRM--QCSHIFHADCITPWLEERLGKSCACPVC 69
          D+  ECA+CL  E  D     R   +C H FHA+C+  WL         CP+C
Sbjct: 3  DDGVECAVCLA-ELEDG-EEARFLPRCGHGFHAECVDMWLG----SHSTCPLC 49

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

 Score = 47.0 bits (112), Expect = 9e-09
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 7/51 (13%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
               C ICLE + S+ S  + + C H F   CIT W+ +    +  CP+C
Sbjct: 3  TVAERCPICLE-DPSNYS--MALPCLHAFCYVCITRWIRQ----NPTCPLC 46

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

 Score = 47.9 bits (113), Expect = 5e-08
 Identities = 13/76 (17%), Positives = 20/76 (26%), Gaps = 11/76 (14%)

Query: 5   SRGACGEGQRSNHTDEEAECAICLEKEYSDESAMIRM----QCSHIFHADCITPWLEERL 60
                   +     +EE  C IC           +      +C    HA C+  W +  +
Sbjct: 292 MPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLM 351

Query: 61  GK-------SCACPVC 69
                       CP C
Sbjct: 352 DGKTFLEVSFGQCPFC 367

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

 Score = 44.9 bits (106), Expect = 7e-08
 Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 7/66 (10%)

Query: 7  GACGEGQRSNHTDEEAECAICLE---KEYSDESAMIRMQCSHIFHADCITPWLEERLGKS 63
          G+ G             C IC++   +   +   ++  +C H+F + C+   L+     +
Sbjct: 1  GSSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK----NA 56

Query: 64 CACPVC 69
            CP C
Sbjct: 57 NTCPTC 62

>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 = 43.3 bits (102), Expect = 4e-07
 Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 6/59 (10%)

Query: 11 EGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          + Q      E   C IC+EK      A +   CS +    CI  WL E   +   CP C
Sbjct: 12 DEQSVESIAEVFRCFICMEK---LRDARLCPHCSKLCCFSCIRRWLTE---QRAQCPHC 64

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

 Score = 42.2 bits (99), Expect = 1e-06
 Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
             C  C  +   ++  ++  +C+H FH  C++ W+++       CP+C
Sbjct: 26 MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN----NRCPLC 70

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

 Score = 41.3 bits (97), Expect = 1e-06
 Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 7/53 (13%)

Query: 20 EEAECAICLE---KEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
              C IC++   +   +   ++  +C H+F + C+   L+     +  CP C
Sbjct: 2  AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN----ANTCPTC 50

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

 Score = 42.1 bits (98), Expect = 2e-06
 Identities = 15/68 (22%), Positives = 19/68 (27%), Gaps = 15/68 (22%)

Query: 17 HTDEEAECAICLE--------------KEYSDESAMIRMQCSHIFHADCITPWLEERLGK 62
              E +C IC+E              K           +CSH FH  C+          
Sbjct: 21 KVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKD 80

Query: 63 SCA-CPVC 69
              CP C
Sbjct: 81 GSLQCPSC 88

>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 = 43.2 bits (101), Expect = 2e-06
 Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 7/53 (13%)

Query: 17  HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
                  C IC E    ++  +    C H+    C+T W E        CP C
Sbjct: 328 MGSTFQLCKICAE----NDKDVKIEPCGHLMCTSCLTSWQESE---GQGCPFC 373

>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 = 39.8 bits (93), Expect = 5e-06
 Identities = 12/61 (19%), Positives = 24/61 (39%), Gaps = 7/61 (11%)

Query: 12 GQRSNHTDEEAECAICLE---KEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV 68
          G           C IC++   +   +   ++  +C H+F + C+   L+     +  CP 
Sbjct: 1  GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK----NANTCPT 56

Query: 69 C 69
          C
Sbjct: 57 C 57

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

 Score = 39.9 bits (93), Expect = 6e-06
 Identities = 14/63 (22%), Positives = 20/63 (31%), Gaps = 5/63 (7%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G   R  + D    C IC       +S      C    H  C+  + +        C
Sbjct: 1  GSSGSSGRETYPDAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSN--AEPRC 55

Query: 67 PVC 69
          P C
Sbjct: 56 PHC 58

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

 Score = 38.2 bits (89), Expect = 2e-05
 Identities = 14/51 (27%), Positives = 16/51 (31%), Gaps = 7/51 (13%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
               C+IC      D  A    +C H F   CI          S  CP C
Sbjct: 13 TPYILCSICKG-YLID--ATTITECLHTFCKSCIVRHFY----YSNRCPKC 56

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

 Score = 38.1 bits (89), Expect = 3e-05
 Identities = 18/76 (23%), Positives = 29/76 (38%), Gaps = 3/76 (3%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCA 65
          G+ G     +   E  EC IC+E  +++E    ++  C H     C+   L         
Sbjct: 1  GSSGSSGNLDALREVLECPICME-SFTEEQLRPKLLHCGHTICRQCLEKLLASS-INGVR 58

Query: 66 CPVCPFQMPLPSFEEL 81
          CP C     + S  +L
Sbjct: 59 CPFCSKITRITSLTQL 74

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

 Score = 37.1 bits (85), Expect = 2e-04
 Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 4/56 (7%)

Query: 14  RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           R++  D   EC        S+E  +    C+H FH  CI+ WL+ R      CP+ 
Sbjct: 55  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ----VCPLD 106

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

 Score = 36.7 bits (84), Expect = 2e-04
 Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 4/56 (7%)

Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          R++  D   EC        S+E  +    C+H FH  CI+ WL+ R      CP+ 
Sbjct: 44 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ----VCPLD 95

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 36.3 bits (84), Expect = 3e-04
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 7/51 (13%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          +    C +C         A   ++C H F   CI  +LE     S  CP+C
Sbjct: 13 NPHLMCVLCGGYFID---ATTIIECLHSFCKTCIVRYLE----TSKYCPIC 56

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

 Score = 35.6 bits (82), Expect = 3e-04
 Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 8/63 (12%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G    +  +    ECAICL+         + + C H+F   C+             C
Sbjct: 1  GSSGSSGNTAPSLTVPECAICLQ-TCVHP---VSLPCKHVFCYLCVKGASWLGK----RC 52

Query: 67 PVC 69
           +C
Sbjct: 53 ALC 55

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

 Score = 35.5 bits (82), Expect = 4e-04
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 7/51 (13%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          D+   C IC E  ++   AMI  QCSH + + CI  +L  +      CP C
Sbjct: 20 DDLLRCGICFEY-FNI--AMIIPQCSHNYCSLCIRKFLSYK----TQCPTC 63

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

 Score = 35.9 bits (82), Expect = 5e-04
 Identities = 11/59 (18%), Positives = 25/59 (42%), Gaps = 7/59 (11%)

Query: 19 DEEAECAICLE---KEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74
               C IC++   +   +   ++  +C H+F + C+   L+     +  CP C  ++ 
Sbjct: 5  SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK----NANTCPTCRKKIN 59

>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 = 34.7 bits (80), Expect = 5e-04
 Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 5/63 (7%)

Query: 7  GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          G+ G     +   +E  C IC +   +D  A++   C + +  +CI   L E       C
Sbjct: 1  GSSGSSGEDDPIPDELLCLICKDI-MTD--AVVIPCCGNSYCDECIRTALLES--DEHTC 55

Query: 67 PVC 69
          P C
Sbjct: 56 PTC 58

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

 Score = 34.3 bits (78), Expect = 8e-04
 Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 3/55 (5%)

Query: 15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           +  ++  EC +C+E    D+       C +     C      +  G    CP C
Sbjct: 5  PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGL---CPAC 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	103
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.7
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.69
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.65
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.63
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.63
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.62
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.62
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.6
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.59
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.57
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.56
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.56
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.55
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.54
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.53
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.52
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.52
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.51
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.5
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.5
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.49
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.49
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.46
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.44
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.43
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.42
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.42
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.42
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.4
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.39
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.38
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.38
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.38
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.36
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.34
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.33
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.33
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.31
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.3
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.3
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.29
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.29
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.27
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.27
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.26
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.25
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.22
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.21
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.2
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.19
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.19
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.18
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.18
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.07
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.06
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.02
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.02
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.01
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.0
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	99.0
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.97
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.95
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.85
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.82
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.82
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.81
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.59
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.36
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.31
3nw0_A	238	Non-structural maintenance of chromosomes element	98.15
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	97.7
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	97.53
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	97.1
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	96.97
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.7
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	96.6
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	96.44
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	96.44
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	96.15
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	96.12
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	95.94
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	95.7
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	95.66
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	95.29
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	95.21
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	95.0
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	94.96
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	94.93
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	94.83
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	94.81
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	94.69
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	94.63
1weu_A	91	Inhibitor of growth family, member 4; structural g	94.56
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	94.52
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	94.34
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	93.47
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	93.45
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	93.37
1wew_A	78	DNA-binding family protein; structural genomics, P	93.35
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	93.23
1wee_A	72	PHD finger family protein; structural genomics, PH	93.1
2yt5_A	66	Metal-response element-binding transcription facto	92.9
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	92.44
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	91.66
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	91.49
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	90.71
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	90.69
3ask_A	226	E3 ubiquitin-protein ligase UHRF1; histone reader	90.47
1wem_A	76	Death associated transcription factor 1; structura	90.15
1we9_A	64	PHD finger family protein; structural genomics, PH	89.81
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	89.72
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	89.4
3c6w_A	59	P28ING5, inhibitor of growth protein 5; chromatin,	88.87
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	88.66
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	88.48
2vnf_A	60	ING 4, P29ING4, inhibitor of growth protein 4; ace	88.3
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	88.1
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	87.91
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	86.63
2co8_A	82	NEDD9 interacting protein with calponin homology a	86.61
2a20_A	62	Regulating synaptic membrane exocytosis protein 2;	86.15
2g6q_A	62	Inhibitor of growth protein 2; protein-peptide com	85.71
2d8v_A	67	Zinc finger FYVE domain-containing protein 19; zfy	85.44
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	84.24
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	83.92
2jmi_A	90	Protein YNG1, ING1 homolog 1; PHD, histone, recogn	83.68
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	83.48
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	83.43
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	83.32
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	82.05
1zbd_B	134	Rabphilin-3A; G protein, effector, RABCDR, synapti	81.76
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	81.05
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	80.86
1z60_A	59	TFIIH basal transcription factor complex P44 subun	80.72
3a1b_A	159	DNA (cytosine-5)-methyltransferase 3A, histone H3;	80.18

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

Probab=99.70  E-value=1.9e-17  Score=93.54  Aligned_cols=64  Identities=31%  Similarity=0.803  Sum_probs=50.9

Q ss_pred             CCCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           11 EGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        11 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ++.......+...|+||++ .+.....+..++|+|.||..||..|+...    .+||+||..+......
T Consensus         5 ~s~~~~~~~~~~~C~IC~~-~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~~   68 (78)
T 2ect_A            5 SSGTEEHVGSGLECPVCKE-DYALGESVRQLPCNHLFHDSCIVPWLEQH----DSCPVCRKSLTGQNTA   68 (78)
T ss_dssp             CCCCCTTSSSSCCCTTTTS-CCCTTSCEEECTTSCEEETTTTHHHHTTT----CSCTTTCCCCCCSCSC
T ss_pred             CCCCcccCCCCCCCeeCCc-cccCCCCEEEeCCCCeecHHHHHHHHHcC----CcCcCcCCccCCcccC
Confidence            3344444567889999999 76666666778999999999999999877    7999999998765544

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

Probab=99.69  E-value=7.2e-17  Score=90.25  Aligned_cols=58  Identities=29%  Similarity=0.758  Sum_probs=47.7

Q ss_pred             CCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        13 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .......++..|+||++ .+.....+..++|+|.||..||..|+...    .+||+||..+..
T Consensus         7 ~~~~~~~~~~~C~IC~~-~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~----~~CP~Cr~~~~~   64 (74)
T 2ep4_A            7 GKVKELNLHELCAVCLE-DFKPRDELGICPCKHAFHRKCLIKWLEVR----KVCPLCNMPVLQ   64 (74)
T ss_dssp             SCCCCCCCSCBCSSSCC-BCCSSSCEEEETTTEEEEHHHHHHHHHHC----SBCTTTCCBCSS
T ss_pred             cccccCCCCCCCcCCCc-ccCCCCcEEEcCCCCEecHHHHHHHHHcC----CcCCCcCccccc
Confidence            33444566789999999 76666667777999999999999999987    799999998754

>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=99.65  E-value=3e-16  Score=86.61  Aligned_cols=56  Identities=30%  Similarity=0.821  Sum_probs=46.6

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ....+...|+||++ .+..+..+..++|+|.||..||..|+...    .+||+||..+...
T Consensus         9 ~~~~~~~~C~IC~~-~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~   64 (69)
T 2kiz_A            9 TEEDTEEKCTICLS-ILEEGEDVRRLPCMHLFHQVCVDQWLITN----KKCPICRVDIEAQ   64 (69)
T ss_dssp             CSTTCCCSBTTTTB-CCCSSSCEEECTTSCEEEHHHHHHHHHHC----SBCTTTCSBSCSC
T ss_pred             CcCCCCCCCeeCCc-cccCCCcEEEeCCCCHHHHHHHHHHHHcC----CCCcCcCccccCc
Confidence            34466788999999 66666667778999999999999999987    7899999988644

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

Probab=99.63  E-value=2.9e-16  Score=86.34  Aligned_cols=59  Identities=22%  Similarity=0.650  Sum_probs=45.9

Q ss_pred             CCCCCCCCCccccccccccccCCC----CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           12 GQRSNHTDEEAECAICLEKEYSDE----SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        12 ~~~~~~~~~~~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      ........+...|+||++ .+...    ..+..++|+|.||..||..|+...    ..||+||..+..
T Consensus         6 ~~~~~~~~~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~   68 (69)
T 2ea6_A            6 SGTGLRPSGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINH   68 (69)
T ss_dssp             CCCCCCTTCCCCCTTTCC-CHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHC----SSCTTTCCCCCC
T ss_pred             CccccCCCCCCCCcccCc-cccccccccCCeEeCCCCChhcHHHHHHHHHcC----CCCCCCCCccCc
Confidence            333444577889999999 55432    334667899999999999999987    799999998754

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

Probab=99.63  E-value=2.6e-16  Score=88.24  Aligned_cols=54  Identities=26%  Similarity=0.794  Sum_probs=46.1

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ..+...|+||++ .+..+..+..++|+|.||..||..|+...    .+||+||+.+...
T Consensus        20 ~~~~~~C~IC~~-~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~----~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           20 QSEQTLCVVCMC-DFESRQLLRVLPCNHEFHAKCVDKWLKAN----RTCPICRADSGPS   73 (75)
T ss_dssp             SSSCCEETTTTE-ECCBTCEEEEETTTEEEETTHHHHHHHHC----SSCTTTCCCCCCC
T ss_pred             cCCCCCCeECCc-ccCCCCeEEEECCCCHhHHHHHHHHHHcC----CcCcCcCCcCCCC
Confidence            356778999999 77666667778999999999999999987    7999999988654

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

Probab=99.62  E-value=1.9e-15  Score=86.72  Aligned_cols=68  Identities=24%  Similarity=0.550  Sum_probs=50.1

Q ss_pred             CCCCCCCCCccccccccccccCCCCc-eEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhh
Q 034125           12 GQRSNHTDEEAECAICLEKEYSDESA-MIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEEL   81 (103)
Q Consensus        12 ~~~~~~~~~~~~C~IC~~~~~~~~~~-~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~   81 (103)
                      ........+...|+||++ .+..... ...++|||.||..|+..|+... .+...||+||..+....+..+
T Consensus         6 ~~~~~~~~~~~~C~IC~~-~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~-~~~~~CP~Cr~~~~~~~i~~l   74 (88)
T 2ct2_A            6 SGNLDALREVLECPICME-SFTEEQLRPKLLHCGHTICRQCLEKLLASS-INGVRCPFCSKITRITSLTQL   74 (88)
T ss_dssp             CCSCCCCCSCCBCTTTCC-BCCTTSSCEEECSSSCEEEHHHHHHHHHHC-SSCBCCTTTCCCBCCSSTTTS
T ss_pred             ccChhhccCCCCCccCCc-cccccCCCeEECCCCChhhHHHHHHHHHcC-CCCcCCCCCCCcccchhHHHH
Confidence            333444567789999999 6554332 5667999999999999999875 234789999998876654433

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

Probab=99.62  E-value=5.3e-16  Score=90.14  Aligned_cols=53  Identities=34%  Similarity=0.879  Sum_probs=45.5

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      ..++..|+||++ .+..+..+..++|+|.||..||..|+...    .+||+||..+..
T Consensus        37 ~~~~~~C~IC~~-~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCS-EYVKGDVATELPCHHYFHKPCVSIWLQKS----GTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTE-ECCTTCEEEEETTTEEEEHHHHHHHHTTT----CBCTTTCCBSSC
T ss_pred             cCCCCCCcccCh-hhcCCCcEEecCCCChHHHHHHHHHHHcC----CcCcCcCccCCC
Confidence            356678999999 77777777778999999999999999877    799999998864

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

Probab=99.60  E-value=4e-16  Score=82.48  Aligned_cols=51  Identities=37%  Similarity=0.933  Sum_probs=43.2

Q ss_pred             CCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      +++..|+||++ .+..+..+..++ |+|.||..|+.+|+..+    .+||+||+.+.
T Consensus         3 ~~~~~C~IC~~-~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLA-ELEDGEEARFLPRCGHGFHAECVDMWLGSH----STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCC-CCCTTSCCEECSSSCCEECTTHHHHTTTTC----CSCSSSCCCSC
T ss_pred             CCCCcCccCCc-cccCCCceEECCCCCCcccHHHHHHHHHcC----CcCcCCCCEeE
Confidence            56779999999 776666666777 99999999999999876    79999998764

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

Probab=99.59  E-value=1.7e-15  Score=84.27  Aligned_cols=63  Identities=21%  Similarity=0.387  Sum_probs=47.5

Q ss_pred             cCCCCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125            9 CGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus         9 ~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ...+.......+...|+||++ .+.. + +..++|+|.||..||..|+...    ..||+||..+...+.
T Consensus         3 ~~~~~~~~~~~~~~~C~IC~~-~~~~-p-~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A            3 SGSSGNLSELTPYILCSICKG-YLID-A-TTITECLHTFCKSCIVRHFYYS----NRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CCCCCCCCCCCGGGSCTTTSS-CCSS-C-EECSSSCCEECHHHHHHHHHHC----SSCTTTCCCCCSSCS
T ss_pred             CcchhhHhhcCCCCCCCCCCh-HHHC-c-CEECCCCCHHHHHHHHHHHHcC----CcCCCcCcccCcccc
Confidence            333444555577889999999 4433 2 3334899999999999999887    899999998875544

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

Probab=99.57  E-value=1e-15  Score=84.66  Aligned_cols=57  Identities=23%  Similarity=0.729  Sum_probs=45.6

Q ss_pred             CCCCccccccccccccCC----CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           17 HTDEEAECAICLEKEYSD----ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~----~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ...++..|+||++ .+..    +.....++|||.||..|+..|+..+    .+||+||..+....+
T Consensus         6 ~~~~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            6 RPSGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRY   66 (71)
T ss_dssp             CCTTCCBCTTTCC-BHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHC----SBCTTTCCBCCCCSC
T ss_pred             CCCCCCCCcccCh-hhhccccccCCeEeCCCCChHhHHHHHHHHHcC----CCCCCCCCccChhhe
Confidence            3456789999999 5443    2344667899999999999999988    799999999876554

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

Probab=99.56  E-value=5.5e-15  Score=84.17  Aligned_cols=53  Identities=30%  Similarity=0.755  Sum_probs=40.6

Q ss_pred             CCCccccccccccccCC-----------CCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSD-----------ESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~-----------~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      ..++..|+||++ .+..           +..+..+ +|+|.||..||.+|+..+    .+||+||+.+..
T Consensus        12 ~~~~~~C~IC~~-~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR~~~~~   76 (81)
T 2ecl_A           12 DVECDTCAICRV-QVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQN----NRCPLCQQDWVV   76 (81)
T ss_dssp             SCCCSCBTTTTB-CTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTC----CBCTTTCCBCCE
T ss_pred             cCCCCCCcccCh-hhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhC----CCCCCcCCCcch
Confidence            346678999998 5532           2323344 599999999999999987    799999998754

>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=99.56  E-value=4.2e-15  Score=78.42  Aligned_cols=51  Identities=27%  Similarity=0.683  Sum_probs=42.1

Q ss_pred             CCccccccccccccCC-CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSD-ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+...|+||++ .+.. ...+..++|+|.||..|+..|+...    .+||+||..+.
T Consensus         3 ~~~~~C~IC~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLE-DIHTSRVVAHVLPCGHLLHRTCYEEMLKEG----YRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCC-CCCTTTSCEEECTTSCEEETTHHHHHHHHT----CCCTTSCCSSC
T ss_pred             CCCCcCcccCh-hhcCCCcCeEecCCCCcccHHHHHHHHHcC----CcCCCCCCcCC
Confidence            45678999999 5543 3356677899999999999999988    89999998774

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

Probab=99.55  E-value=3e-15  Score=83.09  Aligned_cols=54  Identities=24%  Similarity=0.516  Sum_probs=42.5

Q ss_pred             CCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      ......+...|+||++ .+..   ...++|+|.||..||..|+...    ..||+||..+..
T Consensus         8 ~~~~~~~~~~C~IC~~-~~~~---~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~   61 (71)
T 2d8t_A            8 NTAPSLTVPECAICLQ-TCVH---PVSLPCKHVFCYLCVKGASWLG----KRCALCRQEIPE   61 (71)
T ss_dssp             CCCSSSSCCBCSSSSS-BCSS---EEEETTTEEEEHHHHHHCTTCS----SBCSSSCCBCCH
T ss_pred             CcccCCCCCCCccCCc-ccCC---CEEccCCCHHHHHHHHHHHHCC----CcCcCcCchhCH
Confidence            3444567789999999 4433   2445899999999999999876    899999998753

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

Probab=99.54  E-value=9.8e-15  Score=81.67  Aligned_cols=61  Identities=23%  Similarity=0.567  Sum_probs=45.3

Q ss_pred             CCCCCCCCCCCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           10 GEGQRSNHTDEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        10 ~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ..+.......+...|+||++ .+. .+  ..++ |||.||..||..|+...  +...||+||..+...
T Consensus         4 ~~~~~~~~~~~~~~C~IC~~-~~~-~p--~~~~~CgH~fC~~Ci~~~~~~~--~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A            4 GSSGEDDPIPDELLCLICKD-IMT-DA--VVIPCCGNSYCDECIRTALLES--DEHTCPTCHQNDVSP   65 (74)
T ss_dssp             SCCSCCCCSCGGGSCSSSCC-CCT-TC--EECSSSCCEECTTHHHHHHHHS--SSSCCSSSCCSSCCT
T ss_pred             CcccccccCCCCCCCcCCCh-HHh-CC--eEcCCCCCHHHHHHHHHHHHhc--CCCcCCCCCCcCCCc
Confidence            33444455577889999999 443 33  3468 99999999999999875  236899999976433

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

Probab=99.53  E-value=1.3e-14  Score=82.31  Aligned_cols=55  Identities=18%  Similarity=0.479  Sum_probs=43.5

Q ss_pred             CCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           12 GQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        12 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      +.......+...|+||++ .+. .+  ..++|+|.||..||..|+...    ..||+||..+.
T Consensus         6 ~~~~~~~~~~~~C~IC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~   60 (81)
T 2csy_A            6 SGGSEEEEIPFRCFICRQ-AFQ-NP--VVTKCRHYFCESCALEHFRAT----PRCYICDQPTG   60 (81)
T ss_dssp             CCCSSCCCCCSBCSSSCS-BCC-SE--EECTTSCEEEHHHHHHHHHHC----SBCSSSCCBCC
T ss_pred             CCCcccCCCCCCCcCCCc-hhc-Ce--eEccCCCHhHHHHHHHHHHCC----CcCCCcCcccc
Confidence            333445567789999999 443 32  346999999999999999877    89999999886

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

Probab=99.52  E-value=2.6e-14  Score=79.43  Aligned_cols=57  Identities=30%  Similarity=0.595  Sum_probs=43.2

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ....+...|+||++ .+. .  ...++|||.||..|+..|+... .....||+||..+....
T Consensus        15 ~~~~~~~~C~IC~~-~~~-~--~~~~~CgH~fC~~Ci~~~~~~~-~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           15 NKLQEEVICPICLD-ILQ-K--PVTIDCGHNFCLKCITQIGETS-CGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCCCCBCTTTCS-BCS-S--EEECTTCCEEEHHHHHHHCSSS-CSCCCCSSSCCCCCCCC
T ss_pred             HhCccCCEeccCCc-ccC-C--eEEcCCCChhhHHHHHHHHHcC-CCCCCCCCCCCcCCccc
Confidence            33467889999999 444 2  3445999999999999999742 23478999999887654

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

Probab=99.52  E-value=1.8e-14  Score=78.76  Aligned_cols=58  Identities=17%  Similarity=0.415  Sum_probs=43.3

Q ss_pred             CCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        13 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      .......+...|+||++ .+.. +..  ++|||.||..|+..|+...   ...||+||..+...+
T Consensus         7 ~~~~~~~~~~~C~IC~~-~~~~-p~~--~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A            7 GFVKTVEDKYKCEKCHL-VLCS-PKQ--TECGHRFCESCMAALLSSS---SPKCTACQESIVKDK   64 (66)
T ss_dssp             CSCCSCCCCEECTTTCC-EESS-CCC--CSSSCCCCHHHHHHHHTTS---SCCCTTTCCCCCTTT
T ss_pred             hhhhcCCcCCCCCCCCh-HhcC-eeE--CCCCCHHHHHHHHHHHHhC---cCCCCCCCcCCChhh
Confidence            33344467889999999 5443 333  5899999999999999632   278999999886543

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

Probab=99.51  E-value=6e-15  Score=79.91  Aligned_cols=54  Identities=24%  Similarity=0.743  Sum_probs=43.5

Q ss_pred             CccccccccccccCCC----CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           20 EEAECAICLEKEYSDE----SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ++..|+||++ .+...    ..+..++|||.||..|+..|+...    .+||+||..+...++
T Consensus         2 ~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~~   59 (64)
T 2xeu_A            2 AMVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRY   59 (64)
T ss_dssp             CCCBCTTTCC-BHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHC----SBCTTTCCBCTTTCE
T ss_pred             CCCCCCccCh-hhhCccccCCCEEeCCCCCchhHHHHHHHHHcC----CCCCCCCccCCccce
Confidence            4678999999 55432    334566899999999999999987    799999999876554

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

Probab=99.50  E-value=3.9e-14  Score=80.53  Aligned_cols=60  Identities=25%  Similarity=0.659  Sum_probs=46.0

Q ss_pred             CCCCCCCCCccccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           12 GQRSNHTDEEAECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        12 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      +..+....++..|.||++ .+..+..+ .+||.     |.||..||.+|+..+  +..+||+||..+..
T Consensus         6 s~~s~~~~~~~~C~IC~~-~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~--~~~~CplCr~~~~~   70 (80)
T 2d8s_A            6 SGTSITPSSQDICRICHC-EGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSS--DTRCCELCKYEFIM   70 (80)
T ss_dssp             CCCCCCCTTSCCCSSSCC-CCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHH--CCSBCSSSCCBCCC
T ss_pred             CCCCCCCCCCCCCeEcCc-cccCCCee-EeccccCCcCCeeCHHHHHHHHhhC--CCCCCCCCCCeeec
Confidence            444555567789999998 55544444 57896     999999999999887  23589999998864

>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=99.50  E-value=2.4e-14  Score=85.98  Aligned_cols=56  Identities=29%  Similarity=0.507  Sum_probs=41.5

Q ss_pred             CccccccccccccCCCC---------------ceEecCCCchhhHHHHHHHHHhcC-CCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDES---------------AMIRMQCSHIFHADCITPWLEERL-GKSCACPVCPFQMPLP   76 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~---------------~~~~~~C~H~f~~~Cl~~~~~~~~-~~~~~CP~Cr~~~~~~   76 (103)
                      .+..|+||++ .+....               .+..++|+|.||..||..|+.... ....+||+||..+...
T Consensus        24 ~~~~C~ICl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICME-KLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTE-ETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCCh-hhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            4568999999 654321               334678999999999999996532 2347999999988644

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

Probab=99.49  E-value=2.4e-15  Score=83.11  Aligned_cols=53  Identities=32%  Similarity=0.877  Sum_probs=42.4

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ....+...|+||++ .+..    ..++|+|.||..|+..|+...    ..||+||..+....
T Consensus        10 ~~~~~~~~C~IC~~-~~~~----~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           10 KQLTDEEECCICMD-GRAD----LILPCAHSFCQKCIDKWSDRH----RNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCCCCCSSSCC-SCCS----EEETTTEEECHHHHHHSSCCC----SSCHHHHHCTTCCC
T ss_pred             hcCCCCCCCeeCCc-CccC----cccCCCCcccHHHHHHHHHCc----CcCCCcCCcccCCC
Confidence            34466789999999 4433    456999999999999999866    89999998886443

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

Probab=99.49  E-value=7e-14  Score=79.44  Aligned_cols=59  Identities=34%  Similarity=0.689  Sum_probs=44.3

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcC--CCCCCCCCCCCCCCCCCh
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERL--GKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~--~~~~~CP~Cr~~~~~~~~   78 (103)
                      ....+...|+||++ .+. .+  ..++|+|.||..|+..|+....  .+...||+||..+....+
T Consensus        14 ~~~~~~~~C~IC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecw_A           14 EMIKEEVTCPICLE-LLK-EP--VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNL   74 (85)
T ss_dssp             CCCCTTTSCTTTCS-CCS-SC--EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCC
T ss_pred             HhCccCCCCcCCCh-hhC-cc--eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhC
Confidence            33467789999999 443 33  3468999999999999998731  234799999998875543

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

Probab=99.46  E-value=1.2e-13  Score=78.48  Aligned_cols=58  Identities=28%  Similarity=0.657  Sum_probs=43.6

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CCCCCCCCCCCCCCCCCCh
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ...+...|+||++ .+. .+  ..++|+|.||..|+..|+...  ..+...||+||..+....+
T Consensus        15 ~~~~~~~C~IC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~   74 (85)
T 2ecv_A           15 NVKEEVTCPICLE-LLT-QP--LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI   74 (85)
T ss_dssp             CCCCCCCCTTTCS-CCS-SC--BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSC
T ss_pred             HccCCCCCCCCCc-ccC-Cc--eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhc
Confidence            3467789999999 443 33  335899999999999999872  1234899999998875443

>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=99.44  E-value=8.6e-14  Score=82.98  Aligned_cols=50  Identities=32%  Similarity=0.669  Sum_probs=40.4

Q ss_pred             CccccccccccccCCC---------------CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDE---------------SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~---------------~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ++..|+||++ .+...               ..+..++|+|.||..||..|+..+    .+||+||+.+.
T Consensus        36 ~~d~CaIC~~-~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~----~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRN-HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCS-CTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC----SBCSSSCSBCC
T ss_pred             CCCCCccCCh-hHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcC----CcCcCCCCcce
Confidence            5678999999 55432               124557899999999999999987    89999999864

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

Probab=99.43  E-value=7.4e-14  Score=76.59  Aligned_cols=49  Identities=33%  Similarity=0.818  Sum_probs=40.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      +++..|+||++ .+..  ....++|||.||..|+..|+..+    .+||+||..+.
T Consensus         3 ~~~~~C~IC~~-~~~~--~~~~~~C~H~fc~~Ci~~~~~~~----~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLE-DPSN--YSMALPCLHAFCYVCITRWIRQN----PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCS-CCCS--CEEETTTTEEESTTHHHHHHHHS----CSTTTTCCCCC
T ss_pred             CCCCCCeeCCc-cccC--CcEecCCCCeeHHHHHHHHHhCc----CcCcCCChhhH
Confidence            45678999999 4432  23567899999999999999887    79999999875

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

Probab=99.42  E-value=3.2e-13  Score=75.61  Aligned_cols=64  Identities=22%  Similarity=0.463  Sum_probs=49.2

Q ss_pred             CccCCCCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125            7 GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus         7 ~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      |+.+++......+....|+||++ .+..+  .....|+|.||..||.+|++.+  +..+||+||..+..
T Consensus         1 ~~~~~~~~~~y~~~i~~C~IC~~-~i~~g--~~C~~C~h~fH~~Ci~kWl~~~--~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A            1 GSSGSSGRETYPDAVKICNICHS-LLIQG--QSCETCGIRMHLPCVAKYFQSN--AEPRCPHCNDYWPH   64 (74)
T ss_dssp             CCCCCCCCCCCSSSSCBCSSSCC-BCSSS--EECSSSCCEECHHHHHHHSTTC--SSCCCTTTCSCCCS
T ss_pred             CCCCccchhhccCCCCcCcchhh-HcccC--CccCCCCchhhHHHHHHHHHhc--CCCCCCCCcCcCCC
Confidence            34455666777788899999999 65543  3444799999999999999765  33789999988753

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

Probab=99.42  E-value=4.4e-13  Score=72.49  Aligned_cols=49  Identities=35%  Similarity=0.737  Sum_probs=37.5

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      ....+...|+||++ .+. .+  ..++|||.||..||..|+... .....||+|
T Consensus        15 ~~~~~~~~C~IC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~-~~~~~CP~C   63 (63)
T 2ysj_A           15 NKLQEEVICPICLD-ILQ-KP--VTIDCGHNFCLKCITQIGETS-CGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCBCTTTCS-BCS-SC--EECTTSSEECHHHHHHHHHHC-SSCCCCSCC
T ss_pred             HhCccCCCCCcCCc-hhC-Ce--EEeCCCCcchHHHHHHHHHcC-CCCCcCcCC
Confidence            34467889999999 444 33  345999999999999999863 234789998

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

Probab=99.42  E-value=3.2e-13  Score=78.12  Aligned_cols=52  Identities=23%  Similarity=0.595  Sum_probs=41.1

Q ss_pred             CCCCCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ....+...|+||++ .+. .+  ..++ |||.||..||..|+...  +...||+||..+
T Consensus         8 ~~~~~~~~C~IC~~-~~~-~p--~~~~~CgH~fC~~Ci~~~~~~~--~~~~CP~Cr~~~   60 (92)
T 3ztg_A            8 DPIPDELLCLICKD-IMT-DA--VVIPCCGNSYCDECIRTALLES--DEHTCPTCHQND   60 (92)
T ss_dssp             CCCCTTTEETTTTE-ECS-SC--EECTTTCCEECHHHHHHHHHHC--TTCCCTTTCCSS
T ss_pred             ccCCcCCCCCCCCh-hhc-Cc--eECCCCCCHHHHHHHHHHHHhc--CCCcCcCCCCcC
Confidence            34467789999999 444 44  3458 99999999999999865  236899999987

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

Probab=99.40  E-value=6.7e-14  Score=78.76  Aligned_cols=58  Identities=31%  Similarity=0.709  Sum_probs=43.4

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc---CCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER---LGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~---~~~~~~CP~Cr~~~~~~~   77 (103)
                      ....+...|+||++ .+.. +.  .++|||.||..|+..|+...   ..+...||+||..+....
T Consensus         7 ~~~~~~~~C~IC~~-~~~~-p~--~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A            7 GNVQEEVTCPICLE-LLTE-PL--SLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCCCCEETTTTE-ECSS-CC--CCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             hhcccCCCCcCCCc-ccCC-ee--ECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            33467789999999 5443 33  35899999999999998763   123479999999887644

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

Probab=99.39  E-value=4.9e-13  Score=72.77  Aligned_cols=56  Identities=20%  Similarity=0.574  Sum_probs=40.8

Q ss_pred             CccccccccccccCCCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           20 EEAECAICLEKEYSDES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ++..|+||++..+.... ....++|||.||..|+..|+...   ...||+||..+...++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---AGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTT---SSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcC---CCcCCCCCCccccccc
Confidence            46789999992222222 22446899999999999997654   2689999998876554

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

Probab=99.38  E-value=1.2e-13  Score=85.59  Aligned_cols=49  Identities=31%  Similarity=0.887  Sum_probs=40.0

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ++..|+||++ .+. .+  ..++|||.||..||..|+...    .+||+||..+...
T Consensus        52 ~~~~C~iC~~-~~~-~~--~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSE-YFI-EA--VTLNCAHSFCSYCINEWMKRK----IECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCS-BCS-SE--EEETTSCEEEHHHHHHHTTTC----SBCTTTCCBCCCE
T ss_pred             ccCCCcccCc-ccC-Cc--eECCCCCCccHHHHHHHHHcC----CcCCCCCCcCCCC
Confidence            4568999999 443 33  445999999999999999877    8999999998654

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

Probab=99.38  E-value=4.1e-13  Score=71.31  Aligned_cols=53  Identities=34%  Similarity=0.840  Sum_probs=38.5

Q ss_pred             CCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           12 GQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        12 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      +.......+...|+||++ .+.. +  ..++|+|.||..||..|+... .....||+|
T Consensus         6 ~~~~~~~~~~~~C~IC~~-~~~~-p--~~~~CgH~fC~~Ci~~~~~~~-~~~~~CP~C   58 (58)
T 2ecj_A            6 SGALENLQVEASCSVCLE-YLKE-P--VIIECGHNFCKACITRWWEDL-ERDFPCPVC   58 (58)
T ss_dssp             SSCSSCSCCCCBCSSSCC-BCSS-C--CCCSSCCCCCHHHHHHHTTSS-CCSCCCSCC
T ss_pred             hhHhhccccCCCCccCCc-ccCc-c--EeCCCCCccCHHHHHHHHHhc-CCCCCCCCC
Confidence            334444567889999999 5443 3  335899999999999997642 134789998

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

Probab=99.38  E-value=4.1e-13  Score=75.48  Aligned_cols=53  Identities=19%  Similarity=0.367  Sum_probs=41.4

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ..+...|+||++ . ...+.  .++|||.||..||..|+...   ..+||+||..+....
T Consensus         5 ~~~~~~C~IC~~-~-~~~Pv--~~~CgH~fc~~Ci~~~~~~~---~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            5 FPEYFRCPISLE-L-MKDPV--IVSTGQTYERSSIQKWLDAG---HKTCPKSQETLLHAG   57 (78)
T ss_dssp             CSSSSSCTTTSC-C-CSSEE--EETTTEEEEHHHHHHHHTTT---CCBCTTTCCBCSSCC
T ss_pred             CcccCCCCCccc-c-ccCCE--EcCCCCeecHHHHHHHHHHC---cCCCCCCcCCCChhh
Confidence            356789999999 4 34433  34899999999999999752   278999999886543

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

Probab=99.36  E-value=7.4e-13  Score=74.87  Aligned_cols=57  Identities=18%  Similarity=0.436  Sum_probs=41.7

Q ss_pred             CCCccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           18 TDEEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ..++..|+||++ .+... ..+..++|||.||..|+..++...   ...||.||..+....+
T Consensus         8 ~~~~~~CpICle-~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~---~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            8 KEDPVECPLCME-PLEIDDINFFPCTCGYQICRFCWHRIRTDE---NGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCCBCTTTCC-BCCTTTTTCCSSTTSCCCCHHHHHHHTTSS---CSBCTTTCCBCSSCSS
T ss_pred             cccCCcCCccCc-cCccccccccccCCCCCcCHHHHHHHHhcC---CCCCCCCCCccCCCch
Confidence            467789999999 55432 233323499999999999987532   3789999998876544

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

Probab=99.34  E-value=3.2e-13  Score=82.39  Aligned_cols=55  Identities=24%  Similarity=0.739  Sum_probs=44.4

Q ss_pred             CCccccccccccccCCC----CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           19 DEEAECAICLEKEYSDE----SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      .+...|+||++ .+...    ..+..++|||.||..||..|+..+    .+||+||..+.....
T Consensus         5 ~~~~~C~IC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            5 SGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKRY   63 (133)
T ss_dssp             CCSCBCTTTCC-BHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTC----SBCTTTCCBCTTTCE
T ss_pred             CCCCCCcccCh-hhhCccccccCeEecCCCChhhHHHHHHHHHhC----CCCCCCCCcCccccc
Confidence            46789999999 55432    334667999999999999999887    799999998876554

>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=99.33  E-value=3.2e-13  Score=79.51  Aligned_cols=53  Identities=32%  Similarity=0.724  Sum_probs=41.3

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      .+...|+||++ .+.. + +..++|||.||..||..|+....   ..||+||..+....
T Consensus        20 ~~~~~C~IC~~-~~~~-p-~~~~~CgH~FC~~Ci~~~~~~~~---~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           20 AEVFRCFICME-KLRD-A-RLCPHCSKLCCFSCIRRWLTEQR---AQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHHTBCTTTCS-BCSS-E-EECTTTCCEEEHHHHHHHHHHTC---SBCTTTCCBCCGGG
T ss_pred             CCCCCCccCCc-cccC-c-cccCCCCChhhHHHHHHHHHHCc---CCCCCCCCcCCHHH
Confidence            46788999999 5433 2 23268999999999999998762   58999999886433

>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=99.33  E-value=1.2e-13  Score=83.02  Aligned_cols=56  Identities=25%  Similarity=0.620  Sum_probs=42.6

Q ss_pred             CCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           12 GQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        12 ~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ........++..|+||++ .+. .+  ..++|||.||..||..|+...   ...||+||..+.
T Consensus         6 ~~~~~~~~~~~~C~iC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~   61 (115)
T 3l11_A            6 PKDAIPSLSECQCGICME-ILV-EP--VTLPCNHTLCKPCFQSTVEKA---SLCCPFCRRRVS   61 (115)
T ss_dssp             CTTCCCCHHHHBCTTTCS-BCS-SC--EECTTSCEECHHHHCCCCCTT---TSBCTTTCCBCH
T ss_pred             cccccCCCCCCCCccCCc-ccC-ce--eEcCCCCHHhHHHHHHHHhHC---cCCCCCCCcccC
Confidence            333445567889999999 443 33  345999999999999998653   278999999875

>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=99.31  E-value=2.1e-13  Score=82.58  Aligned_cols=50  Identities=32%  Similarity=0.669  Sum_probs=1.0

Q ss_pred             CccccccccccccCCCC---------------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDES---------------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~---------------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ++..|+||++ .+....               .+..++|+|.||..||..|+..+    .+||+||..+.
T Consensus        47 ~~d~CaICl~-~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~----~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRN-HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVCPLDNREWE  111 (117)
T ss_dssp             CC--------------------------------------------------------------------
T ss_pred             CCCcCeECCh-hhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcC----CcCCCCCCeee
Confidence            4578999999 654311               22334799999999999999987    89999999864

>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=99.30  E-value=2.6e-12  Score=75.75  Aligned_cols=54  Identities=11%  Similarity=0.071  Sum_probs=43.4

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ..+.+.||||++  +...+++.  +|||.|+..||..|+...    .+||+||..+....+.
T Consensus        26 ~p~~~~CpI~~~--~m~dPV~~--~cGhtf~r~~I~~~l~~~----~~cP~~~~~l~~~~L~   79 (100)
T 2kre_A           26 APDEFRDPLMDT--LMTDPVRL--PSGTIMDRSIILRHLLNS----PTDPFNRQTLTESMLE   79 (100)
T ss_dssp             CSTTTBCTTTCS--BCSSEEEE--TTTEEEEHHHHHHHTTSC----SBCSSSCCBCCTTSSE
T ss_pred             CcHhhCCcCccC--cccCCeEC--CCCCEEchHHHHHHHHcC----CCCCCCCCCCChhhce
Confidence            356789999999  55555444  899999999999999865    7999999988765443

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

Probab=99.30  E-value=7.9e-13  Score=77.52  Aligned_cols=51  Identities=35%  Similarity=0.767  Sum_probs=40.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .+...|+||++ .+.. + +..++|||.||..|+..|+...    ..||+||..+...
T Consensus        20 ~~~~~C~IC~~-~~~~-p-~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~   70 (99)
T 2y43_A           20 DDLLRCGICFE-YFNI-A-MIIPQCSHNYCSLCIRKFLSYK----TQCPTCCVTVTEP   70 (99)
T ss_dssp             HHHTBCTTTCS-BCSS-E-EECTTTCCEEEHHHHHHHHTTC----CBCTTTCCBCCGG
T ss_pred             CCCCCcccCCh-hhCC-c-CEECCCCCHhhHHHHHHHHHCC----CCCCCCCCcCChh
Confidence            45678999999 5443 2 2334899999999999999876    7999999988653

>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=99.29  E-value=1.4e-12  Score=82.84  Aligned_cols=51  Identities=33%  Similarity=0.689  Sum_probs=39.7

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .+...|+||++ .+..  .+..++|||.||..||..|+...   ...||+||..+..
T Consensus        52 ~~~~~C~IC~~-~~~~--p~~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           52 HSELMCPICLD-MLKN--TMTTKECLHRFCADCIITALRSG---NKECPTCRKKLVS  102 (165)
T ss_dssp             HHHHBCTTTSS-BCSS--EEEETTTCCEEEHHHHHHHHHTT---CCBCTTTCCBCCS
T ss_pred             CCCCCCcccCh-HhhC--cCEeCCCCChhHHHHHHHHHHhC---cCCCCCCCCcCCC
Confidence            45668999999 5443  23445899999999999999863   2789999998853

>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=99.29  E-value=1.5e-12  Score=77.42  Aligned_cols=51  Identities=29%  Similarity=0.668  Sum_probs=41.3

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .+...|+||++ .+..  .+..++|||.||..||..|+...    ..||+||..+...
T Consensus        13 ~~~~~C~IC~~-~~~~--p~~~~~CgH~fC~~Ci~~~~~~~----~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           13 NPHLMCVLCGG-YFID--ATTIIECLHSFCKTCIVRYLETS----KYCPICDVQVHKT   63 (108)
T ss_dssp             GGGTBCTTTSS-BCSS--EEEETTTCCEEEHHHHHHHHTSC----SBCTTTCCBSCSS
T ss_pred             CCcCCCccCCh-HHhC--cCEeCCCCChhhHHHHHHHHHhC----CcCcCCCcccccc
Confidence            56789999999 5433  23334899999999999999877    8999999988754

>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=99.27  E-value=1.6e-12  Score=79.09  Aligned_cols=50  Identities=24%  Similarity=0.604  Sum_probs=39.7

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .+...|+||++ .+. .+  ..++|||.||..||..|+...   ...||+||..+..
T Consensus        50 ~~~~~C~IC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQE-LVF-RP--ITTVCQHNVCKDCLDRSFRAQ---VFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSS-BCS-SE--EECTTSCEEEHHHHHHHHHTT---CCBCTTTCCBCCT
T ss_pred             ccCCCCCcCCh-HHc-Cc--EEeeCCCcccHHHHHHHHhHC---cCCCCCCCccCCC
Confidence            45678999999 444 33  445999999999999999844   2589999998865

>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=99.27  E-value=4.7e-12  Score=74.43  Aligned_cols=53  Identities=11%  Similarity=0.040  Sum_probs=42.7

Q ss_pred             CCccccccccccccCCCCceEecCCC-chhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCS-HIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      .+.+.||||++  +...+++  ++|| |.|+..||..|+...    .+||+||..+....+.
T Consensus        20 p~~~~CpI~~~--~m~dPV~--~~cG~htf~r~cI~~~l~~~----~~cP~~~~~l~~~~L~   73 (98)
T 1wgm_A           20 CDEFLDPIMST--LMCDPVV--LPSSRVTVDRSTIARHLLSD----QTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             CTTTBCTTTCS--BCSSEEE--CTTTCCEEEHHHHHHHTTTS----CBCTTTCSBCCTTTSE
T ss_pred             cHhcCCcCccc--cccCCeE--CCCCCeEECHHHHHHHHHhC----CCCCCCCCCCChhhce
Confidence            56789999999  4555443  5899 999999999999875    7999999988755443

>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=99.26  E-value=2.4e-12  Score=76.74  Aligned_cols=54  Identities=31%  Similarity=0.693  Sum_probs=41.1

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      +...|+||++ .+. .+.  .++|||.||..|+..|+... .+...||+||..+....+
T Consensus        20 ~~~~C~IC~~-~~~-~p~--~~~CgH~fC~~Ci~~~~~~~-~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           20 KILECPICLE-LIK-EPV--STKCDHIFCKFCMLKLLNQK-KGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HHTSCSSSCC-CCS-SCC--BCTTSCCCCSHHHHHHHHSS-SSSCCCTTTSCCCCTTTC
T ss_pred             CCCCCcccCh-hhc-CeE--ECCCCCHHHHHHHHHHHHhC-CCCCCCcCCCCcCCHhhc
Confidence            4678999999 443 333  35899999999999999865 233689999998865443

>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=99.25  E-value=4.5e-12  Score=76.57  Aligned_cols=54  Identities=26%  Similarity=0.494  Sum_probs=42.5

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ....+...|+||++ .+. .+  ..++|||.||..||..|+....   ..||+||..+...
T Consensus        13 ~~~~~~~~C~IC~~-~~~-~p--~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~   66 (118)
T 3hct_A           13 PPLESKYECPICLM-ALR-EA--VQTPCGHRFCKACIIKSIRDAG---HKCPVDNEILLEN   66 (118)
T ss_dssp             SCCCGGGBCTTTCS-BCS-SE--EECTTSCEEEHHHHHHHHHHHC---SBCTTTCCBCCGG
T ss_pred             cCCCCCCCCCcCCh-hhc-Ce--EECCcCChhhHHHHHHHHhhCC---CCCCCCCCCcCHH
Confidence            34467889999999 443 33  4458999999999999998772   3899999988653

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

Probab=99.22  E-value=5.1e-12  Score=76.99  Aligned_cols=56  Identities=23%  Similarity=0.688  Sum_probs=44.4

Q ss_pred             CCCCccccccccccccCC----CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSD----ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~----~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ...+...|+||++ .+..    ......++|||.||..|+.+|+...    .+||+||..+....
T Consensus        68 i~~~~~~C~iC~~-~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           68 IGSGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHKR  127 (133)
T ss_dssp             CSSSSCBCTTTCC-BHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHC----SBCTTTCCBCCGGG
T ss_pred             cCCCCCCCCCCCC-ccccccccCcceEeCCCCChhhHHHHHHHHHcC----CCCCCCCCcCChhc
Confidence            3467788999999 5443    2233556899999999999999988    89999999886554

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

Probab=99.21  E-value=2.3e-11  Score=66.92  Aligned_cols=56  Identities=16%  Similarity=0.501  Sum_probs=41.8

Q ss_pred             ccCCCCCCCCCCCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125            8 ACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus         8 ~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      +.++........+...|+||++ .   ...+..+||+|. ||..|+..    .    ..||+||..+..
T Consensus         2 ~~~s~e~e~~~~~~~~C~IC~~-~---~~~~v~~pCgH~~~C~~C~~~----~----~~CP~CR~~i~~   58 (68)
T 2ea5_A            2 SSGSSGVEPSEENSKDCVVCQN-G---TVNWVLLPCRHTCLCDGCVKY----F----QQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCCCCCSCCCSSCCSSSSS-S---CCCCEETTTTBCCSCTTHHHH----C----SSCTTTCCCCCC
T ss_pred             CCccccccccCCCCCCCCCcCc-C---CCCEEEECCCChhhhHHHHhc----C----CCCCCCCcchhc
Confidence            3444555556667889999999 3   334567799999 99999973    3    689999998753

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

Probab=99.20  E-value=1.2e-11  Score=70.78  Aligned_cols=51  Identities=10%  Similarity=0.077  Sum_probs=41.6

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ..+.+.|+||++  +...++  .++|||.|+..||..|+...    .+||+|+..+...
T Consensus        11 ~p~~~~CpI~~~--~m~dPV--~~~cGhtf~r~~I~~~l~~~----~~cP~~~~~l~~~   61 (85)
T 2kr4_A           11 APDEFRDPLMDT--LMTDPV--RLPSGTVMDRSIILRHLLNS----PTDPFNRQMLTES   61 (85)
T ss_dssp             CCTTTBCTTTCS--BCSSEE--ECTTSCEEEHHHHHHHHHHC----SBCTTTCCBCCGG
T ss_pred             CchheECcccCc--hhcCCe--ECCCCCEECHHHHHHHHhcC----CCCCCCcCCCChH
Confidence            357889999999  445544  34899999999999999976    7999999987643

>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=99.19  E-value=7.2e-12  Score=78.74  Aligned_cols=50  Identities=20%  Similarity=0.530  Sum_probs=39.9

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      +...|+||++ .+ ..+  ..++|||.||..||..|+...   ...||+||..+...
T Consensus        77 ~~~~C~IC~~-~~-~~p--v~~~CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQE-LV-YQP--VTTECFHNVCKDCLQRSFKAQ---VFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSS-BC-SSE--EECTTSCEEEHHHHHHHHHTT---CCBCTTTCCBCCTT
T ss_pred             cCCEeecCCh-hh-cCC--EEcCCCCchhHHHHHHHHHhC---CCcCCCCCccCCCC
Confidence            5678999999 44 333  336999999999999999864   25899999998755

>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=99.19  E-value=1.4e-11  Score=67.06  Aligned_cols=48  Identities=19%  Similarity=0.412  Sum_probs=38.0

Q ss_pred             CCccccccccccccCCCCceEec--CCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRM--QCSHI-FHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~--~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .++..|+||++ ..   .....+  ||||. ||..|+..|....    ..||+||..+.
T Consensus         6 ~~~~~C~IC~~-~~---~~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQG-RP---KNGCIVHGKTGHLMACFTCAKKLKKRN----KPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSS-SC---SCEEEEETTEEEEEECHHHHHHHHHTT----CCCTTTCCCCC
T ss_pred             CCcCCCCcCCC-CC---CCEEEECCCCCChhhHHHHHHHHHHcC----CcCCCcCcchh
Confidence            46678999999 32   223333  99999 8999999999866    78999999874

>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=99.18  E-value=6.4e-12  Score=75.54  Aligned_cols=51  Identities=24%  Similarity=0.532  Sum_probs=40.2

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .+...|+||++ .+ ..+  ..++|||.||..||..|+....   ..||+||..+...
T Consensus        21 ~~~~~C~IC~~-~~-~~p--~~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~   71 (116)
T 1rmd_A           21 VKSISCQICEH-IL-ADP--VETSCKHLFCRICILRCLKVMG---SYCPSCRYPCFPT   71 (116)
T ss_dssp             HHHTBCTTTCS-BC-SSE--EECTTSCEEEHHHHHHHHHHTC---SBCTTTCCBCCGG
T ss_pred             cCCCCCCCCCc-Hh-cCc--EEcCCCCcccHHHHHHHHhHCc---CcCCCCCCCCCHh
Confidence            45778999999 44 333  3369999999999999998731   6899999988643

>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=1.2e-11  Score=67.04  Aligned_cols=51  Identities=16%  Similarity=0.469  Sum_probs=38.7

Q ss_pred             CCCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ......|+||++ .. ....+..+||||. ||..|+..|....    ..||+||..+.
T Consensus         4 ~~~~~~C~IC~~-~~-~~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CPiCR~~i~   55 (63)
T 2vje_B            4 QNLLKPCSLCEK-RP-RDGNIIHGRTGHLVTCFHCARRLKKAG----ASCPICKKEIQ   55 (63)
T ss_dssp             GGGGSBCTTTSS-SB-SCEEEEETTEEEEEECHHHHHHHHHTT----CBCTTTCCBCC
T ss_pred             CCcCCCCcccCC-cC-CCeEEEecCCCCHhHHHHHHHHHHHhC----CcCCCcCchhh
Confidence            345678999999 32 2222333499998 9999999998766    78999999874

>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=99.07  E-value=1.1e-10  Score=82.97  Aligned_cols=48  Identities=27%  Similarity=0.681  Sum_probs=38.0

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      ...|+||++ .+ .  ....++|||.||..|+..|+...   ...||+||..+..
T Consensus       332 ~~~C~ICle-~~-~--~pv~lpCGH~FC~~Ci~~wl~~~---~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAE-ND-K--DVKIEPCGHLMCTSCLTSWQESE---GQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSS-SB-C--CEEEETTCCEECHHHHHHHHHHT---CSBCTTTCCBCCE
T ss_pred             CCCCCccCc-CC-C--CeEEeCCCChhhHHHHHHHHhcC---CCCCCCCCCccCC
Confidence            368999999 43 2  24556999999999999999842   1789999998764

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

Probab=99.07  E-value=2.2e-11  Score=64.51  Aligned_cols=47  Identities=23%  Similarity=0.530  Sum_probs=36.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      .+...|+||++ .+.. +  ..++|||.||..|+..|   .    ..||+||..+..+
T Consensus         4 ~~~~~C~IC~~-~~~~-p--~~l~CgH~fC~~Ci~~~---~----~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQA-EAKC-P--KLLPCLHTLCSGCLEAS---G----MQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCS-SCBC-C--SCSTTSCCSBTTTCSSS---S----SSCSSCCSSSSCC
T ss_pred             ccCCCceEeCC-ccCC-e--EEcCCCCcccHHHHccC---C----CCCCcCCcEeecC
Confidence            56788999999 5443 3  34589999999998761   2    6899999988654

>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=99.06  E-value=7.4e-11  Score=75.15  Aligned_cols=54  Identities=26%  Similarity=0.493  Sum_probs=42.5

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ....+.+.|+||++ .+ ..+  ..++|||.||..||..|+....   ..||+||..+...
T Consensus        13 ~~~~~~~~C~IC~~-~~-~~p--v~~~CgH~fC~~Ci~~~~~~~~---~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           13 PPLESKYECPICLM-AL-REA--VQTPCGHRFCKACIIKSIRDAG---HKCPVDNEILLEN   66 (170)
T ss_dssp             SCCCGGGBCTTTCS-BC-SSE--EECTTSCEEEHHHHHHHHHHHC---SBCTTTCCBCCGG
T ss_pred             cCCCCCCCCCCCCh-hh-cCc--EECCCCCHHHHHHHHHHHHhCC---CCCCCCccCcchh
Confidence            34477889999999 44 333  3458999999999999998762   4899999988653

>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=99.06  E-value=7.8e-11  Score=68.55  Aligned_cols=54  Identities=24%  Similarity=0.494  Sum_probs=40.1

Q ss_pred             CCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhcC--CCCCCCCC--CCCC-CCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEERL--GKSCACPV--CPFQ-MPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~~--~~~~~CP~--Cr~~-~~~~   76 (103)
                      .+.+.||||++  +...+++  ++ |||.|+..||..|+....  .+..+||+  |+.. +...
T Consensus         5 ~~~~~CPI~~~--~~~dPV~--~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~   64 (94)
T 2yu4_A            5 SSGFTCPITKE--EMKKPVK--NKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKS   64 (94)
T ss_dssp             SSCCBCTTTCS--BCSSEEE--ESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGG
T ss_pred             CcEeECcCcCc--hhcCCEE--cCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHh
Confidence            56789999999  4444433  45 999999999999997641  23469999  9866 5433

>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=99.02  E-value=1.5e-10  Score=78.15  Aligned_cols=55  Identities=13%  Similarity=0.071  Sum_probs=42.4

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      ......+.|+||++  +...+++  ++|||+||..||..|+....   .+||+||.++....
T Consensus       203 ~~~~~~~~c~i~~~--~~~dPv~--~~~gh~f~~~~i~~~~~~~~---~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          203 RDIPDYLCGKISFE--LMREPCI--TPSGITYDRKDIEEHLQRVG---HFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CCCCSTTBCTTTCS--BCSSEEE--CSSCCEEETTHHHHHHHHTC---SSCTTTCCCCCGGG
T ss_pred             CCCCcccCCcCcCC--HhcCCeE--CCCCCEECHHHHHHHHHHCC---CCCcCCCCCCchhc
Confidence            34457889999999  4555443  48999999999999998751   45999999886433

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

Probab=99.02  E-value=6.9e-11  Score=65.90  Aligned_cols=44  Identities=25%  Similarity=0.655  Sum_probs=34.7

Q ss_pred             CCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .++..|+||++ .+ ..  ...++|||. ||..|+..|        ..||+||..+.
T Consensus        22 ~~~~~C~iC~~-~~-~~--~~~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~   66 (74)
T 4ic3_A           22 QEEKLCKICMD-RN-IA--IVFVPCGHLVTCKQCAEAV--------DKCPMCYTVIT   66 (74)
T ss_dssp             HHHTBCTTTSS-SB-CC--EEEETTCCBCCCHHHHTTC--------SBCTTTCCBCS
T ss_pred             ccCCCCCCCCC-CC-CC--EEEcCCCChhHHHHhhhcC--------ccCCCcCcCcc
Confidence            34678999999 33 22  455699999 999999876        47999999875

>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=99.01  E-value=2.6e-11  Score=75.50  Aligned_cols=49  Identities=18%  Similarity=0.488  Sum_probs=38.8

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+.+.|+||++ .+ ..+  ..++|||.||..||..|+...   ...||+||..+.
T Consensus        29 ~~~~~C~IC~~-~~-~~p--v~~~CgH~FC~~Ci~~~~~~~---~~~CP~Cr~~~~   77 (141)
T 3knv_A           29 EAKYLCSACRN-VL-RRP--FQAQCGHRYCSFCLASILSSG---PQNCAACVHEGI   77 (141)
T ss_dssp             CGGGBCTTTCS-BC-SSE--EECTTSCEEEHHHHHHHGGGS---CEECHHHHHTTC
T ss_pred             CcCcCCCCCCh-hh-cCc--EECCCCCccCHHHHHHHHhcC---CCCCCCCCCccc
Confidence            56789999999 44 333  335899999999999999755   258999998764

>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=99.00  E-value=3.4e-11  Score=72.55  Aligned_cols=49  Identities=22%  Similarity=0.663  Sum_probs=38.3

Q ss_pred             CCccccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      .+...|+||++ .+.. +  ..+ +|||.||..||..|+.      ..||+||..+....
T Consensus        20 ~~~~~C~IC~~-~~~~-p--v~~~~CgH~fC~~Ci~~~~~------~~CP~Cr~~~~~~~   69 (117)
T 1jm7_B           20 EKLLRCSRCTN-ILRE-P--VCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQD   69 (117)
T ss_dssp             HHTTSCSSSCS-CCSS-C--BCCCSSSCCBCTTTGGGGTT------TBCSSSCCBCSCSS
T ss_pred             hhCCCCCCCCh-HhhC-c--cEeCCCCCHHHHHHHHHHhc------CCCcCCCCcCcccc
Confidence            56789999999 5433 2  334 8999999999999976      46999999885443

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.00  E-value=9.4e-11  Score=68.06  Aligned_cols=53  Identities=34%  Similarity=0.719  Sum_probs=38.9

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CC--CCCCCCC--CCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LG--KSCACPV--CPFQ   72 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~--~~~~CP~--Cr~~   72 (103)
                      .+..+|+||++ .+.....+...+|+|.||..|+..++..+  .+  ....||.  |+..
T Consensus         3 ~~~~~C~IC~~-~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLG-EYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCC-CCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCc-ccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            35678999999 54444333334799999999999998754  11  2358999  9887

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

Probab=98.97  E-value=3.2e-10  Score=63.28  Aligned_cols=44  Identities=25%  Similarity=0.668  Sum_probs=33.6

Q ss_pred             CccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      +...|+||++ .+ ..  ...++|||. ||..|+..    .    ..||+||..+..
T Consensus        24 ~~~~C~IC~~-~~-~~--~~~~pCgH~~~C~~C~~~----~----~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMD-RN-IA--IVFVPCGHLVTCKQCAEA----V----DKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCS-SC-CC--BCCSSSCCCCBCHHHHHH----C----SBCTTTCCBCCC
T ss_pred             CCCCCCcCCC-CC-CC--EEEecCCCHHHHHHHhhC----C----CCCccCCceecC
Confidence            3567999999 43 22  345699999 99999953    2    689999998854

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

Probab=98.95  E-value=7.6e-10  Score=59.40  Aligned_cols=52  Identities=25%  Similarity=0.608  Sum_probs=38.5

Q ss_pred             CCCccccccccccccCCCCceEecCCC--c---hhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCS--H---IFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~--H---~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .++...|.||++ .. .++ + .+||.  +   .||..||.+|+..+  +..+||+|+..+..
T Consensus         3 ~~~~~~CrIC~~-~~-~~~-l-~~PC~C~gs~~~~H~~Cl~~W~~~~--~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            3 DEDVPVCWICNE-EL-GNE-R-FRACGCTGELENVHRSCLSTWLTIS--RNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTE-EC-SCC-C-CCSCCCSSGGGSCCHHHHHHHHHHH--TCSBCTTTCCBCCC
T ss_pred             CCCCCEeEEeec-CC-CCc-e-ecCcCCCCchhhhHHHHHHHHHHhC--CCCccCCCCCeeec
Confidence            356678999999 42 222 2 46854  4   89999999999875  33799999988753

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

Probab=98.85  E-value=1.3e-09  Score=70.25  Aligned_cols=54  Identities=13%  Similarity=0.091  Sum_probs=42.1

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ..+.+.||||++  +...+++  ++|||+|+..||..|+...  + .+||+|+.++....+
T Consensus       103 ip~~f~CPI~~e--lm~DPV~--~~~Ghtfer~~I~~~l~~~--~-~tcP~t~~~l~~~~L  156 (179)
T 2f42_A          103 IPDYLCGKISFE--LMREPCI--TPSGITYDRKDIEEHLQRV--G-HFDPVTRSPLTQDQL  156 (179)
T ss_dssp             CCGGGBCTTTCS--BCSSEEE--CTTSCEEEHHHHHHHHHHT--C-SBCTTTCCBCCGGGC
T ss_pred             CcHhhcccCccc--cCCCCeE--CCCCCEECHHHHHHHHHhC--C-CCCCCCcCCCChhhC
Confidence            367889999999  4455444  4999999999999999875  1 379999998865433

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

Probab=98.82  E-value=8.5e-10  Score=77.24  Aligned_cols=57  Identities=25%  Similarity=0.617  Sum_probs=40.3

Q ss_pred             CCccccccccccccCCCCce---E--ecCCCchhhHHHHHHHHHhcCC-------CCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAM---I--RMQCSHIFHADCITPWLEERLG-------KSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~---~--~~~C~H~f~~~Cl~~~~~~~~~-------~~~~CP~Cr~~~~~~   76 (103)
                      +...+|+||++ .+.....+   .  ..+|+|.||..||.+|+++...       -...||+||.++...
T Consensus       306 e~~~ECaICys-~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFA-YRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCC-SSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccce-eecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            56778999999 65542211   1  1369999999999999986411       114699999987543

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

Probab=98.82  E-value=1.2e-09  Score=74.04  Aligned_cols=58  Identities=24%  Similarity=0.509  Sum_probs=43.4

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC--CCCCCCCCChh
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV--CPFQMPLPSFE   79 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~--Cr~~~~~~~~~   79 (103)
                      .......||||++  +...++ ....|||.|+..||..|+...  +...||+  |+..+...++.
T Consensus       177 ~~~~el~CPIcl~--~f~DPV-ts~~CGHsFcR~cI~~~~~~~--~~~~CPvtGCr~~l~~~dL~  236 (267)
T 3htk_C          177 GGKIELTCPITCK--PYEAPL-ISRKCNHVFDRDGIQNYLQGY--TTRDCPQAACSQVVSMRDFV  236 (267)
T ss_dssp             SSBCCSBCTTTSS--BCSSEE-EESSSCCEEEHHHHHHHSTTC--SCEECSGGGCSCEECGGGEE
T ss_pred             CCceeeECcCccC--cccCCe-eeCCCCCcccHHHHHHHHHhC--CCCCCCcccccCcCchhhCC
Confidence            3467788999999  444443 334799999999999999754  3468999  99987654443

>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=98.81  E-value=1.1e-09  Score=61.74  Aligned_cols=45  Identities=29%  Similarity=0.613  Sum_probs=34.5

Q ss_pred             CCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .+...|+||++ .   ...+..+||||. ||..|+..|        ..||+||..+..
T Consensus        16 ~~~~~C~IC~~-~---~~~~v~~pCgH~~~C~~C~~~~--------~~CP~Cr~~i~~   61 (79)
T 2yho_A           16 KEAMLCMVCCE-E---EINSTFCPCGHTVCCESCAAQL--------QSCPVCRSRVEH   61 (79)
T ss_dssp             HHHTBCTTTSS-S---BCCEEEETTCBCCBCHHHHTTC--------SBCTTTCCBCCE
T ss_pred             CCCCEeEEeCc-c---cCcEEEECCCCHHHHHHHHHhc--------CcCCCCCchhhC
Confidence            34568999999 3   233456699999 999998754        479999998753

>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=98.59  E-value=8.4e-09  Score=72.48  Aligned_cols=43  Identities=23%  Similarity=0.735  Sum_probs=34.2

Q ss_pred             CccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ++..|+||++ .+ ..  ...+||||. ||..|+..|        ..||+||..+.
T Consensus       294 ~~~~C~IC~~-~~-~~--~v~lpCgH~~fC~~C~~~~--------~~CP~CR~~i~  337 (345)
T 3t6p_A          294 EERTCKVCMD-KE-VS--VVFIPCGHLVVCQECAPSL--------RKCPICRGIIK  337 (345)
T ss_dssp             TTCBCTTTSS-SB-CC--EEEETTCCEEECTTTGGGC--------SBCTTTCCBCC
T ss_pred             CCCCCCccCC-cC-Cc--eEEcCCCChhHhHHHHhcC--------CcCCCCCCCcc
Confidence            4678999999 33 32  455699999 999999865        47999999875

>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=98.36  E-value=2.5e-07  Score=49.56  Aligned_cols=52  Identities=12%  Similarity=0.237  Sum_probs=39.3

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      .+.|+|+++ .+ .++ +...++||.|...||.+|+...    .+||+.+..+...++.
T Consensus         3 ~~~CpIs~~-~m-~dP-V~~~~sG~~yer~~I~~~l~~~----~~cP~t~~~L~~~~Li   54 (61)
T 2bay_A            3 HMLCAISGK-VP-RRP-VLSPKSRTIFEKSLLEQYVKDT----GNDPITNEPLSIEEIV   54 (61)
T ss_dssp             -CCCTTTCS-CC-SSE-EEETTTTEEEEHHHHHHHHHHH----SBCTTTCCBCCGGGCE
T ss_pred             eEEecCCCC-CC-CCC-EEeCCCCcEEcHHHHHHHHHhC----CCCcCCcCCCChhhcE
Confidence            368999999 43 333 2222799999999999999887    6799999888655443

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

Probab=98.31  E-value=5.2e-07  Score=52.58  Aligned_cols=46  Identities=22%  Similarity=0.365  Sum_probs=33.9

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .|++|--   ......+.+||+|.||..|+..|.....   ..||.|+.++.
T Consensus         3 fC~~C~~---Pi~iygRmIPCkHvFCydCa~~~~~~~~---k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGL---PIKVYGRMIPCKHVFCYDCAILHEKKGD---KMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCS---BCSEEEEEETTCCEEEHHHHHHHHHTTC---CBCTTTCCBCS
T ss_pred             ecCccCC---CeEEEeeeccccccHHHHHHHHHHhccC---CCCcCcCCeee
Confidence            4666665   2222345669999999999999886542   78999998774

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

Probab=98.15  E-value=2.4e-06  Score=57.25  Aligned_cols=53  Identities=21%  Similarity=0.447  Sum_probs=40.8

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      +....|.||.+ ....+  ..+..|++.||..|+..|++..  +...||.|+..++..
T Consensus       178 ~~i~~C~iC~~-iv~~g--~~C~~C~~~~H~~C~~~~~~~~--~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          178 DAVKICNICHS-LLIQG--QSCETCGIRMHLPCVAKYFQSN--AEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TTCCBCTTTCS-BCSSC--EECSSSCCEECHHHHHHHTTTC--SSCBCTTTCCBCCSC
T ss_pred             CCCCcCcchhh-HHhCC--cccCccChHHHHHHHHHHHHhC--CCCCCCCCCCCCCCC
Confidence            35778999999 54433  4444599999999999999765  336899999987644

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

Probab=97.70  E-value=4.3e-05  Score=41.39  Aligned_cols=52  Identities=23%  Similarity=0.496  Sum_probs=39.2

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ......|.||.+    .+..+..-.|...||..|+..-+...+.+...||.|....
T Consensus         9 ~~~~~~C~vC~~----~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C            9 LAPGARCGVCGD----GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CCTTCCCTTTSC----CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCCcCCCCC----CCeEEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            345678999988    4455555569999999999887766555678999997643

>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=97.53  E-value=0.00013  Score=41.17  Aligned_cols=57  Identities=18%  Similarity=0.425  Sum_probs=38.1

Q ss_pred             CCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHH------------HhcCCCCCCCCCCCC
Q 034125           13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL------------EERLGKSCACPVCPF   71 (103)
Q Consensus        13 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~------------~~~~~~~~~CP~Cr~   71 (103)
                      ........+..|.||-.  +........--|+-+||..||.+.-            ..+.....+||.|..
T Consensus         7 ~~~e~~~~D~~C~VC~~--~t~~~l~pCRvC~RvfH~~CL~r~gy~~~~~a~e~~l~A~T~~GWSC~~Cen   75 (89)
T 1wil_A            7 GPREPVVNDEMCDVCEV--WTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDN   75 (89)
T ss_dssp             CSCCCCCCSCCCTTTCC--CCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCC
T ss_pred             CcccCCCCCcccCcccc--ccccceeccccccccccHhhcccccccccHHHHHHHHccCCCCCccccccch
Confidence            33444457889999987  4444443333589999999999862            111235688999954

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

Probab=97.10  E-value=0.00039  Score=40.13  Aligned_cols=35  Identities=14%  Similarity=0.494  Sum_probs=28.3

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHH
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPW   55 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~   55 (103)
                      ++..|+||.+ .+........+.|+|.||..|+..+
T Consensus         2 ee~~C~~C~~-~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQ-DPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCS-SSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCC-CCCCCceEECCcCChHHhHHHCHHH
Confidence            4578999997 5556666666899999999999974

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=96.97  E-value=0.00037  Score=39.74  Aligned_cols=55  Identities=25%  Similarity=0.593  Sum_probs=40.0

Q ss_pred             CCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125           14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ   72 (103)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~   72 (103)
                      ......++..|.||..    .+..+..-.|...||..|+.+-+...+.+...||.|+..
T Consensus        18 ~~~~d~n~~~C~vC~~----~g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           18 FGTLDDSATICRVCQK----PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             CCSSSSSSSCCSSSCS----SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             ccccCCCCCcCcCcCC----CCCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            3344467778999998    345555446888999999987665545567899999764

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=96.60  E-value=0.00038  Score=36.96  Aligned_cols=53  Identities=21%  Similarity=0.506  Sum_probs=37.3

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ...++..|.||.+    .+..+..-.|...||..|+.+-+.....+...||.|+...
T Consensus         5 ~d~~~~~C~vC~~----~g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            5 SDHHMEFCRVCKD----GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCSSCTTTCC----CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             ccCCCCcCCCCCC----CCCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            3456778999988    3444444458889999999865544444668999997643

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

Probab=96.44  E-value=0.00083  Score=35.60  Aligned_cols=50  Identities=24%  Similarity=0.634  Sum_probs=36.4

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ...+..|.||..    .+..+..-.|...||..|+..-+...+.+...||.|+.
T Consensus         8 ~~~~~~C~vC~~----~g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            8 TDHQDYCEVCQQ----GGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SCCCSSCTTTSC----CSSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCCccCCC----CCcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            356678999998    34545544688899999998755444456689999954

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=96.44  E-value=0.0013  Score=33.43  Aligned_cols=48  Identities=27%  Similarity=0.650  Sum_probs=32.7

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .|.||.. ....+..+..-.|...||..|+.+-+...+.+...||.|+.
T Consensus         2 ~C~vC~~-~~~~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRK-KGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCC-SSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCC-CCCCCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            5888987 32233444444688999999997644444445688999965

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

Probab=96.15  E-value=0.0016  Score=35.71  Aligned_cols=55  Identities=15%  Similarity=0.295  Sum_probs=34.9

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..+...|+||.. .......+..=.|...||..|+..-..........||.|+..+
T Consensus        15 ~~~~~~C~~C~~-~~~~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           15 GNQIWICPGCNK-PDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             SCEEECBTTTTB-CCSSCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             CCCCcCCCCCCC-CCCCCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            355667999998 3222234443458899999999754332222458899996543

>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=96.12  E-value=0.027  Score=31.44  Aligned_cols=43  Identities=21%  Similarity=0.286  Sum_probs=30.3

Q ss_pred             CCCCCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhc
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEER   59 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~   59 (103)
                      ........|.+|.+ .+.....+..-. =.|.||..|-+..++..
T Consensus        10 ~~~~a~l~CtlC~e-rLEdtHFVQCPsv~~HkFCFpCsr~sIk~q   53 (93)
T 2cs3_A           10 MANSGPLCCTICHE-RLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   53 (93)
T ss_dssp             SCSCCSCCCSSSCS-CCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             CCCCCeeEeecchh-hhccCceeeCCCccCCeeeccccHHHHHhc
Confidence            33567789999999 544444444222 37999999999988765

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=95.94  E-value=0.0012  Score=42.22  Aligned_cols=51  Identities=24%  Similarity=0.507  Sum_probs=37.8

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .++..|.||..    .+..+..-.|...||..|+.+-+...+.+...||.|+...
T Consensus         2 ~~~~~C~~C~~----~g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            2 PNEDWCAVCQN----GGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             CSCSSCTTTCC----CSSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCccccCCC----CCeeeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            35677999998    4555555568999999998776555445668999998654

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.70  E-value=0.00033  Score=36.51  Aligned_cols=49  Identities=27%  Similarity=0.672  Sum_probs=33.9

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      ..++..|.||..    .+..+..-.|...||..|+.+-+...+.+...||.|.
T Consensus         6 ~~~~~~C~vC~~----~g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~   54 (56)
T 2yql_A            6 SGHEDFCSVCRK----SGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ   54 (56)
T ss_dssp             CSSCCSCSSSCC----SSCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHH
T ss_pred             CCCCCCCccCCC----CCeEEEcCCCCcceECccCCCCcCCCCCCceEChhhh
Confidence            456678999998    3455555568999999999764443334556787774

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=95.66  E-value=0.0013  Score=42.90  Aligned_cols=52  Identities=23%  Similarity=0.461  Sum_probs=37.5

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ...+..|.||..    .+..+..=.|...||..|+.+-+...+.+...||.|+..-
T Consensus         4 d~~~~~C~~C~~----~g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            4 DPNEDWCAVCQN----GGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             CSSCSSBTTTCC----CEEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCC----CCceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            345677999998    3444444458899999999776555445668999998643

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

Probab=95.29  E-value=0.027  Score=34.76  Aligned_cols=50  Identities=20%  Similarity=0.415  Sum_probs=37.2

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHh-------cCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEE-------RLGKSCACPVCPF   71 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~-------~~~~~~~CP~Cr~   71 (103)
                      +..+..|.||.+    .+..+..-.|...||..||.+-+..       .+.+...||.|+.
T Consensus        60 Dg~~d~C~vC~~----GG~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           60 DGMDEQCRWCAE----GGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TSCBCSCSSSCC----CSSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCeecccCC----CCcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            456778999999    5665555469999999999976531       2345689999964

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=95.21  E-value=0.0042  Score=36.51  Aligned_cols=52  Identities=19%  Similarity=0.427  Sum_probs=34.1

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      ..++..|.||.+ .-.....+..-.|...||..|+...+.........||.|+
T Consensus         4 ~~~~~~C~~C~~-~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            4 GSSGANCAVCDS-PGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCCSCBTTTCC-CCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCCcCCCC-CCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            356788999998 3222233555569999999999875532223456777764

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=95.00  E-value=0.0013  Score=35.40  Aligned_cols=50  Identities=28%  Similarity=0.616  Sum_probs=35.7

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ..++..|.||.+    .+..+..-.|...||..|+.+-+...+.+...||.|..
T Consensus         5 ~~~~~~C~vC~~----~g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            5 QKNEDECAVCRD----GGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             CSCCCSBSSSSC----CSSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCccCCC----CCCEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            356778999998    34555544688899999998644443445678999954

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=94.96  E-value=0.022  Score=30.97  Aligned_cols=50  Identities=26%  Similarity=0.536  Sum_probs=31.6

Q ss_pred             CCccccccccccccCCCCceEecC--CC-chhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ--CS-HIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~--C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .+...| ||.. . ..+..+..=.  |. ..||..|+.  +...+.+...||.|+...
T Consensus        14 ~~~~~C-~C~~-~-~~g~MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~~   66 (71)
T 1wen_A           14 NEPTYC-LCHQ-V-SYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   66 (71)
T ss_dssp             TSCCCS-TTCC-C-SCSSEECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSCS
T ss_pred             CCCCEE-ECCC-C-CCCCEeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCccc
Confidence            455667 8998 3 2344333223  54 589999997  333334668999997643

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=94.93  E-value=0.0035  Score=35.59  Aligned_cols=60  Identities=22%  Similarity=0.407  Sum_probs=37.7

Q ss_pred             CCCCCCCccccccccccccC-C-CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           14 RSNHTDEEAECAICLEKEYS-D-ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~-~-~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      +....+++..|.||.. ... . +..+..-.|.-.||..|+..-+  .+.+...||.|.......
T Consensus        18 ~~~~~~~~~~C~vC~~-~~s~~~~~ll~CD~C~~~fH~~Cl~p~~--vP~g~W~C~~C~~~~~~~   79 (88)
T 2l43_A           18 SQSLIDEDAVCSICMD-GESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCLQSRARP   79 (88)
T ss_dssp             TTCCCCCCCCCSSCCS-SSSCSEEEEEECSSSCCCCCHHHHTCSS--CCSSCCCCHHHHHHTTSC
T ss_pred             CCCcCCCCCcCCcCCC-CCCCCCCCEEECCCCCchhhcccCCCCc--cCCCceECccccCccchh
Confidence            3444567789999998 321 1 1233333588899999997532  234568899996544433

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.83  E-value=0.0013  Score=37.69  Aligned_cols=52  Identities=23%  Similarity=0.482  Sum_probs=34.7

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .+...|.||.. .......+..-.|...||..|+.+-+...+.+...||.|+.
T Consensus        14 ~~~~~C~vC~~-~~~~~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~   65 (92)
T 2e6r_A           14 IDSYICQVCSR-GDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL   65 (92)
T ss_dssp             CCCCCCSSSCC-SGGGGGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHH
T ss_pred             cCCCCCccCCC-cCCCCCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcC
Confidence            55668999998 32222344444588999999997544443445688999954

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=94.81  E-value=0.0015  Score=34.43  Aligned_cols=49  Identities=27%  Similarity=0.604  Sum_probs=34.7

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ..+..|.||..    .+..+..-.|...||..|+.+-+...+.+...||.|..
T Consensus         3 ~~~~~C~vC~~----~g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~   51 (60)
T 2puy_A            3 IHEDFCSVCRK----SGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   51 (60)
T ss_dssp             CCCSSCTTTCC----CSSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHH
T ss_pred             CCCCCCcCCCC----CCcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccC
Confidence            45678999998    34555555689999999998644443445678888843

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=94.69  E-value=0.048  Score=30.05  Aligned_cols=57  Identities=21%  Similarity=0.375  Sum_probs=35.7

Q ss_pred             CCCCCCccccccccccccC-CCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCCC
Q 034125           15 SNHTDEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQM   73 (103)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~~   73 (103)
                      .+...+...| ||.. .+. ....+..-.|...||..|+.--.... ......||.|+...
T Consensus         6 ~~~~~~~~~C-~C~~-~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A            6 SGMALVPVYC-LCRQ-PYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCCCCCCS-TTSC-SCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             cCccCCccEE-EcCC-ccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            3344555666 9988 332 34455555689999999986433221 12458999997654

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=94.63  E-value=0.0043  Score=39.97  Aligned_cols=49  Identities=27%  Similarity=0.644  Sum_probs=35.5

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      +..|.+|..    .+..+..-.|...||..|+.+-+...+.+...||.|+...
T Consensus         2 ~~~C~~C~~----~g~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~~   50 (189)
T 2ro1_A            2 ATICRVCQK----PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   50 (189)
T ss_dssp             CCCBTTTCC----CSSCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCSC
T ss_pred             CCcCccCCC----CCceeECCCCCchhccccCCCCcccCCCCCCCCcCccCCC
Confidence            457999998    3444555568899999999765544445668999997653

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=94.56  E-value=0.026  Score=32.19  Aligned_cols=49  Identities=27%  Similarity=0.532  Sum_probs=30.6

Q ss_pred             CccccccccccccCCCCceEecC--CC-chhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQ--CS-HIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~--C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      +...| ||.. . ..+..+..=.  |. ..||..|+.  +...+.+...||.|+...
T Consensus        35 e~~yC-iC~~-~-~~g~MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~~   86 (91)
T 1weu_A           35 EPTYC-LCHQ-V-SYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQES   86 (91)
T ss_dssp             CCBCS-TTCC-B-CCSCCCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCCC
T ss_pred             CCcEE-ECCC-C-CCCCEeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCcC
Confidence            44456 9998 3 2344433323  44 579999997  333334568999997654

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=94.52  E-value=0.072  Score=32.29  Aligned_cols=50  Identities=20%  Similarity=0.404  Sum_probs=35.4

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHH-----Hhc--CCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL-----EER--LGKSCACPVCPF   71 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~-----~~~--~~~~~~CP~Cr~   71 (103)
                      +..+..|.||-+    .+..+..-.|-..||..||.+-+     ...  +.....|++|+-
T Consensus        54 Dg~~~~C~vC~d----GG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           54 DGMDEQCRWCAE----GGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             TSCBSSCTTTCC----CSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCCcCeecCC----CCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            455667999998    45544444688999999999752     221  345689999954

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=94.34  E-value=0.0015  Score=37.10  Aligned_cols=53  Identities=19%  Similarity=0.486  Sum_probs=35.3

Q ss_pred             CCccccccccccccCC--CCceEecCCCchhhHHHHHHHHHh----cCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSD--ESAMIRMQCSHIFHADCITPWLEE----RLGKSCACPVCPFQ   72 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~--~~~~~~~~C~H~f~~~Cl~~~~~~----~~~~~~~CP~Cr~~   72 (103)
                      +++..|.||.. ....  +..+..=.|...||..|+.+-+..    ...+...|+.|+..
T Consensus        14 e~~~~C~vC~~-~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~   72 (88)
T 1wev_A           14 EMGLACVVCRQ-MTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQ   72 (88)
T ss_dssp             HHCCSCSSSCC-CCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHH
T ss_pred             CCCCcCCCCCC-CCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccch
Confidence            55678999998 2221  333333358999999999875542    23466899999643

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=93.47  E-value=0.012  Score=33.92  Aligned_cols=50  Identities=22%  Similarity=0.353  Sum_probs=32.5

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ++...| ||-. ....+..+..-.|...||..|+..-.... .....||.|+.
T Consensus        26 ~d~vrC-iC~~-~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~-p~~w~C~~C~~   75 (98)
T 2lv9_A           26 TDVTRC-ICGF-THDDGYMICCDKCSVWQHIDCMGIDRQHI-PDTYLCERCQP   75 (98)
T ss_dssp             CCBCCC-TTSC-CSCSSCEEEBTTTCBEEETTTTTCCTTSC-CSSBCCTTTSS
T ss_pred             CCCEEe-ECCC-ccCCCcEEEcCCCCCcCcCcCCCCCccCC-CCCEECCCCcC
Confidence            344567 8877 33344555555689999999986532222 23589999964

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.45  E-value=0.0093  Score=33.02  Aligned_cols=48  Identities=21%  Similarity=0.560  Sum_probs=31.3

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCC-CCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGK-SCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~-~~~CP~Cr~   71 (103)
                      .|.||.. .-..+..+..-.|...||..|+.+-+...+.+ ...||.|..
T Consensus        28 ~C~vC~~-~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   76 (77)
T 2e6s_A           28 SCRVCGG-KHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKT   76 (77)
T ss_dssp             SCSSSCC-CCCSTTEEECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTCC
T ss_pred             CCcCcCC-cCCCCCEEEcCCCCccccccccCCCccCCCCCCCcCCcCccC
Confidence            5678886 22233334433588999999998655444344 688999964

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=93.37  E-value=0.014  Score=34.42  Aligned_cols=49  Identities=20%  Similarity=0.516  Sum_probs=31.4

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .|.||.......+..+..-.|...||..|+.+-+...+.+...||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            4667775111122334444588999999997655554456689999974

>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=93.35  E-value=0.019  Score=31.69  Aligned_cols=53  Identities=19%  Similarity=0.432  Sum_probs=33.0

Q ss_pred             CCccccccccccccCCCCceEec--CCCchhhHHHHHHHHHh-----cCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRM--QCSHIFHADCITPWLEE-----RLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~--~C~H~f~~~Cl~~~~~~-----~~~~~~~CP~Cr~~~   73 (103)
                      .+...| ||-. ....+..+..=  .|...||..|+.---..     .......||.|+...
T Consensus        14 ~~~~~C-iC~~-~~~~g~MI~CD~~~C~~W~H~~CVgi~~~~~~~~~~~~~~~~C~~C~~~~   73 (78)
T 1wew_A           14 EIKVRC-VCGN-SLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTS   73 (78)
T ss_dssp             CCCCCC-SSCC-CCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCC
T ss_pred             CCCEEe-ECCC-cCCCCCEEEECCccCCccccCEEEccccccccccccCCCCEECCCCCccc
Confidence            456667 8998 33445555554  58889999998532211     112358899996543

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B

Probab=93.23  E-value=0.0086  Score=32.50  Aligned_cols=48  Identities=23%  Similarity=0.572  Sum_probs=29.7

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCC-CCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGK-SCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~-~~~CP~Cr~   71 (103)
                      .|.||.. .-..+..+..-.|...||..|+.+-+...+.+ ...||.|+.
T Consensus        20 ~C~~C~~-~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   68 (70)
T 3asl_A           20 ACHLCGG-RQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   68 (70)
T ss_dssp             SBTTTCC-CSCGGGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSC
T ss_pred             CCcCCCC-cCCCCCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccC
Confidence            3457775 21122233333588999999998655444444 689999964

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=93.10  E-value=0.0062  Score=33.13  Aligned_cols=55  Identities=18%  Similarity=0.287  Sum_probs=33.7

Q ss_pred             CCCCCCccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           15 SNHTDEEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .....+...| ||.. ....+ ..+..-.|...||..|+.--..........||.|+.
T Consensus        10 ~~~~~~~~~C-~C~~-~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~   65 (72)
T 1wee_A           10 RGVDNWKVDC-KCGT-KDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE   65 (72)
T ss_dssp             CSSCSSEECC-TTCC-CSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHH
T ss_pred             CCCCCcceEe-eCCC-ccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccC
Confidence            3445566778 7988 33333 345544688999999986432111234578888854

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=92.90  E-value=0.0035  Score=33.45  Aligned_cols=54  Identities=30%  Similarity=0.664  Sum_probs=35.3

Q ss_pred             CCCccccccccccccC--CCCceEecCCCchhhHHHHHHHHHh---cCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYS--DESAMIRMQCSHIFHADCITPWLEE---RLGKSCACPVCPFQ   72 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~--~~~~~~~~~C~H~f~~~Cl~~~~~~---~~~~~~~CP~Cr~~   72 (103)
                      ..++..|.||.. ...  .+..+..-.|...||..|+..-+..   ...+...|+.|...
T Consensus         3 ~~~~~~C~vC~~-~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~   61 (66)
T 2yt5_A            3 SGSSGVCTICQE-EYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFA   61 (66)
T ss_dssp             CCCCCCBSSSCC-CCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHT
T ss_pred             CCCCCCCCCCCC-CCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCc
Confidence            456778999998 322  2334444458999999999864322   13455889988543

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens}

Probab=92.44  E-value=0.0085  Score=33.20  Aligned_cols=48  Identities=23%  Similarity=0.574  Sum_probs=29.1

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCC-CCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKS-CACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~-~~CP~Cr~   71 (103)
                      .|.||.. .-.....+..-.|...||..|+.+-+...+.+. ..||.|+.
T Consensus        28 ~C~vC~~-~~d~~~ll~CD~C~~~yH~~Cl~PpL~~~P~g~~W~C~~C~~   76 (77)
T 3shb_A           28 ACHLCGG-RQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   76 (77)
T ss_dssp             SBTTTCC-CSCGGGEEECTTTCCEEETTTSSSCCSSCCSSSCCCCTTTC-
T ss_pred             cCCccCC-CCCCcceeEeCCCCCccCcccCCCcccCCCCCCceECcCccc
Confidence            3556665 211122233235888999999987665544444 79999974

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=91.66  E-value=0.27  Score=28.77  Aligned_cols=51  Identities=18%  Similarity=0.346  Sum_probs=30.7

Q ss_pred             Ccccccccccccc-----CCCCceEecCCCchhhHHHHHH---HHHhcCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEY-----SDESAMIRMQCSHIFHADCITP---WLEERLGKSCACPVCP   70 (103)
Q Consensus        20 ~~~~C~IC~~~~~-----~~~~~~~~~~C~H~f~~~Cl~~---~~~~~~~~~~~CP~Cr   70 (103)
                      -...|.+|+....     ..+..+....|+..||..|+..   ...........||.|+
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   62 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECK   62 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTC
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCC
Confidence            3467999987211     1224455567999999999952   2111112347788875

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}

Probab=91.49  E-value=0.012  Score=31.80  Aligned_cols=55  Identities=13%  Similarity=0.353  Sum_probs=32.7

Q ss_pred             CCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        14 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .-+...+...| ||.. .......+..-.|...||..|+..-.. .......||.|+.
T Consensus        12 ~~~~~~~~~~C-iC~~-~~~~~~MIqCd~C~~WfH~~Cvgi~~~-~~~~~~~C~~C~~   66 (68)
T 3o70_A           12 ENLYFQGLVTC-FCMK-PFAGRPMIECNECHTWIHLSCAKIRKS-NVPEVFVCQKCRD   66 (68)
T ss_dssp             --CTTTTCCCS-TTCC-CCTTCCEEECTTTCCEEETTTTTCCTT-SCCSSCCCHHHHT
T ss_pred             ccCCCCCceEe-ECCC-cCCCCCEEECCCCCccccccccCcCcc-cCCCcEECCCCCC
Confidence            33444566677 9988 433333555556899999999864221 1124577887753

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*

Probab=90.71  E-value=0.06  Score=31.59  Aligned_cols=50  Identities=18%  Similarity=0.369  Sum_probs=33.3

Q ss_pred             CCCccccccccccccCCCCceEec--CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRM--QCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~--~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ..++..|.+|.+    .+..+..=  .|...||..|+.  +...+.+...||.|...+
T Consensus        12 ~~~~~~C~~C~~----~G~ll~CD~~~Cp~~fH~~Cl~--L~~~P~g~W~Cp~c~C~~   63 (107)
T 4gne_A           12 QMHEDYCFQCGD----GGELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECPWHQCDE   63 (107)
T ss_dssp             CSSCSSCTTTCC----CSEEEECCSTTCCCEECTGGGT--CSSCCSSCCCCGGGBCTT
T ss_pred             CCCCCCCCcCCC----CCcEeEECCCCCCcccccccCc--CCcCCCCCEECCCCCCCc
Confidence            456778999997    34444433  477899999997  444444567888765433

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=90.69  E-value=0.18  Score=26.76  Aligned_cols=36  Identities=31%  Similarity=0.646  Sum_probs=22.8

Q ss_pred             CCCccccccccccccCCC-CceEec-CCCchhhHHHHHH
Q 034125           18 TDEEAECAICLEKEYSDE-SAMIRM-QCSHIFHADCITP   54 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~-~~~~~~-~C~H~f~~~Cl~~   54 (103)
                      .+....|++|.. .+... ..+..- .|...||..|+.-
T Consensus         5 ~~~~~~C~~C~~-p~~~~~~mI~CD~~C~~WfH~~Cvgl   42 (65)
T 2vpb_A            5 SDPVYPCGICTN-EVNDDQDAILCEASCQKWFHRICTGM   42 (65)
T ss_dssp             ----CBCTTTCS-BCCTTSCEEEBTTTTCCEEEHHHHTC
T ss_pred             CCCcCcCccCCC-ccCCCCCeEecccCccccCchhccCC
Confidence            456678999999 43333 344544 6888999999853

>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules, epigenetic regulation, trimethylaion of lysine residue, ligase-DNA binding protein; HET: M3L; 2.90A {Homo sapiens}

Probab=90.47  E-value=0.024  Score=37.52  Aligned_cols=48  Identities=23%  Similarity=0.572  Sum_probs=28.7

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCC-CCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGK-SCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~-~~~CP~Cr~   71 (103)
                      .|.+|.. .-..+..+..=.|...||..|+.+-+...+.+ ...||.|+.
T Consensus       176 ~C~vC~~-~~~~~~lL~CD~C~~~yH~~CL~PPL~~vP~G~~W~Cp~C~~  224 (226)
T 3ask_A          176 ACHLCGG-RQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN  224 (226)
T ss_dssp             SCSSSCC-CCC--CCEECSSSCCEECSCC--CCCCSCCSSSCCCCGGGC-
T ss_pred             CCcCCCC-CCCCCCeEEcCCCCcceeCccCCCCcccCCCCCCCCCcCCcC
Confidence            4777876 22223344444588999999998755544444 688999964

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=90.15  E-value=0.49  Score=25.59  Aligned_cols=53  Identities=23%  Similarity=0.519  Sum_probs=32.3

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-----CCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-----LGKSCACPVCPFQ   72 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-----~~~~~~CP~Cr~~   72 (103)
                      ..+...| ||.. .+.....+..-.|...||..|+.--....     ......||.|+..
T Consensus        13 d~~~~~C-~C~~-~~~~~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~   70 (76)
T 1wem_A           13 DPNALYC-ICRQ-PHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CTTCCCS-TTCC-CCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             CCCCCEE-ECCC-ccCCCCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCc
Confidence            3445556 8998 43333455544689999999985322110     1234899999643

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=89.81  E-value=0.14  Score=26.80  Aligned_cols=54  Identities=26%  Similarity=0.525  Sum_probs=34.6

Q ss_pred             CCCccccccccccccC-CCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQ   72 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~   72 (103)
                      .++...|+||.. .+. ....+..-.|...||..|+.--.... ......||.|+..
T Consensus         3 ~~e~~~C~~C~~-~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            3 SGSSGQCGACGE-SYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             CSSCCCCSSSCC-CCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCC-ccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            467778999998 443 23344444688999999986432211 1245789999653

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=89.72  E-value=0.12  Score=33.06  Aligned_cols=53  Identities=23%  Similarity=0.450  Sum_probs=33.8

Q ss_pred             ccccccccccccCCCC----ceEecCCCchhhHHHHHHHHH-----hc--CCCCCCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDES----AMIRMQCSHIFHADCITPWLE-----ER--LGKSCACPVCPFQMP   74 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~----~~~~~~C~H~f~~~Cl~~~~~-----~~--~~~~~~CP~Cr~~~~   74 (103)
                      +..|+||.. .+..+.    .+..-.|...||..|..---.     ..  ......||.|+..-+
T Consensus         2 G~~CpiC~k-~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~   65 (183)
T 3lqh_A            2 GNFCPLCDK-CYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHP   65 (183)
T ss_dssp             CCBCTTTCC-BCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSS
T ss_pred             cCcCCCCcC-ccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCC
Confidence            356999998 555543    444446899999999853211     00  001389999987554

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=89.40  E-value=0.45  Score=25.65  Aligned_cols=40  Identities=15%  Similarity=0.327  Sum_probs=27.9

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      ......|..|-. .+. +..+.  .-+..||..|            +.|-.|+..+
T Consensus        12 ~~~~~~C~~C~~-~I~-~~~~~--a~~~~~H~~C------------F~C~~C~~~L   51 (79)
T 1x62_A           12 AQKLPMCDKCGT-GIV-GVFVK--LRDRHRHPEC------------YVCTDCGTNL   51 (79)
T ss_dssp             CCCCCCCSSSCC-CCC-SSCEE--CSSCEECTTT------------TSCSSSCCCH
T ss_pred             CCCCCccccCCC-Ccc-CcEEE--ECcceeCcCc------------CeeCCCCCCC
Confidence            355678999999 433 33333  4677889888            5798998766

>3c6w_A P28ING5, inhibitor of growth protein 5; chromatin, PHD, ING, epigenetics, alternative splicing, metal-binding, phosphoprotein, zinc; HET: M3L; 1.75A {Homo sapiens} PDB: 2pnx_A*

Probab=88.87  E-value=0.021  Score=29.86  Aligned_cols=48  Identities=25%  Similarity=0.535  Sum_probs=29.1

Q ss_pred             CCccccccccccccCCCCceEecC--CC-chhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ--CS-HIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~--C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .+...| ||.. . ..+..+..=.  |. ..||..|+.  +...+.+...||.|+.
T Consensus         7 ~e~~yC-~C~~-~-~~g~mi~CD~~~C~~~wfH~~Cvg--l~~~p~~~w~Cp~C~~   57 (59)
T 3c6w_A            7 NEPTYC-LCHQ-V-SYGEMIGCDNPDCPIEWFHFACVD--LTTKPKGKWFCPRCVQ   57 (59)
T ss_dssp             -CCEET-TTTE-E-CCSEEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHC
T ss_pred             CCCcEE-ECCC-C-CCCCeeEeeCCCCCCCCEecccCC--cccCCCCCEECcCccC
Confidence            345556 9988 3 2344333334  55 589999997  3333335678888853

>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=88.66  E-value=2  Score=24.26  Aligned_cols=52  Identities=17%  Similarity=0.340  Sum_probs=34.8

Q ss_pred             CCccccccccccccC---CCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYS---DES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~---~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .....|.||-+ .+-   .+. .+...-|+-..|..|..--...   +...||.|++...
T Consensus        14 ~~~qiCqiCGD-~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErke---G~q~CpqCktrYk   69 (93)
T 1weo_A           14 LDGQFCEICGD-QIGLTVEGDLFVACNECGFPACRPCYEYERRE---GTQNCPQCKTRYK   69 (93)
T ss_dssp             CSSCBCSSSCC-BCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHT---SCSSCTTTCCCCC
T ss_pred             cCCCccccccC-ccccCCCCCEEEeeeccCChhhHHHHHHHHhc---cCccccccCCccc
Confidence            35579999999 422   122 2344458878999998753322   4589999988774

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=88.48  E-value=0.56  Score=25.48  Aligned_cols=42  Identities=21%  Similarity=0.584  Sum_probs=29.6

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ......|+.|-. .+.....+.  .-+..||..|            +.|-.|+..+.
T Consensus        12 ~~~~~~C~~C~~-~I~~~~~v~--a~~~~wH~~C------------F~C~~C~~~L~   53 (80)
T 2dj7_A           12 IRGPSHCAGCKE-EIKHGQSLL--ALDKQWHVSC------------FKCQTCSVILT   53 (80)
T ss_dssp             CSSCSCCTTTCC-CCSSSCCEE--ETTEEECTTT------------CBCSSSCCBCS
T ss_pred             CCCCCCCcCcCC-eeCCCeEEE--ECCccccccc------------CCcCcCCCCcC
Confidence            345678999999 544444444  3567788877            67999988775

>2vnf_A ING 4, P29ING4, inhibitor of growth protein 4; acetylation, alternative splicing, anti-oncogene, cell cycle, coiled C nucleus, zinc, zinc-finger, ING4; HET: M3L; 1.76A {Homo sapiens} SCOP: g.50.1.2 PDB: 2k1j_A 2jmq_A 2qic_A*

Probab=88.30  E-value=0.023  Score=29.80  Aligned_cols=48  Identities=27%  Similarity=0.556  Sum_probs=28.4

Q ss_pred             CCccccccccccccCCCCceEecC--CC-chhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ--CS-HIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~--C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .+...| ||.. . ..+..+..=.  |. ..||..|+.  +...+.+...||.|+.
T Consensus         8 ~e~~~C-~C~~-~-~~g~mi~CD~cdC~~~wfH~~Cvg--l~~~p~g~w~C~~C~~   58 (60)
T 2vnf_A            8 NEPTYC-LCHQ-V-SYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQ   58 (60)
T ss_dssp             -CCEET-TTTE-E-CCSEEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHC
T ss_pred             CCCCEE-ECCC-c-CCCCEEEeCCCCCCCceEehhcCC--CCcCCCCCEECcCccC
Confidence            344556 8988 3 2343333223  44 579999997  3333345678888853

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=88.10  E-value=0.056  Score=27.36  Aligned_cols=47  Identities=19%  Similarity=0.326  Sum_probs=27.0

Q ss_pred             ccccccccccCCCC-ceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDES-AMIRM-QCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        23 ~C~IC~~~~~~~~~-~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      .|.||.. .+..+. .+..- .|...||..|+.--..........||.|+
T Consensus         4 ~cc~C~~-p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQR-PCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCC-CCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcC-ccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            4678887 333232 44444 47788999997643221111348899885

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=87.91  E-value=0.029  Score=32.81  Aligned_cols=49  Identities=18%  Similarity=0.478  Sum_probs=30.1

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ   72 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~   72 (103)
                      .|.||.. .......+..-.|...||..|+.+-+...+.+...||.|+.-
T Consensus        56 ~C~~C~~-~~~~~~ll~Cd~C~~~yH~~Cl~ppl~~~P~g~W~C~~C~~c  104 (111)
T 2ysm_A           56 VCQNCKQ-SGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNCRIC  104 (111)
T ss_dssp             CCTTTCC-CSCCTTEEECSSSCCEEEGGGSSSCCSSCCSSCCCCHHHHCC
T ss_pred             cccccCc-cCCCCCeeECCCCCcHHhHHhcCCccccCCCCCcCCcCCcCc
Confidence            3556666 212222344345899999999986554444456788888543

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=86.63  E-value=1.4  Score=24.22  Aligned_cols=42  Identities=19%  Similarity=0.566  Sum_probs=28.7

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .....|..|-. .+.....+.  .-+..||..|            +.|-.|...+..
T Consensus        13 ~~~~~C~~C~~-~I~~~~~v~--a~~~~~H~~C------------F~C~~C~~~L~~   54 (91)
T 2d8y_A           13 PARETCVECQK-TVYPMERLL--ANQQVFHISC------------FRCSYCNNKLSL   54 (91)
T ss_dssp             SSSCBCTTTCC-BCCTTSEEE--CSSSEEETTT------------CBCTTTCCBCCT
T ss_pred             CCCCcCccCCC-ccCCceeEE--ECCCEECCCC------------CeeCCCCCCCCC
Confidence            45678999999 444334333  5677888887            578888877654

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=86.61  E-value=1.1  Score=24.23  Aligned_cols=44  Identities=23%  Similarity=0.442  Sum_probs=29.5

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      .....|..|-. .+.....+.  .-+..||..|            +.|-.|+..+....
T Consensus        13 ~~~~~C~~C~~-~I~~~e~v~--a~~~~wH~~C------------F~C~~C~~~L~~~~   56 (82)
T 2co8_A           13 GAGDLCALCGE-HLYVLERLC--VNGHFFHRSC------------FRCHTCEATLWPGG   56 (82)
T ss_dssp             CSSCBCSSSCC-BCCTTTBCC--BTTBCCBTTT------------CBCSSSCCBCCTTS
T ss_pred             CCCCCCcccCC-CcccceEEE--ECCCeeCCCc------------CEEcCCCCCcCCCc
Confidence            45578999999 443333333  3567788888            67888988775444

>2a20_A Regulating synaptic membrane exocytosis protein 2; zinc-finger domain, metal binding protein; NMR {Rattus norvegicus} PDB: 2cjs_C

Probab=86.15  E-value=0.41  Score=24.99  Aligned_cols=36  Identities=22%  Similarity=0.536  Sum_probs=24.7

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHH
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCI   52 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl   52 (103)
                      ..++...|.||+...|..+.......|.-.||..|-
T Consensus         5 ~~~d~~~C~iC~KTKFADG~Gh~C~yCk~r~CaRCG   40 (62)
T 2a20_A            5 QKGDAPTCGICHKTKFADGCGHNCSYCQTKFCARCG   40 (62)
T ss_dssp             CSSCCCCCSSSSCSCCCSSCCEEBTTTCCEECTTSE
T ss_pred             ccCCcchhhhhccceeccCCCccccccCCeeecccC
Confidence            346778999999966666655555556666666654

>2g6q_A Inhibitor of growth protein 2; protein-peptide complex, gene regulation, apoptosis; HET: M3L; 2.00A {Mus musculus}

Probab=85.71  E-value=0.042  Score=29.03  Aligned_cols=48  Identities=25%  Similarity=0.517  Sum_probs=28.8

Q ss_pred             CCccccccccccccCCCCceEecC--CC-chhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ--CS-HIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~--C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ++...| ||.. . ..+..+..=.  |. ..||..|+.  +...+.+...||.|+.
T Consensus         9 ~e~~yC-~C~~-~-~~g~MI~CD~c~C~~~WfH~~Cvg--l~~~p~~~w~Cp~C~~   59 (62)
T 2g6q_A            9 NEPTYC-LCNQ-V-SYGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRG   59 (62)
T ss_dssp             -CCEET-TTTE-E-CCSEEEECSCTTCSSCEEETGGGT--CSSCCSSCCCCHHHHT
T ss_pred             CCCcEE-ECCC-C-CCCCeeeeeCCCCCcccEecccCC--cCcCCCCCEECcCccc
Confidence            345556 9988 3 3343333223  44 789999997  2333345688998854

>2d8v_A Zinc finger FYVE domain-containing protein 19; zfyve19, ZF- B_BOX, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.43.1.1

Probab=85.44  E-value=0.65  Score=24.75  Aligned_cols=36  Identities=19%  Similarity=0.462  Sum_probs=27.2

Q ss_pred             CCCCCccccccccccccCCCCceEecCC-CchhhHHHHHHHH
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQC-SHIFHADCITPWL   56 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C-~H~f~~~Cl~~~~   56 (103)
                      +..++..-|.||.+ .    ..++.+.| +-.||..|+...-
T Consensus         3 ~~~ee~pWC~ICne-D----AtlrC~gCdgDLYC~rC~rE~H   39 (67)
T 2d8v_A            3 SGSSGLPWCCICNE-D----ATLRCAGCDGDLYCARCFREGH   39 (67)
T ss_dssp             SSCCCCSSCTTTCS-C----CCEEETTTTSEEECSSHHHHHT
T ss_pred             CcCcCCCeeEEeCC-C----CeEEecCCCCceehHHHHHHHc
Confidence            34456677999999 2    33677889 8899999987754

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

Probab=84.24  E-value=1.2  Score=31.56  Aligned_cols=54  Identities=20%  Similarity=0.462  Sum_probs=32.8

Q ss_pred             ccccccccccccCCCCceEecCCCch--hhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHI--FHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~--f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ...|||=+. .+.  ..++...|.|.  |=..-+..+....  ....||+|...+...++.
T Consensus       249 SL~CPlS~~-ri~--~PvRg~~C~HlQCFDl~sfL~~~~~~--~~W~CPIC~k~~~~~dL~  304 (371)
T 3i2d_A          249 SLQCPISYT-RMK--YPSKSINCKHLQCFDALWFLHSQLQI--PTWQCPVCQIDIALENLA  304 (371)
T ss_dssp             ESBCTTTSS-BCS--SEEEETTCCSSCCEEHHHHHHHHHHS--CCCBCTTTCCBCCGGGEE
T ss_pred             eecCCCccc-ccc--ccCcCCcCCCcceECHHHHHHHhhcC--CceeCCCCCcccCHHHee
Confidence            456887666 322  23455679998  4444444433333  568999999887655443

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=83.92  E-value=1.1  Score=24.04  Aligned_cols=50  Identities=22%  Similarity=0.464  Sum_probs=32.3

Q ss_pred             CCCcccccccccccc--CCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEY--SDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~--~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      ..++..|.||.. ..  ..+..+..=.|.-.||..|+..-.  -+.+...||.|+
T Consensus        13 ~~~~~~C~vC~~-~~s~~~~~ll~CD~C~~~~H~~Cl~~~~--vP~g~W~C~~C~   64 (71)
T 2ku3_A           13 IDEDAVCSICMD-GESQNSNVILFCDMCNLAVHQECYGVPY--IPEGQWLCRHCL   64 (71)
T ss_dssp             CCSSCSCSSSCC-CCCCSSSCEEECSSSCCEEEHHHHTCSS--CCSSCCCCHHHH
T ss_pred             CCCCCCCCCCCC-CCCCCCCCEEECCCCCCccccccCCCCc--CCCCCcCCccCc
Confidence            356778999998 32  223333333588899999997532  223557888874

>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast, protein binding; NMR {Saccharomyces cerevisiae} PDB: 2jmj_A*

Probab=83.68  E-value=0.1  Score=29.69  Aligned_cols=47  Identities=23%  Similarity=0.439  Sum_probs=28.6

Q ss_pred             CCccccccccccccCCCCceEecCCC---chhhHHHHHHHHHhcCCCCCCCCC-CC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCS---HIFHADCITPWLEERLGKSCACPV-CP   70 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~---H~f~~~Cl~~~~~~~~~~~~~CP~-Cr   70 (103)
                      ++...| ||.. . ..+..+..=.|.   ..||..|+.  +.....+...||. |+
T Consensus        24 ~~~~yC-iC~~-~-~~g~MI~CD~c~C~~eWfH~~CVg--l~~~p~~~W~Cp~cC~   74 (90)
T 2jmi_A           24 QEEVYC-FCRN-V-SYGPMVACDNPACPFEWFHYGCVG--LKQAPKGKWYCSKDCK   74 (90)
T ss_dssp             CCSCCS-TTTC-C-CSSSEECCCSSSCSCSCEETTTSS--CSSCTTSCCCSSHHHH
T ss_pred             CCCcEE-EeCC-C-CCCCEEEecCCCCccccCcCccCC--CCcCCCCCccCChhhc
Confidence            445567 9998 2 234433332344   689999996  2332335688999 85

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=83.48  E-value=0.043  Score=32.36  Aligned_cols=47  Identities=23%  Similarity=0.564  Sum_probs=28.9

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      .|.||.. ....+..+..-.|...||..|+.+-+...+.+...||.|+
T Consensus        60 ~C~~C~~-~~~~~~ll~Cd~C~~~yH~~Cl~ppl~~~P~g~W~C~~C~  106 (114)
T 2kwj_A           60 SCILCGT-SENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCW  106 (114)
T ss_dssp             CCTTTTC-CTTTTTEEECSSSCCEEETTTSSSCCSSCCSSCCCCHHHH
T ss_pred             ccCcccc-cCCCCceEEcCCCCccccccccCCCccCCCCCCeECcccc
Confidence            4667766 2223334444458899999999764444334557788774

>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=83.43  E-value=1.3  Score=31.25  Aligned_cols=54  Identities=20%  Similarity=0.396  Sum_probs=33.2

Q ss_pred             ccccccccccccCCCCceEecCCCch--hhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHI--FHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~--f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      ...|||=+. .+..  ..+...|.|.  |=..-+..+....  +...||+|.+.+...++.
T Consensus       215 SL~CPlS~~-ri~~--P~Rg~~C~HlqCFDl~sfL~~~~~~--~~W~CPiC~k~~~~~dL~  270 (360)
T 4fo9_A          215 SLMCPLGKM-RLTI--PCRAVTCTHLQCFDAALYLQMNEKK--PTWICPVCDKKAAYESLI  270 (360)
T ss_dssp             ESBCTTTCS-BCSS--EEEETTCCCCCCEEHHHHHHHHHHS--CCCBCTTTCSBCCGGGEE
T ss_pred             eeeCCCccc-eecc--CCcCCCCCCCccCCHHHHHHHHhhC--CCeECCCCCcccCHHHeE
Confidence            456887666 3222  3455579998  5544444444433  568999999887654443

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=83.32  E-value=0.16  Score=31.80  Aligned_cols=51  Identities=24%  Similarity=0.498  Sum_probs=32.3

Q ss_pred             CCccccccccccccC-CCCceEecCCCchhhHHHHHHHHHh-cCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEE-RLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~-~~~~~~~CP~Cr~   71 (103)
                      ++...| ||.. ... .+..+..-.|...||..|+.--... .......||.|+.
T Consensus         6 ~~~~~C-~C~~-~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~   58 (174)
T 2ri7_A            6 DTKLYC-ICKT-PEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS   58 (174)
T ss_dssp             -CCEET-TTTE-ECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHH
T ss_pred             CCCcEe-eCCC-CCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcc
Confidence            456678 9998 332 3334554468899999998532221 1234589999964

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

Probab=82.05  E-value=1.9  Score=23.74  Aligned_cols=35  Identities=14%  Similarity=0.372  Sum_probs=24.5

Q ss_pred             CCccccccccccccCC-CCceEecCCCchhhHHHHHH
Q 034125           19 DEEAECAICLEKEYSD-ESAMIRMQCSHIFHADCITP   54 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Cl~~   54 (103)
                      .+...|.+|.. .|.. ......-.||.+||..|...
T Consensus        19 ~~~~~C~~C~~-~Fs~~~RrHHCR~CG~v~C~~Cs~~   54 (84)
T 1z2q_A           19 EDAPACNGCGC-VFTTTVRRHHCRNCGYVLCGDCSRH   54 (84)
T ss_dssp             TTCCBCTTTCC-BCCTTSCCEECTTTCCEECTGGGCC
T ss_pred             CCCCCCcCcCC-ccccchhcccccCCCcEEChHHhCC
Confidence            45567999999 5443 34455557999999999643

>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: g.50.1.1

Probab=81.76  E-value=0.53  Score=28.58  Aligned_cols=52  Identities=17%  Similarity=0.379  Sum_probs=31.6

Q ss_pred             CCccccccccccc-cCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKE-YSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP   70 (103)
Q Consensus        19 ~~~~~C~IC~~~~-~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr   70 (103)
                      .+...|.+|..+. +..+.......|.|.+|..|-.............|-+|+
T Consensus        53 ~~~~~C~~C~~~~g~l~~~g~~C~~C~~~VC~~C~~~~~~~~~~~~W~C~vC~  105 (134)
T 1zbd_B           53 DGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICL  105 (134)
T ss_dssp             CSSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEEECCCSSSSCCEEEHHHH
T ss_pred             CCCccccccCCCcccccCCCCCCCCCCcccccccCCccCCCCCccceechhhH
Confidence            4678899999933 244455666779999998886432111112234566664

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

Probab=81.05  E-value=0.96  Score=25.30  Aligned_cols=36  Identities=17%  Similarity=0.409  Sum_probs=24.9

Q ss_pred             CCCccccccccccccC-CCCceEecCCCchhhHHHHHH
Q 034125           18 TDEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITP   54 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~   54 (103)
                      ..+...|.+|.. .|. .......-.||.+||..|...
T Consensus         6 ~~~~~~C~~C~~-~F~~~~RrHHCR~CG~vfC~~Cs~~   42 (88)
T 1wfk_A            6 SGMESRCYGCAV-KFTLFKKEYGCKNCGRAFCNGCLSF   42 (88)
T ss_dssp             CCCCSBCTTTCC-BCCSSSCEEECSSSCCEEETTTSCE
T ss_pred             CCcCCCCcCcCC-cccCccccccCCCCCCEEChhHcCC
Confidence            345668999998 544 333445557999999998653

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=80.86  E-value=1.5  Score=24.55  Aligned_cols=35  Identities=17%  Similarity=0.485  Sum_probs=24.5

Q ss_pred             CCccccccccccccC-CCCceEecCCCchhhHHHHHH
Q 034125           19 DEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITP   54 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~   54 (103)
                      .+...|.+|.. .|. .........||.+||..|...
T Consensus        18 ~~~~~C~~C~~-~F~~~~RrhhCr~CG~v~C~~Cs~~   53 (90)
T 3t7l_A           18 SEAPNCMNCQV-KFTFTKRRHHCRACGKVFCGVCCNR   53 (90)
T ss_dssp             GGCCBCTTTCC-BCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             ccCCcCcCCCC-cccchhhCccccCCCCEECCcccCC
Confidence            34567999998 544 334455557999999999654

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=80.72  E-value=0.5  Score=24.65  Aligned_cols=42  Identities=26%  Similarity=0.574  Sum_probs=27.3

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      .|-.|.. .+........-.|++.||.+|=.-.-+.-    .+||-|
T Consensus        17 ~C~~C~~-~~~~~~~y~C~~C~~~FC~dCD~fiHe~L----h~CPgC   58 (59)
T 1z60_A           17 FCYGCQG-ELKDQHVYVCAVCQNVFCVDCDVFVHDSL----HSCPGC   58 (59)
T ss_dssp             EETTTTE-ECTTSEEECCTTTTCCBCHHHHHTTTTTS----CSSSTT
T ss_pred             cccccCc-ccCCCccEECCccCcCcccchhHHHHhhc----cCCcCC
Confidence            4888888 44332223344599999999975544443    689987

>3a1b_A DNA (cytosine-5)-methyltransferase 3A, histone H3; zinc-finger, histone binding, chromosomal protein, DNA damag repair, DNA-binding, methylation; HET: DNA; 2.29A {Homo sapiens} PDB: 3a1a_A*

Probab=80.18  E-value=2  Score=26.88  Aligned_cols=49  Identities=16%  Similarity=0.485  Sum_probs=34.2

Q ss_pred             CCCccccccccccccCCCCceEec--CCCchhhHHHHHHHHHhc------CCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRM--QCSHIFHADCITPWLEER------LGKSCACPVCP   70 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~--~C~H~f~~~Cl~~~~~~~------~~~~~~CP~Cr   70 (103)
                      +..+..|.||-+    .+..+..-  .|...||..||...+...      ......|=+|.
T Consensus        76 DG~~~yC~wC~~----Gg~l~~Cdn~~C~r~FC~~CI~~nvG~~~~~~i~~~d~W~Cy~C~  132 (159)
T 3a1b_A           76 DGYQSYCTICCG----GREVLMCGNNNCCRCFCVECVDLLVGPGAAQAAIKEDPWNCYMCG  132 (159)
T ss_dssp             TSSBSSCTTTSC----CSEEEECSSTTTCCEEEHHHHHHHTCTTHHHHHHTSSSCCCTTTC
T ss_pred             CCCcceeeEecC----CCeEEeeCCCCCCCchhHHHHHHhcCHhHHHHHhccCCCEEEecC
Confidence            345667999988    44444433  488899999999887442      23457899995

---

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	103
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	5e-10
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	4e-06
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-05
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	2e-05
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-04
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-04
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	8e-04
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	0.001
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.001

>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 = 48.7 bits (116), Expect = 5e-10
 Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 4/51 (7%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          D+  ECA+CL +    E A    +C H FHA+C+  WL         CP+C
Sbjct: 3  DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG----SHSTCPLC 49

>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 = 38.8 bits (90), Expect = 4e-06
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 7/47 (14%)

Query: 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           C ICLE      +  + + C H F   CIT W+     ++  CP+C
Sbjct: 7  RCPICLEDP---SNYSMALPCLHAFCYVCITRWIR----QNPTCPLC 46

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 38.1 bits (88), Expect = 1e-05
 Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 7/51 (13%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
               C IC E    ++  +    C H+    C+T W E        CP C
Sbjct: 21 STFQLCKICAE----NDKDVKIEPCGHLMCTSCLTSWQESEGQG---CPFC 64

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 2e-05
 Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 4/51 (7%)

Query: 20 EEAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVC 69
          ++  C  C   +Y + S  + +  C H     C+          +  CP C
Sbjct: 2  DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---AGNCPEC 49

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

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

 Score = 35.5 bits (81), Expect = 6e-05
 Identities = 10/44 (22%), Positives = 15/44 (34%)

Query: 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
          EC +C+E    D+       C +     C      +  G   AC
Sbjct: 2  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPAC 45

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

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

 Score = 35.8 bits (81), Expect = 2e-04
 Identities = 11/58 (18%), Positives = 14/58 (24%), Gaps = 1/58 (1%)

Query: 13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVC 69
                       +   K           +CSH FH  C+           S  CP C
Sbjct: 31 CMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSC 88

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 2e-04
 Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 5/51 (9%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           +  EC ICLE         +  +C HIF   C+   L ++      CP+C
Sbjct: 19 QKILECPICLE----LIKEPVSTKCDHIFCKFCMLKLLNQK-KGPSQCPLC 64

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 3e-04
 Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 18/64 (28%)

Query: 20 EEAECAICLE--------------KEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCA 65
              CAIC                   S+E  +    C+H FH  CI+ WL+        
Sbjct: 20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLK----TRQV 75

Query: 66 CPVC 69
          CP+ 
Sbjct: 76 CPLD 79

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

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

 Score = 33.5 bits (76), Expect = 8e-04
 Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 7/68 (10%)

Query: 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGK------SCACPVCPF 71
          +   + C +CL  EY  E      QC  IF   C+  ++E  + +      SC    CP 
Sbjct: 2  SSGSSGCKLCLG-EYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPK 60

Query: 72 QMPLPSFE 79
          Q  L   E
Sbjct: 61 QGHLQENE 68

>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 = 33.0 bits (75), Expect = 0.001
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 7/51 (13%)

Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
           +   C IC        +  +   C H+F   CI   L+        CP C
Sbjct: 21 VKSISCQICEH----ILADPVETSCKHLFCRICILRCLKVM---GSYCPSC 64

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

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

 Score = 32.1 bits (72), Expect = 0.001
 Identities = 11/52 (21%), Positives = 17/52 (32%), Gaps = 3/52 (5%)

Query: 19 DEEAECAICLE-KEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
          ++   C IC E        A          H  C++ WL      +  C +C
Sbjct: 4  EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTA--CQIC 53

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	103
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.69
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.55
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.55
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.52
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.48
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.47
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.41
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.39
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.37
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.35
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.34
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.23
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.21
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.16
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.11
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.88
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	97.08
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	97.01
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	96.61
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	96.41
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	96.18
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	96.14
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	95.6
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	95.14
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	94.15
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	93.45
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	93.39
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	91.08
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	90.02
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	87.93
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	87.72
d2pnxa1	51	Inhibitor of growth protein 4, Ing4 {Homo sapiens	85.46

>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=99.69  E-value=3.3e-18  Score=89.74  Aligned_cols=51  Identities=37%  Similarity=0.933  Sum_probs=43.2

Q ss_pred             CCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      +++.+|+||++ .+..+..+..++ |+|.||..|+.+|++.+    .+||+||+.+.
T Consensus         3 ed~~~C~ICl~-~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~----~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLA-ELEDGEEARFLPRCGHGFHAECVDMWLGSH----STCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCC-CCCTTSCCEECSSSCCEECTTHHHHTTTTC----CSCSSSCCCSC
T ss_pred             CCCCCCeEECc-cccCCCEEEEeCCCCCcccHHHHHHHHHhC----CcCCCCCCEeE
Confidence            56678999999 777766666664 99999999999999887    79999999764

>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=99.55  E-value=3e-15  Score=80.73  Aligned_cols=55  Identities=16%  Similarity=0.466  Sum_probs=41.2

Q ss_pred             CccccccccccccC-CC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           20 EEAECAICLEKEYS-DE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        20 ~~~~C~IC~~~~~~-~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ++..||||++ .+. .. ..+..++|||.||..||..|+....   ..||+||..+...+.
T Consensus         2 dd~~CpIC~~-~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~---~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKT-TKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA---GNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTT-HHHHCSSCCEEECTTCCCEEHHHHHHHHHTTS---SSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCc-eeecCCceEEEeCccChHhhHHHHHHHhCcCc---CCCCCCCcCcccccc
Confidence            5689999998 432 22 2345568999999999999997542   579999998865443

>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=99.55  E-value=9.5e-16  Score=83.41  Aligned_cols=48  Identities=33%  Similarity=0.835  Sum_probs=39.6

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      ....|+||++ .+..  .+..++|||.||..||.+|++.+    .+||+||+.+.
T Consensus         4 ~~d~C~IC~~-~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~----~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLE-DPSN--YSMALPCLHAFCYVCITRWIRQN----PTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCS-CCCS--CEEETTTTEEESTTHHHHHHHHS----CSTTTTCCCCC
T ss_pred             CCCCCccCCc-CccC--CcEEeCCCCcCcHHHHHHHHHhC----CcCCCCCcchH
Confidence            4567999999 5433  34567999999999999999988    89999999764

>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=99.53  E-value=1.2e-15  Score=78.94  Aligned_cols=50  Identities=20%  Similarity=0.496  Sum_probs=38.7

Q ss_pred             cccccccccccCCCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .+|+||++ .+.... .+..++|||.||..|+.+|+...   ..+||+||+++..
T Consensus         1 leCpICl~-~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~---~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCME-PLEIDDINFFPCTCGYQICRFCWHRIRTDE---NGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTE-ECCGGGTTCCSSSSSCCCCHHHHHHHTTTS---CCBCTTTCCBCSC
T ss_pred             CCCcCCCh-hhhCCCceEEecCCCCccchHHHHHHHhhc---CCCCCccCCcCCC
Confidence            37999999 665443 34445899999999999999764   1579999998754

>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=99.52  E-value=7.9e-15  Score=86.89  Aligned_cols=57  Identities=26%  Similarity=0.476  Sum_probs=42.3

Q ss_pred             CccccccccccccCC---------------CCceEecCCCchhhHHHHHHHHHhcC-CCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSD---------------ESAMIRMQCSHIFHADCITPWLEERL-GKSCACPVCPFQMPLPS   77 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~---------------~~~~~~~~C~H~f~~~Cl~~~~~~~~-~~~~~CP~Cr~~~~~~~   77 (103)
                      .+..|+||++ .+..               ...+..++|+|.||..||..|+.... .+..+||+||..+..+.
T Consensus        24 ~~~~C~IC~e-~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          24 PEEDCIICME-KLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             CSCEETTTTE-ETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             ccccccchhh-eecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            3567999999 5432               22345668999999999999998753 24468999998875443

>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=2.6e-14  Score=79.74  Aligned_cols=50  Identities=28%  Similarity=0.685  Sum_probs=39.1

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      ....|+||++ .+..   ...++|||.||..||..|+..+   ..+||+||..+...
T Consensus        22 ~~~~C~IC~~-~~~~---~~~~~CgH~fC~~Ci~~wl~~~---~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          22 TFQLCKICAE-NDKD---VKIEPCGHLMCTSCLTSWQESE---GQGCPFCRCEIKGT   71 (79)
T ss_dssp             CTTBCTTTSS-SBCC---EECSSSCCEECHHHHHHHHHTT---CCSCTTTCCCCCCC
T ss_pred             CCCCCccCCC-cCCC---eEEeCCCCeeeHHHHHHHHHHC---cCcCCCCCcCccCC
Confidence            3457999999 4332   4567899999999999999754   16799999988643

>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=99.47  E-value=1.6e-14  Score=82.12  Aligned_cols=50  Identities=32%  Similarity=0.669  Sum_probs=38.8

Q ss_pred             CccccccccccccCCCC---------------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDES---------------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~---------------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      .+..|+||++ .+....               .+..++|+|.||..||.+|++.+    .+||+||+.+.
T Consensus        20 ~~d~C~IC~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR~~~~   84 (88)
T d3dplr1          20 VVDNCAICRN-HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR----QVCPLDNREWE   84 (88)
T ss_dssp             CSCCCSSSCS-CTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTC----SBCSSSCSBCC
T ss_pred             CCCcCEEccc-hhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHC----CcCCCCCCccc
Confidence            4456999987 433211               24566899999999999999988    79999999874

>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=5.2e-14  Score=82.02  Aligned_cols=55  Identities=31%  Similarity=0.688  Sum_probs=41.8

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      .+...|+||++ .+ ..+.  .++|||.||..||..|+... .+...||+||..+...++
T Consensus        19 ~~~l~CpIC~~-~~-~~pv--~~~CgH~fC~~Ci~~~~~~~-~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          19 QKILECPICLE-LI-KEPV--STKCDHIFCKFCMLKLLNQK-KGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             HHHTSCSSSCC-CC-SSCC--BCTTSCCCCSHHHHHHHHSS-SSSCCCTTTSCCCCTTTC
T ss_pred             ccCcCCCccCc-hh-CCeE--EcCCCCchhhHHHHHHHHHC-CCCCcCcCCCCcCChhhC
Confidence            34578999999 44 4443  35899999999999999875 234689999998865543

>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=99.39  E-value=1.7e-13  Score=72.53  Aligned_cols=55  Identities=24%  Similarity=0.478  Sum_probs=39.3

Q ss_pred             CCCccccccccccccCCCCce--EecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAM--IRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL   75 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~--~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~   75 (103)
                      .++...|+||++ .+......  ....|+|.||..||..|+..+  +..+||+||+.+..
T Consensus         3 ded~~~C~IC~~-~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~--~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNE-ELGNERFRACGCTGELENVHRSCLSTWLTIS--RNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTE-ECSCCCCCSCCCSSGGGSCCHHHHHHHHHHH--TCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCc-cCCCceeEecccCCCCCEEcHHHHHHHHhhC--CCCCCcccCCeeec
Confidence            456788999999 54433211  111246999999999999776  33689999998754

>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=99.37  E-value=7.8e-14  Score=78.86  Aligned_cols=51  Identities=24%  Similarity=0.554  Sum_probs=39.5

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      +...|+||++ .+ ..+  ..++|||.||..||..|++...   ..||+||.++...+
T Consensus        22 ~~l~C~IC~~-~~-~~p--v~~~CgH~FC~~Ci~~~~~~~~---~~CP~Cr~p~~~~~   72 (86)
T d1rmda2          22 KSISCQICEH-IL-ADP--VETSCKHLFCRICILRCLKVMG---SYCPSCRYPCFPTD   72 (86)
T ss_dssp             HHTBCTTTCS-BC-SSE--EECTTSCEEEHHHHHHHHHHTC---SBCTTTCCBCCGGG
T ss_pred             cCcCCccCCc-ch-hcc--eecCCCChhhHHHHHHHHhhCC---CcCcccCCCCChhh
Confidence            4578999999 43 333  4558999999999999997652   57999999875433

>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=99.35  E-value=1.7e-13  Score=71.58  Aligned_cols=50  Identities=12%  Similarity=0.280  Sum_probs=39.2

Q ss_pred             cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ..|+||++ . ...+ +....|||.||..||.+|+.++    .+||+||.++...++
T Consensus         1 l~C~Ic~~-~-~~~P-v~~~~cGh~fc~~cI~~~l~~~----~~CP~c~~~l~~~dL   50 (56)
T d2baya1           1 MLCAISGK-V-PRRP-VLSPKSRTIFEKSLLEQYVKDT----GNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCCTTTCS-C-CSSE-EEETTTTEEEEHHHHHHHHHHH----SBCTTTCCBCCGGGC
T ss_pred             CCCccCCc-h-HHhc-CccCCCCCcccHHHHHHHHhhc----cCCCccCCcCCHHhc
Confidence            36999999 4 3333 2333599999999999999998    789999998866544

>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=99.34  E-value=7.2e-14  Score=77.97  Aligned_cols=52  Identities=13%  Similarity=0.043  Sum_probs=41.2

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS   77 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~   77 (103)
                      .+++.|+||++  +...++  .++|||.||..||..|+....   ..||+||..+....
T Consensus         5 P~~l~CpIc~~--l~~dPv--~~~cGhtfc~~ci~~~l~~~~---~~cP~c~~~l~~~~   56 (80)
T d2c2la2           5 PDYLCGKISFE--LMREPC--ITPSGITYDRKDIEEHLQRVG---HFNPVTRSPLTQEQ   56 (80)
T ss_dssp             CSTTBCTTTCS--BCSSEE--ECSSCCEEETTHHHHHHHHTC---SSCTTTCCCCCGGG
T ss_pred             CccccCcCcCc--hhhhhc--ccCCcCeecHHHHHHHHhcCC---ccCCCccccccccc
Confidence            47789999999  444443  459999999999999997652   68999999876443

>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=99.23  E-value=5.4e-12  Score=69.81  Aligned_cols=54  Identities=19%  Similarity=0.379  Sum_probs=42.3

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      ..+++.|+||++  +...++  .++|||.||..||..|+....   ..||.|+..+....+
T Consensus         5 iP~~l~CpIc~~--~m~dPV--~~~cgh~fc~~ci~~~~~~~~---~~cP~~~~~l~~~~l   58 (78)
T d1t1ha_           5 FPEYFRCPISLE--LMKDPV--IVSTGQTYERSSIQKWLDAGH---KTCPKSQETLLHAGL   58 (78)
T ss_dssp             CSSSSSCTTTSC--CCSSEE--EETTTEEEEHHHHHHHHTTTC---CBCTTTCCBCSSCCC
T ss_pred             CCccCCCcCcCc--hhhCce--EccCCCcchHHHHHHHHHHCC---CCCCcccccCCcccc
Confidence            457899999999  444444  348999999999999997652   579999998765443

>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=99.21  E-value=7.5e-13  Score=69.08  Aligned_cols=46  Identities=24%  Similarity=0.584  Sum_probs=35.2

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP   76 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~   76 (103)
                      +...|+||++ .+.. +  ..++|||.||..||.+|       ..+||+||..++..
T Consensus         5 ~~l~C~IC~~-~~~~-p--~~lpCgH~fC~~Ci~~~-------~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQA-EAKC-P--KLLPCLHTLCSGCLEAS-------GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCS-SCBC-C--SCSTTSCCSBTTTCSSS-------SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCc-ccCC-C--EEecCCCHHhHHHHHcC-------CCcCcCCCCcccCC
Confidence            4469999999 5443 3  34589999999998642       36899999988644

>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=99.16  E-value=1.3e-12  Score=75.20  Aligned_cols=51  Identities=24%  Similarity=0.589  Sum_probs=38.2

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF   78 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~   78 (103)
                      .+...|+||++ .+. .+. ...+|||.||..||..|+.      ..||.||..+...++
T Consensus        20 ~~~l~C~IC~~-~~~-~pv-~~~~CgH~fC~~Ci~~~~~------~~CP~Cr~~~~~~~l   70 (97)
T d1jm7b_          20 EKLLRCSRCTN-ILR-EPV-CLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQDL   70 (97)
T ss_dssp             HHTTSCSSSCS-CCS-SCB-CCCSSSCCBCTTTGGGGTT------TBCSSSCCBCSCSSC
T ss_pred             hhcCCCccCCc-hhh-cCc-eeCCCCCchhHHHHHHHHh------ccccccCCcCchhhC
Confidence            45678999999 543 332 2337999999999999974      359999988765443

>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=99.11  E-value=4.1e-11  Score=68.96  Aligned_cols=53  Identities=11%  Similarity=0.018  Sum_probs=41.5

Q ss_pred             CCccccccccccccCCCCceEecCCC-chhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCS-HIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE   79 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~   79 (103)
                      .+++.||||.+  +...++  +++|+ |.|+..||..|+..+    ..||+|+..+....+.
T Consensus        20 P~~f~CPI~~~--lm~dPV--~~~~~~~ty~r~~I~~~l~~~----~~~P~~~~~l~~~~L~   73 (98)
T d1wgma_          20 CDEFLDPIMST--LMCDPV--VLPSSRVTVDRSTIARHLLSD----QTDPFNRSPLTMDQIR   73 (98)
T ss_dssp             CTTTBCTTTCS--BCSSEE--ECTTTCCEEEHHHHHHHTTTS----CBCTTTCSBCCTTTSE
T ss_pred             cHHhCCcCchh--HHHHHH--hcccccchhhHHHHHHHHHhc----CCcccccccccchhhc
Confidence            45789999999  455544  34765 589999999999877    7899999988765544

>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=98.88  E-value=5.2e-10  Score=63.51  Aligned_cols=51  Identities=29%  Similarity=0.619  Sum_probs=37.9

Q ss_pred             CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc----CCCCCCCCCCCC
Q 034125           20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER----LGKSCACPVCPF   71 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~----~~~~~~CP~Cr~   71 (103)
                      ....|+||++ .+.....+..++|+|.||..|+..|+...    ......||.|+.
T Consensus         4 ~~~~C~IC~~-~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLG-EYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCC-CCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCC-cccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4568999999 66555555666899999999999999754    112347998754

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=6.5e-05  Score=39.72  Aligned_cols=52  Identities=27%  Similarity=0.634  Sum_probs=37.1

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      +....|.||..    .+..+..-.|...||..|+.+.+...+.+...||.|+....
T Consensus         5 d~c~~C~~C~~----~~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   56 (70)
T d1fp0a1           5 DSATICRVCQK----PGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   56 (70)
T ss_dssp             SSSSCCSSSCS----SSCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCS
T ss_pred             CCCCCCCCCCC----cCEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCc
Confidence            45567888877    44555555699999999998765544455689999976543

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

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

Probab=97.01  E-value=0.00012  Score=36.18  Aligned_cols=48  Identities=27%  Similarity=0.650  Sum_probs=33.7

Q ss_pred             ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .|.||.. ....+..+..-.|...||..|+..-+...+.....||.|+.
T Consensus         2 ~C~vC~~-~~~~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRK-KGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCC-SSCCSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCC-CCCCCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            6888987 33334444444699999999998765544445688999975

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

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

Probab=96.61  E-value=0.00017  Score=36.95  Aligned_cols=51  Identities=22%  Similarity=0.527  Sum_probs=35.4

Q ss_pred             CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM   73 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~   73 (103)
                      .....|.||.+    .+..+..-.|...||..|+...+...+.....||.|+...
T Consensus         7 ~~~~~C~~C~~----~g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           7 HHMEFCRVCKD----GGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCC----CSSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCcCCCcCCCC----CCeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            44557999988    4444554468999999998754443334568999997543

>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=96.41  E-value=0.0013  Score=34.63  Aligned_cols=49  Identities=27%  Similarity=0.511  Sum_probs=28.6

Q ss_pred             CCccccccccccccCCCCceEec--CC-CchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESAMIRM--QC-SHIFHADCITPWLEERLGKSCACPVCPFQ   72 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~~~~~--~C-~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~   72 (103)
                      ++...| ||.. . ..+..+..-  .| ...||..|+.  +...+.....||.|+..
T Consensus        14 ~e~~~C-iC~~-~-~~~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          14 NEPTYC-LCNQ-V-SYGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             SSCCCS-TTCC-C-CCSSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCCCEE-EeCC-C-CCCCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            334445 9998 2 233322221  24 3569999984  33334467899999764

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

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

Probab=96.18  E-value=0.0036  Score=33.69  Aligned_cols=54  Identities=19%  Similarity=0.457  Sum_probs=35.7

Q ss_pred             CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHH-hc-----------CCCCCCCCCCCC
Q 034125           16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLE-ER-----------LGKSCACPVCPF   71 (103)
Q Consensus        16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~-~~-----------~~~~~~CP~Cr~   71 (103)
                      .....+..|.||--  +........--|+.+||..|+.+.-. +.           -..+.+|+.|-.
T Consensus        10 e~v~~D~mC~vC~v--~t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~n   75 (89)
T d1wila_          10 EPVVNDEMCDVCEV--WTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDN   75 (89)
T ss_dssp             CCCCCSCCCTTTCC--CCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCC
T ss_pred             cCCCcCccccccCc--ccccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhcc
Confidence            33467789999944  55554433334899999999998731 11           124578999954

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.14  E-value=0.002  Score=33.97  Aligned_cols=53  Identities=28%  Similarity=0.617  Sum_probs=31.7

Q ss_pred             CCCCccccccccccccCCCCceEecCCCchhhHHHHH----H-HHHhcCCCCCCCCCCCC
Q 034125           17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCIT----P-WLEERLGKSCACPVCPF   71 (103)
Q Consensus        17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~----~-~~~~~~~~~~~CP~Cr~   71 (103)
                      ...+...| ||.. ....+..+..-.|.-.||..|+.    . -+.........||.|+.
T Consensus        12 ~d~~~~~C-iC~~-~~~~~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          12 YDPNALYC-ICRQ-PHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             CCTTCCCS-TTCC-CCCSSCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             cCCCcCEE-ECCC-ccCCCeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            33455567 8987 43344445544688999999983    1 11111123489999954

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.60  E-value=0.00044  Score=36.41  Aligned_cols=55  Identities=18%  Similarity=0.289  Sum_probs=32.9

Q ss_pred             CCCCCCccccccccccccCCCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           15 SNHTDEEAECAICLEKEYSDES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        15 ~~~~~~~~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      ....+....| ||.. ...... .+..-.|...||..|+..-..........||.|+.
T Consensus        10 ~~~~~~~~~C-~C~~-~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~   65 (72)
T d1weea_          10 RGVDNWKVDC-KCGT-KDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE   65 (72)
T ss_dssp             CSSCSSEECC-TTCC-CSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHH
T ss_pred             cCCCCCeEEe-eCCC-CcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcC
Confidence            3333445667 7876 333333 45555689999999985422222234578888854

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.14  E-value=0.019  Score=30.37  Aligned_cols=51  Identities=20%  Similarity=0.341  Sum_probs=31.5

Q ss_pred             cccccccccccCCC-CceEecCCCchhhHHHHHHHHHh-cCCCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEE-RLGKSCACPVCPFQM   73 (103)
Q Consensus        22 ~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~-~~~~~~~CP~Cr~~~   73 (103)
                      ..+.||.. .+... ..+..=.|.-.||..|+..-... .......||.|+...
T Consensus        12 pv~CiC~~-~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~   64 (79)
T d1wepa_          12 PVYCLCRQ-PYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCSTTSC-SCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CeEeECCC-ccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCc
Confidence            34459987 33333 34444468999999998532222 122458999997644

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.15  E-value=0.0035  Score=33.99  Aligned_cols=52  Identities=17%  Similarity=0.444  Sum_probs=32.5

Q ss_pred             CCccccccccccccCC-C-CceEecCCCchhhHHHHHHHH----HhcCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSD-E-SAMIRMQCSHIFHADCITPWL----EERLGKSCACPVCPF   71 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~-~-~~~~~~~C~H~f~~~Cl~~~~----~~~~~~~~~CP~Cr~   71 (103)
                      +....|.||.. .... . ..+..-.|...||..|+...+    .........||.|..
T Consensus        14 ~~~~~C~iC~~-~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~   71 (88)
T d1weva_          14 EMGLACVVCRQ-MTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             HHCCSCSSSCC-CCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             cCcCCccCCCC-ccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCc
Confidence            45667999987 3222 2 233344589999999976422    122234588999954

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=93.45  E-value=0.062  Score=28.14  Aligned_cols=52  Identities=21%  Similarity=0.500  Sum_probs=30.3

Q ss_pred             CCCccccccccccccCCCCceEec---CCCchhhHHHHHHHHH---h--cCCCCCCCCCCCCC
Q 034125           18 TDEEAECAICLEKEYSDESAMIRM---QCSHIFHADCITPWLE---E--RLGKSCACPVCPFQ   72 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~---~C~H~f~~~Cl~~~~~---~--~~~~~~~CP~Cr~~   72 (103)
                      .++...| ||.. ....+.. +..   .|...||..|+.---.   .  .......||.|+..
T Consensus        13 ~~~~~~C-~C~~-~~~~~~~-i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~   72 (78)
T d1wewa_          13 PEIKVRC-VCGN-SLETDSM-IQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLT   72 (78)
T ss_dssp             CCCCCCC-SSCC-CCCCSCE-EECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHC
T ss_pred             CCCccEe-ECCC-ccCCCcE-EEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCc
Confidence            3445567 8988 4333333 344   3899999999842100   0  01134889999654

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=93.39  E-value=0.0031  Score=32.18  Aligned_cols=53  Identities=23%  Similarity=0.515  Sum_probs=34.0

Q ss_pred             CCccccccccccccCCCCc-eEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSDESA-MIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQ   72 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~~~~-~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~   72 (103)
                      .....|.||.. ....+.. +..-.|+..||..|+..-.... ......||.|+..
T Consensus         4 ~~~~~C~~C~~-~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGE-SYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCC-CCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCC-CCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            34568999998 4444433 4444699999999986422221 1245889999754

>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=91.08  E-value=0.39  Score=24.75  Aligned_cols=39  Identities=23%  Similarity=0.332  Sum_probs=27.3

Q ss_pred             CccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhc
Q 034125           20 EEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEER   59 (103)
Q Consensus        20 ~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~   59 (103)
                      ....|.+|.+ .+.....+..-. =+|.||..|-+..++..
T Consensus         7 ~~l~CtlC~e-rLEdtHFVQCPsv~~HkFCFpCsr~sik~q   46 (80)
T d2cs3a1           7 GPLCCTICHE-RLEDTHFVQCPSVPSHKFCFPCSRESIKAQ   46 (80)
T ss_dssp             CSCCCSSSCS-CCSSTTSEECSSCSSCEECHHHHHHHHHHH
T ss_pred             Cceeeeeehh-hhcCCceEeCCCCcCCceeccccHHHHHhc
Confidence            4478999999 544444443222 37999999999988665

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.02  E-value=0.076  Score=24.53  Aligned_cols=30  Identities=17%  Similarity=0.462  Sum_probs=22.1

Q ss_pred             CCCccccccccccccCCCCceEecCCCchhhHHH
Q 034125           18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADC   51 (103)
Q Consensus        18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C   51 (103)
                      ..-...|..|.+  +..++++.  .=+|.||..|
T Consensus        12 ~~fG~~C~~C~~--~ItG~V~~--Ag~~~yHP~C   41 (41)
T d1v6ga1          12 RLYGTRCFSCDQ--FIEGEVVS--ALGKTYHPDC   41 (41)
T ss_dssp             GSCCCBCTTTCC--BCCSCCEE--ETTEEECTTT
T ss_pred             HHhCcccccccC--EeeeeeeE--ecCcccCCCC
Confidence            355678999999  66777666  3567898776

>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=87.93  E-value=0.091  Score=26.21  Aligned_cols=44  Identities=27%  Similarity=0.570  Sum_probs=29.0

Q ss_pred             ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125           21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC   69 (103)
Q Consensus        21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C   69 (103)
                      ...|--|.. .+..........|++.||..|=.-.-+.-    .+||-|
T Consensus        15 ~~~C~gC~~-~l~~~~~y~C~~C~~~FC~dCD~fiHe~l----h~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQG-ELKDQHVYVCAVCQNVFCVDCDVFVHDSL----HSCPGC   58 (59)
T ss_dssp             CCEETTTTE-ECTTSEEECCTTTTCCBCHHHHHTTTTTS----CSSSTT
T ss_pred             CCCccCCCC-cCCCCceEECcCCCCccccccchhhhhhh----cCCCCC
Confidence            346878887 54443334444699999999975443433    679987

>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=87.72  E-value=1.1  Score=23.75  Aligned_cols=52  Identities=15%  Similarity=0.269  Sum_probs=34.3

Q ss_pred             CCccccccccccccCC---CC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125           19 DEEAECAICLEKEYSD---ES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP   74 (103)
Q Consensus        19 ~~~~~C~IC~~~~~~~---~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~   74 (103)
                      -....|.||-+ .+-.   +. .+...-|+--.|..|..-=..   .++..||.|++.+.
T Consensus        14 ~~~q~CqiCGd-~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErk---eG~q~CpqCkt~Yk   69 (93)
T d1weoa_          14 LDGQFCEICGD-QIGLTVEGDLFVACNECGFPACRPCYEYERR---EGTQNCPQCKTRYK   69 (93)
T ss_dssp             CSSCBCSSSCC-BCCBCSSSSBCCSCSSSCCCCCHHHHHHHHH---TSCSSCTTTCCCCC
T ss_pred             cccchhhhccc-ccccCCCCCEEEEecccCCccchHHHHHHHh---ccCccCcccCChhh
Confidence            45668999998 4321   22 234445788899999864322   24589999988764

>d2pnxa1 g.50.1.2 (A:195-245) Inhibitor of growth protein 4, Ing4 {Homo sapiens [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Inhibitor of growth protein 4, Ing4
species: Homo sapiens [TaxId: 9606]

Probab=85.46  E-value=0.021  Score=27.68  Aligned_cols=45  Identities=24%  Similarity=0.524  Sum_probs=25.0

Q ss_pred             cccccccccccCCCCceEecC--C-CchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125           22 AECAICLEKEYSDESAMIRMQ--C-SHIFHADCITPWLEERLGKSCACPVCPF   71 (103)
Q Consensus        22 ~~C~IC~~~~~~~~~~~~~~~--C-~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~   71 (103)
                      .-| ||.. . ..+..+..-.  | ...||..|+.  +...+.+...||.|+.
T Consensus         3 ~yC-~C~~-~-~~~~mi~Cd~~~C~~~WfH~~Cvg--l~~~p~~~w~C~~C~~   50 (51)
T d2pnxa1           3 TYC-LCHQ-V-SYGEMIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQ   50 (51)
T ss_dssp             EET-TTTE-E-CCSEEEECSCTTCSSCEEEGGGGT--CSSCCSSCCCCHHHHC
T ss_pred             cEE-EcCC-C-CCCCEEEEecCCCCCCCEeCCccC--CCcCCCCcEECcCCCC
Confidence            346 7877 3 2333333212  3 4569999985  2333345578888754