Citrus Sinensis ID: 033086

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MASAYSSAINNNTVLRCPIIDLSFDLDEALTMTTTDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEccccccccccccEEEccccHHHHccccccccccccccccccccEEcccccccEEEEEcccccccccccccccEEEEHHHccccccccccccccccccHHHHHHHHHHccccccEEEEEEccc
Coil and Loop (DISEMBL)
masayssainnntvlrcpiidlsfdldealtmtttdtpstpsddqdqqkiEVTGTNGGLLMVasdlptgagsgttegVCMVCmedfdpqefpgkqvpcghvfHAKCISTWIslsnscpvcrsrciisg
Flexible Loop (DISEMBL)
masayssainnntvlrCPIIDLSFDLDEALTMTTtdtpstpsddqdqqKIEVTGTNGGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTwislsnscpvcRSRCIISG
Low Complexity Region (SEG)
MASAYSSAINNNTVLRCPIIDLSFDLDEALTMtttdtpstpsddqdqqKIEVTGTNGGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG
Disordered region (IsUnstruct)
********INNNTVLRCPIIDLSFDLDEALT*************************GGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII**
Disordered Region (DISOPRED)
********INNNTVLRCPIIDLSFDLDE********************************************GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII**
Disordered Region (DISEMBL)
MASAYSSAINNNTVLRCPIIDLSFDLDEALTMT**************QKIEVTGTNGGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG
Disordered Region (DISPRO)
*********NNNTVLRCPIIDLSFDLDEALTMT***************KIE***TNGGLLMVASDLPTG****TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIIS*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASAYSSAINNNTVLRCPIIDLSFDLDEALTMTTTDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG
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	128	2.2.26 [Sep-21-2011]
P0CH30	338	E3 ubiquitin-protein liga	N/A	no	0.328	0.124	0.511	3e-08
Q5EAE9	407	RING-H2 finger protein AT	no	no	0.484	0.152	0.393	8e-08
A8Y4B2	622	E3 ubiquitin-protein liga	N/A	no	0.359	0.073	0.382	1e-07
Q9M0R7	132	RING-H2 finger protein AT	no	no	0.445	0.431	0.403	2e-07
Q8LPN7	328	E3 ubiquitin-protein liga	no	no	0.328	0.128	0.534	2e-07
Q20798	610	E3 ubiquitin-protein liga	yes	no	0.359	0.075	0.382	2e-07
Q95SP2	626	E3 ubiquitin-protein liga	yes	no	0.343	0.070	0.361	2e-07
Q9M0R5	345	Putative RING-H2 finger p	no	no	0.390	0.144	0.442	3e-07
Q08CG8	448	RING finger protein 44 OS	yes	no	0.375	0.107	0.367	3e-07
Q8RX29	217	RING-H2 finger protein AT	no	no	0.406	0.239	0.425	3e-07

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

 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 30/43 (69%), Gaps = 1/43 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C VCM+DF+ +    KQ+PC H++H  C+  W+ L NSCPVCR
Sbjct: 224 CAVCMDDFE-EGTEAKQMPCKHLYHKDCLLPWLELHNSCPVCR 265

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: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q5EAE9|ATL43_ARATH RING-H2 finger protein ATL43 OS=Arabidopsis thaliana GN=ATL43 PE=2 SV=2

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 62  VASDLPT---GAGSGTTEGV-CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSC 117
           V   LP    GA SG  +G+ C VC+  F+P E       C H FH +C+ TW+   ++C
Sbjct: 125 VIESLPVFRFGALSGHKDGLECAVCLARFEPTEVLRLLPKCKHAFHVECVDTWLDAHSTC 184

Query: 118 PVCRSR 123
           P+CR R
Sbjct: 185 PLCRYR 190

Arabidopsis thaliana (taxid: 3702)

>sp|A8Y4B2|HRD1_CAEBR E3 ubiquitin-protein ligase hrd-1 OS=Caenorhabditis briggsae GN=sel-11 PE=3 SV=2

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 76  EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
           +  C++C E+   +  P K++PC HVFHA C+ +W     +CP CR+
Sbjct: 289 DATCIICREEMTVESSP-KRLPCSHVFHAHCLRSWFQRQQTCPTCRT 334

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated ubc-7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system, which is also called the ER-associated degradation (ERAD) system, involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Thought to play a role together with hsp-3 in developmental growth and function of intestinal cells and to play a role together with hsp-4 in gonad formation.

Caenorhabditis briggsae (taxid: 6238)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9M0R7|ATL39_ARATH RING-H2 finger protein ATL39 OS=Arabidopsis thaliana GN=ATL39 PE=2 SV=1

 Score = 54.7 bits (130), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 34/57 (59%)

Query: 69  GAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI 125
           G   G  E  C+VC+ +F   E      PC HVFHA C+  W+S S++CP+CR++ +
Sbjct: 75  GIEPGIGELECVVCLNEFKDDETLRLVPPCVHVFHADCVDIWLSHSSTCPICRAKVV 131

Arabidopsis thaliana (taxid: 3702)

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

 Score = 54.7 bits (130), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/43 (53%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C VCM++F+      KQ+PC HVFH  C+  W+ L NSCPVCR
Sbjct: 216 CAVCMDEFEDGS-DVKQMPCKHVFHQDCLLPWLELHNSCPVCR 257

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: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q20798|HRD1_CAEEL E3 ubiquitin-protein ligase hrd-1 OS=Caenorhabditis elegans GN=sel-11 PE=3 SV=1

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)

Query: 76  EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
           +  C++C E+      P K++PC HVFHA C+ +W     +CP CR+
Sbjct: 289 DATCIICREEMTVDASP-KRLPCSHVFHAHCLRSWFQRQQTCPTCRT 334

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated ubc-7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system, which is also called the ER-associated degradation (ERAD) system, involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Thought to play a role together with hsp-3 in developmental growth and function of intestinal cells and to play a role together with hsp-4 in gonad formation.

Caenorhabditis elegans (taxid: 6239)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q95SP2|HRD1_DROME E3 ubiquitin-protein ligase HRD1 OS=Drosophila melanogaster GN=sip3 PE=1 SV=1

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 3/47 (6%)

Query: 75  TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           ++ +C++C ED        K++PCGH+FH  C+ +W     +CP CR
Sbjct: 285 SDNICIICREDMVNHS---KKLPCGHIFHTTCLRSWFQRQQTCPTCR 328

Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation. Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins. Also promotes the degradation of normal but naturally short-lived proteins. Protects cells from ER stress-induced apoptosis. Sequesters p53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis.

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9M0R5|ATL36_ARATH Putative RING-H2 finger protein ATL36 OS=Arabidopsis thaliana GN=ATL36 PE=3 SV=1

 Score = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 31/52 (59%), Gaps = 2/52 (3%)

Query: 71  GSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
           G G  E  C +C+ +F+ QE      PC H FHA CI  W+S  ++CPVCR+
Sbjct: 117 GKGGVE--CAICLSEFEDQETLRWMPPCSHTFHANCIDVWLSSWSTCPVCRA 166

Arabidopsis thaliana (taxid: 3702)

>sp|Q08CG8|RNF44_DANRE RING finger protein 44 OS=Danio rerio GN=rnf44 PE=2 SV=1

 Score = 53.9 bits (128), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/49 (36%), Positives = 33/49 (67%), Gaps = 1/49 (2%)

Query: 74  TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
           + + +C+VC  DF+ ++   + +PC H FHAKC+  W+  + +CP+CR+
Sbjct: 391 SEQTLCVVCFSDFESRQLL-RVLPCNHEFHAKCVDKWLKTNRTCPICRA 438

Danio rerio (taxid: 7955)

>sp|Q8RX29|ATL70_ARATH RING-H2 finger protein ATL70 OS=Arabidopsis thaliana GN=ATL70 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 34/54 (62%), Gaps = 2/54 (3%)

Query: 70  AGSGTTEGVCMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLSNSCPVCRS 122
           A   TT   C +C+ D+  +    +Q+P C H+FH KCI TW+ L+ +CPVCR+
Sbjct: 138 AKGPTTASCCAICLGDYKGKHL-LRQLPDCNHLFHLKCIDTWLRLNPTCPVCRT 190

Arabidopsis thaliana (taxid: 3702)

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	128
255546191	124	hypothetical protein RCOM_1048070 [Ricin	0.781	0.806	0.412	8e-15
224114495	99	predicted protein [Populus trichocarpa]	0.703	0.909	0.436	7e-12
255546337	109	hypothetical protein RCOM_1049910 [Ricin	0.671	0.788	0.407	8e-12
449488135	116	PREDICTED: E3 ubiquitin-protein ligase R	0.445	0.491	0.564	3e-11
449466270	115	PREDICTED: E3 ubiquitin-protein ligase R	0.484	0.539	0.461	2e-10
359484547	102	PREDICTED: E3 ubiquitin-protein ligase R	0.625	0.784	0.401	5e-09
297738762	168	unnamed protein product [Vitis vinifera]	0.625	0.476	0.411	5e-09
125575202	336	hypothetical protein OsJ_31957 [Oryza sa	0.328	0.125	0.581	2e-08
297610691	304	Os10g0487400 [Oryza sativa Japonica Grou	0.328	0.138	0.581	2e-08
18087865	370	putative zinc finger protein [Oryza sati	0.328	0.113	0.581	3e-08

>gi|255546191|ref|XP_002514155.1| hypothetical protein RCOM_1048070 [Ricinus communis] gi|223546611|gb|EEF48109.1| hypothetical protein RCOM_1048070 [Ricinus communis]

 Score = 85.1 bits (209), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 45/109 (41%), Positives = 64/109 (58%), Gaps = 9/109 (8%)

Query: 21  DLSFDLDEALTMTT-TDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGVC 79
           +LSFDLD ALT+   +   +TP+++  Q  +     +       + +PT   +   + VC
Sbjct: 22  NLSFDLDVALTLQEISHHQTTPANNSPQVVVPADHRHH------NHMPTTIPATEDDEVC 75

Query: 80  MVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG 128
           + CME F+     GKQ PCGHV+HA CIS+W+S SN CP+C  RC ISG
Sbjct: 76  IFCMEGFESSRIGGKQTPCGHVYHAACISSWLSYSNRCPLC--RCHISG 122

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114495|ref|XP_002332344.1| predicted protein [Populus trichocarpa] gi|222832065|gb|EEE70542.1| predicted protein [Populus trichocarpa]

 Score = 75.5 bits (184), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 48/110 (43%), Positives = 63/110 (57%), Gaps = 20/110 (18%)

Query: 19  IIDLSFDLDEALTMTTTDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGV 78
           +ID SFDLDEALT+        P +   Q    +T +N     + +D+PT   +G  + V
Sbjct: 10  LIDTSFDLDEALTL--------PQNLSQQ----ITYSNS---TIVADMPTALTTG--DAV 52

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG 128
           C VCME F      GK+VPCGHV+H  CIS  +S  +SCP+C  RC ISG
Sbjct: 53  CAVCMEGFQ-SGIGGKKVPCGHVYHEACISALLSHRHSCPLC--RCDISG 99

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546337|ref|XP_002514228.1| hypothetical protein RCOM_1049910 [Ricinus communis] gi|223546684|gb|EEF48182.1| hypothetical protein RCOM_1049910 [Ricinus communis]

 Score = 75.1 bits (183), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 42/103 (40%), Positives = 54/103 (52%), Gaps = 17/103 (16%)

Query: 19  IIDLSFDLDEALTMTTTDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGV 78
           +ID+SFD+DEAL +           D                 + +D+PT   S     V
Sbjct: 16  LIDVSFDMDEALALPPNFGHQISESDS----------------LVADMPT-VTSTDDHDV 58

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C +CME F      GKQVPCGHV+HA CIS+W+S  NSCP+CR
Sbjct: 59  CSICMEGFQSPGVCGKQVPCGHVYHAPCISSWLSNCNSCPLCR 101

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449488135|ref|XP_004157948.1| PREDICTED: E3 ubiquitin-protein ligase RING1-like [Cucumis sativus]

 Score = 73.6 bits (179), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 35/62 (56%), Positives = 47/62 (75%), Gaps = 5/62 (8%)

Query: 60  LMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPV 119
           +MVA +LPT A +   + VC VCMEDF P E  GKQ+PCGHV+H  C+S+W+S+ +SCP+
Sbjct: 43  VMVA-ELPTVAAA---DDVCAVCMEDFLPDE-GGKQIPCGHVYHQSCLSSWLSIRDSCPL 97

Query: 120 CR 121
           CR
Sbjct: 98  CR 99

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449466270|ref|XP_004150849.1| PREDICTED: E3 ubiquitin-protein ligase RNF181-like [Cucumis sativus] gi|449488131|ref|XP_004157947.1| PREDICTED: E3 ubiquitin-protein ligase RNF181-like [Cucumis sativus]

 Score = 70.5 bits (171), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 44/65 (67%), Gaps = 3/65 (4%)

Query: 64  SDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR 123
           SD P          VC VC++DF P E  GKQ+PCGHV+H  CIS+W+++++ CP+C  R
Sbjct: 44  SDSPVADFPTVVADVCAVCLDDFHPDEA-GKQIPCGHVYHESCISSWLTVADCCPLC--R 100

Query: 124 CIISG 128
           C+++G
Sbjct: 101 CLVAG 105

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484547|ref|XP_003633119.1| PREDICTED: E3 ubiquitin-protein ligase RNF115-like [Vitis vinifera]

 Score = 65.9 bits (159), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 41/102 (40%), Positives = 53/102 (51%), Gaps = 22/102 (21%)

Query: 20  IDLSFDLDEALTMTTTDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGVC 79
           IDL FDLD A+T              D  +I  + +      + S +PT     T    C
Sbjct: 16  IDLCFDLDLAITAV-----------DDTSEISKSTS------MVSTMPTV----TAVDAC 54

Query: 80  MVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
            VC E F   E  GKQ+PCGH +HA CI++W+SL NSCP+CR
Sbjct: 55  TVCREGFQSGE-GGKQLPCGHFYHAGCIASWLSLRNSCPLCR 95

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738762|emb|CBI28007.3| unnamed protein product [Vitis vinifera]

 Score = 65.9 bits (159), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 42/102 (41%), Positives = 54/102 (52%), Gaps = 22/102 (21%)

Query: 20  IDLSFDLDEALTMTTTDTPSTPSDDQDQQKIEVTGTNGGLLMVASDLPTGAGSGTTEGVC 79
           IDL FDLD A+T           DD      E++ +      + S +PT     T    C
Sbjct: 82  IDLCFDLDLAITAV---------DDTS----EISKSTS----MVSTMPTV----TAVDAC 120

Query: 80  MVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
            VC E F   E  GKQ+PCGH +HA CI++W+SL NSCP+CR
Sbjct: 121 TVCREGFQSGEG-GKQLPCGHFYHAGCIASWLSLRNSCPLCR 161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125575202|gb|EAZ16486.1| hypothetical protein OsJ_31957 [Oryza sativa Japonica Group]

 Score = 63.9 bits (154), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 30/43 (69%), Gaps = 1/43 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C VC EDF P E   KQ+PC H++HA CI  W+ L NSCP+CR
Sbjct: 202 CAVCKEDFSPGEG-AKQMPCKHIYHADCIMPWLDLHNSCPICR 243

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297610691|ref|NP_001064906.2| Os10g0487400 [Oryza sativa Japonica Group] gi|255679510|dbj|BAF26820.2| Os10g0487400 [Oryza sativa Japonica Group]

 Score = 63.9 bits (154), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 30/43 (69%), Gaps = 1/43 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C VC EDF P E   KQ+PC H++HA CI  W+ L NSCP+CR
Sbjct: 170 CAVCKEDFSPGEG-AKQMPCKHIYHADCIMPWLDLHNSCPICR 211

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18087865|gb|AAL59019.1|AC087182_2 putative zinc finger protein [Oryza sativa Japonica Group] gi|31432769|gb|AAP54362.1| Zinc finger, C3HC4 type family protein, expressed [Oryza sativa Japonica Group] gi|215734849|dbj|BAG95571.1| unnamed protein product [Oryza sativa Japonica Group]

 Score = 63.2 bits (152), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 30/43 (69%), Gaps = 1/43 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C VC EDF P E   KQ+PC H++HA CI  W+ L NSCP+CR
Sbjct: 236 CAVCKEDFSPGEG-AKQMPCKHIYHADCIMPWLDLHNSCPICR 277

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	128
UNIPROTKB|E2QUN1	153	RNF181 "Uncharacterized protei	0.460	0.385	0.426	1.8e-09
TAIR|locus:2122348	132	AT4G09100 [Arabidopsis thalian	0.445	0.431	0.403	1.8e-09
TAIR|locus:2200610	204	AT1G26800 [Arabidopsis thalian	0.406	0.254	0.415	2.2e-09
TAIR|locus:2131463	356	AT4G26400 [Arabidopsis thalian	0.445	0.160	0.433	2.5e-09
TAIR|locus:2199272	248	AT1G68180 [Arabidopsis thalian	0.351	0.181	0.434	3.2e-09
TAIR|locus:2057861	237	AT2G27940 [Arabidopsis thalian	0.375	0.202	0.46	3.4e-09
TAIR|locus:2153554	176	DAF "DEFECTIVE IN ANTHER DEHIS	0.335	0.244	0.441	3.6e-09
UNIPROTKB|C9J1C6	139	RNF181 "E3 ubiquitin-protein l	0.460	0.424	0.409	3.6e-09
UNIPROTKB|Q9P0P0	153	RNF181 "E3 ubiquitin-protein l	0.460	0.385	0.409	3.6e-09
TAIR|locus:2053225	145	AT2G28920 [Arabidopsis thalian	0.421	0.372	0.407	3.6e-09

UNIPROTKB|E2QUN1 RNF181 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 26/61 (42%), Positives = 38/61 (62%)

Query:    62 VASDLP-TGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC 120
             V  +LP T   S   E  C VC+ +F+ +E    ++PC H+FH+ CI  W+S +NSCP+C
Sbjct:    58 VVENLPRTVIRSSQAELKCPVCLLEFEEEE-TAIEMPCRHLFHSNCILPWLSKTNSCPLC 116

Query:   121 R 121
             R
Sbjct:   117 R 117

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2122348 AT4G09100 [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 23/57 (40%), Positives = 34/57 (59%)

Query:    69 GAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI 125
             G   G  E  C+VC+ +F   E      PC HVFHA C+  W+S S++CP+CR++ +
Sbjct:    75 GIEPGIGELECVVCLNEFKDDETLRLVPPCVHVFHADCVDIWLSHSSTCPICRAKVV 131

GO:0005576 "extracellular region" evidence=ISM

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

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

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 22/53 (41%), Positives = 32/53 (60%)

Query:    76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG 128
             EG C++C+E++  +E   K++PC H FH  CI  W+    SCPVCR    + G
Sbjct:   110 EGECVICLEEWKSEETV-KEMPCKHRFHGGCIEKWLGFHGSCPVCRYEMPVDG 161

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2131463 AT4G26400 [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 2.5e-09, P = 2.5e-09
 Identities = 26/60 (43%), Positives = 37/60 (61%)

Query:    62 VASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
             V  +LPT   S + +  C +C++DFD      K++PC H FH +CI  W+ L +SCPVCR
Sbjct:   226 VVDNLPTVKISESLQ--CSICLDDFDKGS-EAKEMPCKHKFHIRCIVPWLELHSSCPVCR 282

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

GO:0010200 "response to chitin" evidence=IEP

GO:0000303 "response to superoxide" evidence=RCA

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

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

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

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

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

TAIR|locus:2199272 AT1G68180 [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 3.2e-09, P = 3.2e-09
 Identities = 20/46 (43%), Positives = 34/46 (73%)

Query:    76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
             E VC +C E+F+  E  GK++ C H++H+ CI +W+++ N+CP+CR
Sbjct:   135 EKVCAICKEEFEVGE-EGKELKCLHLYHSSCIVSWLNIHNTCPICR 179

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2057861 AT2G27940 [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 3.4e-09, P = 3.4e-09
 Identities = 23/50 (46%), Positives = 33/50 (66%)

Query:    79 CMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLSNSCPVCRSRCIIS 127
             C++C+ DF+  E   K +P CGHVFH  C+ TW+S   +CP+CRS  + S
Sbjct:   140 CVICLSDFEEGETV-KVIPHCGHVFHVDCVDTWLSSYVTCPLCRSNQLFS 188

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

TAIR|locus:2153554 DAF "DEFECTIVE IN ANTHER DEHISCENCE1- ( DAD1-) Activating Factor" [Arabidopsis thaliana (taxid:3702)]

 Score = 115 (45.5 bits), Expect = 3.6e-09, Sum P(2) = 3.6e-09
 Identities = 19/43 (44%), Positives = 24/43 (55%)

Query:    79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
             C++C+ DF   E       C H FH KCI TW+   +SCP CR
Sbjct:   113 CLICLGDFVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTCR 155

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

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 = 25/61 (40%), Positives = 38/61 (62%)

Query:    62 VASDLPTGAGSGT-TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC 120
             V  +LP     G+  E  C VC+ +F+ +E    ++PC H+FH+ CI  W+S +NSCP+C
Sbjct:    58 VVENLPRTVIRGSQAELKCPVCLLEFEEEE-TAIEMPCHHLFHSSCILPWLSKTNSCPLC 116

Query:   121 R 121
             R
Sbjct:   117 R 117

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 = 25/61 (40%), Positives = 38/61 (62%)

Query:    62 VASDLPTGAGSGT-TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC 120
             V  +LP     G+  E  C VC+ +F+ +E    ++PC H+FH+ CI  W+S +NSCP+C
Sbjct:    58 VVENLPRTVIRGSQAELKCPVCLLEFEEEE-TAIEMPCHHLFHSSCILPWLSKTNSCPLC 116

Query:   121 R 121
             R
Sbjct:   117 R 117

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2053225 AT2G28920 [Arabidopsis thaliana (taxid:3702)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 22/54 (40%), Positives = 30/54 (55%)

Query:    69 GAGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
             G G G    VC++C+EDF   +     V C HVFH  CI +W     +CP+CR+
Sbjct:    83 GDGDGVKADVCVICLEDFKVNDVVRVLVRCKHVFHVDCIDSWCFYKLTCPICRA 136

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.02110006 hypothetical protein (99 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	128
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-09
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-09
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	7e-09
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-08
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	2e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	3e-06
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	3e-06
smart00184	40	smart00184, RING, Ring finger	4e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-04

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

 Score = 56.2 bits (136), Expect = 5e-12
 Identities = 20/47 (42%), Positives = 32/47 (68%), Gaps = 1/47 (2%)

Query: 77  GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR 123
             C +C+++F+P E     +PCGHVFH +C+  W+  SN+CP+CR+ 
Sbjct: 1   DECPICLDEFEPGEEV-VVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

>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 = 49.8 bits (119), Expect = 1e-09
 Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 4/47 (8%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRC 124
           C +C+E+F     P   +PCGHVF   CI  W+ S  N+CP+CR+  
Sbjct: 2   CPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 49.7 bits (119), Expect = 2e-09
 Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 9/55 (16%)

Query: 76  EGVCMVCMEDFDPQ----EFPGKQVP-----CGHVFHAKCISTWISLSNSCPVCR 121
           + VC +C   FD      + PG   P     CGH FH  CIS W+   N+CP+CR
Sbjct: 19  DDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 51.9 bits (124), Expect = 7e-09
 Identities = 25/77 (32%), Positives = 35/77 (45%), Gaps = 11/77 (14%)

Query: 50  IEVTGTNGGLLMVASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQV---PCGHVFHAKC 106
           I  T T G L  ++ +    A  G     C +CM +F        ++   PC H FH  C
Sbjct: 300 IPTTTTKGSLKPLSIERAVEADKGVE---CAICMSNF----IKNDRLRVLPCDHRFHVGC 352

Query: 107 ISTWI-SLSNSCPVCRS 122
           +  W+   SN CPVCR+
Sbjct: 353 VDKWLLGYSNKCPVCRT 369

Length = 374

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

 Score = 51.5 bits (123), Expect = 1e-08
 Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 9/62 (14%)

Query: 73  GTTEGVCMVCMEDF---DPQEFPG------KQVPCGHVFHAKCISTWISLSNSCPVCRSR 123
             ++  C +CM++    D +  P       K++PCGH+ H  C+  W+    +CP+CR  
Sbjct: 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRP 343

Query: 124 CI 125
            I
Sbjct: 344 VI 345

Length = 491

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

 Score = 46.3 bits (110), Expect = 3e-08
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 3/48 (6%)

Query: 75  TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
            E  C +C++       P    PCGHVF  +CI  ++   + CP+CR+
Sbjct: 1   EELECPICLDLLRD---PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 42.5 bits (100), Expect = 2e-06
 Identities = 23/58 (39%), Positives = 29/58 (50%), Gaps = 12/58 (20%)

Query: 76  EGVCMVCMEDFD---PQ-EFPGKQVP-----CGHVFHAKCISTWISLSNS---CPVCR 121
           + VC +C   FD   PQ +FPG   P     C H FH  CI  W++   S   CP+CR
Sbjct: 21  DDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCR 78

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

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

 Score = 44.4 bits (105), Expect = 3e-06
 Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 4/47 (8%)

Query: 79  CMVCMEDFDPQE----FPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C +CME    +E    + G    C HVF  +CI  W    N+CPVCR
Sbjct: 177 CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 44.7 bits (105), Expect = 3e-06
 Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 7/56 (12%)

Query: 72   SGTTEGVCMVCMEDFDPQE--FPGKQVP-CGHVFHAKCISTWISLSNS--CPVCRS 122
            SG  E  C +C    D  +   P K+   C + FH +C+  W + S    CP+CRS
Sbjct: 1467 SGHEE--CAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRS 1520

Length = 1525

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

 Score = 41.0 bits (96), Expect = 4e-06
 Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVC 120
           C +C+E++         +PCGH F   CI  W+ S +N+CP+C
Sbjct: 1   CPICLEEYLK---DPVILPCGHTFCRSCIRKWLESGNNTCPIC 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|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 39.8 bits (93), Expect = 2e-05
 Identities = 16/46 (34%), Positives = 18/46 (39%), Gaps = 1/46 (2%)

Query: 77  GVCMVCMEDFDP-QEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           G C  C     P  E P     C H FH  CI  W+     CP+ R
Sbjct: 32  GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDR 77

Length = 88

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

 Score = 35.9 bits (83), Expect = 3e-04
 Identities = 17/43 (39%), Positives = 27/43 (62%), Gaps = 4/43 (9%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVC 120
           C +C+E+      P   +PCGH+F +KCI +W+   N +CP+C
Sbjct: 1   CPICLEEPKD---PVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	128
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.65
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.5
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.47
PHA02929	238	N1R/p28-like protein; Provisional	99.45
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.4
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.38
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.37
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.37
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.32
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.32
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.3
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.3
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.29
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.28
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.2
PHA02926	242	zinc finger-like protein; Provisional	99.19
PF14634	44	zf-RING_5: zinc-RING finger domain	99.19
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.18
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.16
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.08
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.07
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.07
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.03
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	99.0
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.96
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.86
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.85
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.84
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.83
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.78
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.77
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.76
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.66
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.66
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.65
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.55
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.54
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.48
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.47
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.41
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.34
KOG0825	1134	consensus PHD Zn-finger protein [General function	98.32
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.31
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.27
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	98.22
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	98.15
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	98.12
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	98.08
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	98.0
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.96
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.92
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.88
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.81
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.61
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	97.56
KOG2660	331	consensus Locus-specific chromosome binding protei	97.56
PHA02825	162	LAP/PHD finger-like protein; Provisional	97.54
COG5152	259	Uncharacterized conserved protein, contains RING a	97.53
PHA02862	156	5L protein; Provisional	97.52
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	97.34
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.31
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.29
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.28
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.22
PF04641	260	Rtf2: Rtf2 RING-finger	97.14
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	97.14
KOG1002	791	consensus Nucleotide excision repair protein RAD16	97.13
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.12
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.01
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.97
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.88
KOG1940	276	consensus Zn-finger protein [General function pred	96.84
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.83
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.81
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.75
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.73
KOG4739	233	consensus Uncharacterized protein involved in syna	96.67
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.66
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.64
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.58
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.53
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.25
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.17
KOG3053	293	consensus Uncharacterized conserved protein [Funct	96.12
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	96.01
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	96.0
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	95.82
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.8
PHA03096	284	p28-like protein; Provisional	95.43
KOG1001	674	consensus Helicase-like transcription factor HLTF/	95.19
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	95.19
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.04
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	94.95
KOG4367	699	consensus Predicted Zn-finger protein [Function un	94.78
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	94.69
KOG3002	299	consensus Zn finger protein [General function pred	94.65
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	94.62
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	94.55
KOG3899	381	consensus Uncharacterized conserved protein [Funct	94.23
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	94.2
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	93.99
KOG0298	1394	consensus DEAD box-containing helicase-like transc	93.88
KOG1609	323	consensus Protein involved in mRNA turnover and st	93.8
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	92.57
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	92.42
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	92.14
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	92.1
KOG2068	327	consensus MOT2 transcription factor [Transcription	91.7
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	91.57
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	91.23
KOG3113	293	consensus Uncharacterized conserved protein [Funct	88.57
COG5109	396	Uncharacterized conserved protein, contains RING Z	88.13
KOG0825	1134	consensus PHD Zn-finger protein [General function	87.76
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	86.97
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	86.4
KOG3005	276	consensus GIY-YIG type nuclease [General function	85.98
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	84.85
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	83.49
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	82.73
PF06844	68	DUF1244: Protein of unknown function (DUF1244); In	82.33
KOG1815	444	consensus Predicted E3 ubiquitin ligase [Posttrans	82.1
KOG4718	235	consensus Non-SMC (structural maintenance of chrom	80.8
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	80.5

>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=99.65  E-value=3.7e-17  Score=87.50  Aligned_cols=43  Identities=49%  Similarity=1.211  Sum_probs=38.3

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccC
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      +|+||++.+.. +..+..++|||.||.+||.+|++.+.+||+||
T Consensus         2 ~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            69999999987 55667889999999999999999999999997

...

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

Probab=99.50  E-value=7.3e-15  Score=108.32  Aligned_cols=47  Identities=34%  Similarity=1.029  Sum_probs=41.2

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCcc-ccccCcce
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNS-CPVCRSRC  124 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~-CP~Cr~~~  124 (128)
                      ..|+||+++|.. ++.++.|||+|.||..||++||.+.++ ||+||...
T Consensus       230 ~~CaIClEdY~~-GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEK-GDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             ceEEEeeccccc-CCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence            489999999999 556677999999999999999987765 99998754

>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=99.47  E-value=4.8e-14  Score=83.16  Aligned_cols=46  Identities=43%  Similarity=1.099  Sum_probs=36.5

Q ss_pred             ccccccccccccCC---------CCCCeEcCCCCcccHhhHHHHhccCccccccC
Q 033086           76 EGVCMVCMEDFDPQ---------EFPGKQVPCGHVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        76 ~~~C~IC~~~~~~~---------~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      +..|+||++.+..+         +..+...+|||.||..||.+|++.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            34599999999432         23445668999999999999999999999998

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=99.45  E-value=7.1e-14  Score=98.92  Aligned_cols=52  Identities=38%  Similarity=0.892  Sum_probs=42.6

Q ss_pred             CCccccccccccccCCC----CCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQE----FPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ..+.+|+||++.+..+.    ....+++|+|.||..||.+|++.+.+||+||.++.
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            44678999999986532    12356689999999999999999999999998764

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

Probab=99.40  E-value=1.5e-13  Score=101.29  Aligned_cols=52  Identities=29%  Similarity=0.991  Sum_probs=44.3

Q ss_pred             CCCccccccccccccCC---------CCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           73 GTTEGVCMVCMEDFDPQ---------EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~---------~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      ...+..|.|||+++-.+         +...+++||||.+|..|++.|+.++.+||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            46778999999995332         24558999999999999999999999999999985

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

Probab=99.38  E-value=2.7e-13  Score=96.92  Aligned_cols=50  Identities=32%  Similarity=0.811  Sum_probs=44.6

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+....|.+|++....|    ..+||||.||+.||..|...+..||+||.++..
T Consensus       236 ~~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            35668899999998776    789999999999999999999999999998764

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=99.37  E-value=3.3e-13  Score=73.99  Aligned_cols=46  Identities=28%  Similarity=0.779  Sum_probs=39.2

Q ss_pred             ccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +..|.||++....    ...+||||. ||..|+.+|++....||+||+++.
T Consensus         2 ~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD----VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS----EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc----eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4679999998665    488899999 999999999999999999999874

...

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.37  E-value=4.9e-13  Score=91.40  Aligned_cols=48  Identities=29%  Similarity=0.735  Sum_probs=40.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc----------------CccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL----------------SNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~----------------~~~CP~Cr~~~~  125 (128)
                      .+..+|+||++.+..+    ..++|||.||+.||..|+..                ...||+||+.+.
T Consensus        16 ~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is   79 (193)
T PLN03208         16 GGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS   79 (193)
T ss_pred             CCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence            4568899999998775    77899999999999999842                247999998774

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

Probab=99.32  E-value=1.2e-12  Score=69.07  Aligned_cols=38  Identities=34%  Similarity=0.923  Sum_probs=30.1

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----cccccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVC  120 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~C  120 (128)
                      |+||++.|..|    +.++|||.||..||.+|++..    ..||.|
T Consensus         1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999998    999999999999999999644    369987

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

Probab=99.32  E-value=7.1e-13  Score=95.44  Aligned_cols=51  Identities=35%  Similarity=0.851  Sum_probs=43.8

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      ....+|+|||+.|.. .+..+.+||.|.||..|+.+|+. .+..||+||.++.
T Consensus       321 ~~GveCaICms~fiK-~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         321 DKGVECAICMSNFIK-NDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCCceEEEEhhhhcc-cceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            344789999999976 45578999999999999999997 6778999998764

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

Probab=99.30  E-value=2.8e-12  Score=76.71  Aligned_cols=52  Identities=35%  Similarity=0.793  Sum_probs=40.2

Q ss_pred             ccccccccccccCC--------C-CCCeEcCCCCcccHhhHHHHhcc---CccccccCcceeeC
Q 033086           76 EGVCMVCMEDFDPQ--------E-FPGKQVPCGHVFHAKCISTWISL---SNSCPVCRSRCIIS  127 (128)
Q Consensus        76 ~~~C~IC~~~~~~~--------~-~~~~~~~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~~~  127 (128)
                      +..|.||...|...        + ..+..-.|+|.||..||.+|+..   +.+||+||+++.+.
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k   84 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK   84 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence            66799998888621        1 23345579999999999999974   35899999998764

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

Probab=99.30  E-value=1.5e-12  Score=90.59  Aligned_cols=50  Identities=28%  Similarity=0.683  Sum_probs=41.8

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc---CccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL---SNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~~  126 (128)
                      ....++|.|||+.-+++    +++.|||.||+.||.+|+..   ++.||+|+..+..
T Consensus        44 ~~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CCCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            46778999999997776    88889999999999999963   3469999987643

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

Probab=99.29  E-value=1.2e-12  Score=87.81  Aligned_cols=52  Identities=27%  Similarity=0.673  Sum_probs=43.8

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+..+.|+|||+.+...  ....+.|||+||..||+..++....||+||+++..
T Consensus       128 ~~~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             cccccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            35567899999999763  33557899999999999999999999999987653

>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=99.28  E-value=1.7e-12  Score=67.51  Aligned_cols=39  Identities=33%  Similarity=1.010  Sum_probs=33.1

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhccCcccccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC  120 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~C  120 (128)
                      |+||++.+..+   ...++|||.||..|+.+|++.+.+||+|
T Consensus         1 C~iC~~~~~~~---~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP---VVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE---EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCc---CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999998774   3689999999999999999888899997

>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=99.20  E-value=1.1e-11  Score=65.59  Aligned_cols=44  Identities=43%  Similarity=1.160  Sum_probs=36.0

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCcce
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRC  124 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~  124 (128)
                      +|+||++.+..   .....+|||.||..|+..|+.. ...||+||+.+
T Consensus         1 ~C~iC~~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhC---ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            49999999843   2355569999999999999987 67899999753

>PHA02926 zinc finger-like protein; Provisional

Probab=99.19  E-value=1.3e-11  Score=85.67  Aligned_cols=52  Identities=31%  Similarity=0.793  Sum_probs=39.6

Q ss_pred             CCccccccccccccCC---C--CCCeEcCCCCcccHhhHHHHhccC------ccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQ---E--FPGKQVPCGHVFHAKCISTWISLS------NSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~---~--~~~~~~~C~H~f~~~Ci~~w~~~~------~~CP~Cr~~~~  125 (128)
                      +.+.+|+|||+....+   .  .-..+.+|+|.||..||..|.+.+      ++||+||..+.
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            4568899999986331   1  123567899999999999999643      36999998764

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.19  E-value=1.8e-11  Score=65.31  Aligned_cols=44  Identities=34%  Similarity=0.884  Sum_probs=37.5

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS  122 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~  122 (128)
                      .|+||++.+.. .....+++|||+||..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~-~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSE-ERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccC-CCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            48999999933 456789999999999999999866678999985

>smart00504 Ubox Modified RING finger domain

Probab=99.18  E-value=2.1e-11  Score=69.64  Aligned_cols=45  Identities=18%  Similarity=0.428  Sum_probs=40.9

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ..|+||.+.+..|    ..++|||+|++.||.+|++.+.+||+|++++.
T Consensus         2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            4699999999886    78899999999999999988889999998774

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

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.16  E-value=2.1e-11  Score=63.93  Aligned_cols=39  Identities=38%  Similarity=1.100  Sum_probs=33.8

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhc--cCcccccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS--LSNSCPVC  120 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~--~~~~CP~C  120 (128)
                      |+||++.+..+   ...++|||.||..|+.+|++  ....||+|
T Consensus         1 C~iC~~~~~~~---~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP---VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE---EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC---CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998875   24899999999999999998  55589987

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.08  E-value=6.7e-11  Score=89.30  Aligned_cols=49  Identities=31%  Similarity=0.625  Sum_probs=43.3

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+....|+||++.|..+    ++++|||.||..||..|+.....||+||..+.
T Consensus        23 Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~   71 (397)
T TIGR00599        23 LDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ   71 (397)
T ss_pred             cccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence            35678999999999876    67899999999999999988889999998764

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

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

Probab=99.07  E-value=3.8e-11  Score=94.56  Aligned_cols=51  Identities=31%  Similarity=1.057  Sum_probs=43.1

Q ss_pred             CCccccccccccccCCC-CCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQE-FPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      ..+..|+||++.+..+. ....+++|+|.||..|+..|++++.+||+||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            44778999999997631 2358899999999999999999999999999743

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

Probab=99.07  E-value=9.4e-11  Score=61.96  Aligned_cols=39  Identities=41%  Similarity=0.939  Sum_probs=23.9

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----cccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCP  118 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP  118 (128)
                      |+||.+ |..++...++|+|||+||.+||.+|++.+    ..||
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 87656667899999999999999999743    3676

>smart00184 RING Ring finger

Probab=99.03  E-value=2.2e-10  Score=58.54  Aligned_cols=38  Identities=39%  Similarity=1.196  Sum_probs=32.0

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCcccccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVC  120 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~C  120 (128)
                      |+||++....    ...++|+|.||..|+..|+. ....||+|
T Consensus         1 C~iC~~~~~~----~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKD----PVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCC----cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899988443    47889999999999999998 55679987

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)

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

Probab=99.00  E-value=3.5e-10  Score=66.24  Aligned_cols=33  Identities=30%  Similarity=0.790  Sum_probs=29.6

Q ss_pred             eEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           94 KQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        94 ~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .--.|.|.||..||.+||..++.||++|+++.+
T Consensus        50 ~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          50 VWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             EEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            344699999999999999999999999999875

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

Probab=98.96  E-value=3.8e-10  Score=80.07  Aligned_cols=49  Identities=29%  Similarity=0.845  Sum_probs=42.2

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHH-HhccCcc-ccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIST-WISLSNS-CPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~-w~~~~~~-CP~Cr~~~~~  126 (128)
                      ..+..|.||++....+    ..++|||+||..||.. |-+++.- ||+||+...+
T Consensus       213 ~~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            5678899999997765    8899999999999998 8877765 9999997764

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

Probab=98.86  E-value=9.1e-10  Score=64.00  Aligned_cols=51  Identities=33%  Similarity=0.729  Sum_probs=37.8

Q ss_pred             cccccccccccC--------CCC-CCeEcCCCCcccHhhHHHHhc---cCccccccCcceeeC
Q 033086           77 GVCMVCMEDFDP--------QEF-PGKQVPCGHVFHAKCISTWIS---LSNSCPVCRSRCIIS  127 (128)
Q Consensus        77 ~~C~IC~~~~~~--------~~~-~~~~~~C~H~f~~~Ci~~w~~---~~~~CP~Cr~~~~~~  127 (128)
                      .+|.||.-.|..        ++. ....-.|.|.||..||.+|+.   ++..||+||+.+.+.
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~   83 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK   83 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence            378999888853        122 223335999999999999996   334799999998764

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

Probab=98.85  E-value=8.7e-10  Score=80.82  Aligned_cols=48  Identities=29%  Similarity=0.688  Sum_probs=43.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +.-..|.||.+.|..+    .++||+|.||..||...|..+..||.|+.++.
T Consensus        21 D~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~   68 (442)
T KOG0287|consen   21 DDLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT   68 (442)
T ss_pred             HHHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccc
Confidence            4567899999999987    88999999999999999999999999997664

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

Probab=98.84  E-value=1.4e-09  Score=83.40  Aligned_cols=47  Identities=34%  Similarity=0.810  Sum_probs=38.5

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC-----ccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS-----NSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-----~~CP~Cr~~~~~  126 (128)
                      +..||||+++...+    .++.|||+||..||...+...     ..||+||..+.+
T Consensus       186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            77899999997664    677799999999998877533     479999987754

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

Probab=98.83  E-value=1.1e-09  Score=78.01  Aligned_cols=61  Identities=33%  Similarity=0.749  Sum_probs=46.5

Q ss_pred             CCCCCCCCCCCCccccccccccccCCC------CCCeEcCCCCcccHhhHHHHh--ccCccccccCcceeeC
Q 033086           64 SDLPTGAGSGTTEGVCMVCMEDFDPQE------FPGKQVPCGHVFHAKCISTWI--SLSNSCPVCRSRCIIS  127 (128)
Q Consensus        64 ~~l~~~~~~~~~~~~C~IC~~~~~~~~------~~~~~~~C~H~f~~~Ci~~w~--~~~~~CP~Cr~~~~~~  127 (128)
                      +.+|+..   .++..|+||-..+....      +....+.|+|+||..||..|.  .++.+||.|+++++++
T Consensus       215 ~glPtkh---l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~  283 (328)
T KOG1734|consen  215 SGLPTKH---LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK  283 (328)
T ss_pred             CCCCCCC---CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence            4455444   56778999998885421      244688999999999999997  4666999999988764

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

Probab=98.78  E-value=4.3e-09  Score=61.97  Aligned_cols=48  Identities=21%  Similarity=0.392  Sum_probs=38.5

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~  126 (128)
                      +.+.|+|+.+.|..|    +++++||+|.+.+|..|+.. ..+||++++++..
T Consensus         3 ~~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            467899999999997    88999999999999999988 7899999987653

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 ....

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

Probab=98.77  E-value=1.5e-09  Score=63.46  Aligned_cols=52  Identities=31%  Similarity=0.538  Sum_probs=25.1

Q ss_pred             ccccccccccccCCCCCC--e--EcCCCCcccHhhHHHHhcc---C--------ccccccCcceeeC
Q 033086           76 EGVCMVCMEDFDPQEFPG--K--QVPCGHVFHAKCISTWISL---S--------NSCPVCRSRCIIS  127 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~--~--~~~C~H~f~~~Ci~~w~~~---~--------~~CP~Cr~~~~~~  127 (128)
                      +..|.||+..+...+...  .  ...|+..||..||..||..   .        +.||.|++++.++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~   68 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS   68 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence            457999999876322221  1  1268999999999999952   1        2699999998764

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

Probab=98.76  E-value=3.5e-09  Score=76.29  Aligned_cols=47  Identities=28%  Similarity=0.610  Sum_probs=42.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      +.-..|.||-+.|..+    ..++|||.||..||...|..+..||+||.++
T Consensus        23 Ds~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          23 DSMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             hhHHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccH
Confidence            4556799999999887    8899999999999999999999999999865

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

Probab=98.66  E-value=9.3e-09  Score=77.76  Aligned_cols=48  Identities=38%  Similarity=0.836  Sum_probs=40.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~  123 (128)
                      .+..+|+||++.+.....-+..+.|.|.||..|+.+|  ...+||+||.-
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~  220 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYC  220 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhh
Confidence            5667899999999875455677789999999999999  45689999953

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.66  E-value=2e-08  Score=73.49  Aligned_cols=50  Identities=22%  Similarity=0.437  Sum_probs=36.4

Q ss_pred             ccccccccccc-cCCCCCCeEcCCCCcccHhhHHHHh-ccCccccccCccee
Q 033086           76 EGVCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRCI  125 (128)
Q Consensus        76 ~~~C~IC~~~~-~~~~~~~~~~~C~H~f~~~Ci~~w~-~~~~~CP~Cr~~~~  125 (128)
                      +..||+|...- ..+.....+.+|||.||..|+...+ .....||.|++++.
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr   54 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR   54 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence            45799999963 2323233333899999999999966 45568999998764

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).

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

Probab=98.65  E-value=1.1e-08  Score=73.93  Aligned_cols=44  Identities=39%  Similarity=0.831  Sum_probs=39.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccC
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      .+...|+||++.|..+    .+++|+|.||..|+..++.....||.||
T Consensus        11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccC
Confidence            5678899999999987    8899999999999999988555899999

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

Probab=98.55  E-value=5.8e-08  Score=52.77  Aligned_cols=42  Identities=29%  Similarity=0.825  Sum_probs=31.7

Q ss_pred             ccccccccccCCCCCCeEcCCC-----CcccHhhHHHHhccC--ccccccC
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCG-----HVFHAKCISTWISLS--NSCPVCR  121 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~--~~CP~Cr  121 (128)
                      .|.||++ ... +......||.     |.+|..|+.+|+..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~-~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGD-EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCC-CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889998 322 3344678985     789999999999544  4899995

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

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

Probab=98.54  E-value=2.4e-08  Score=76.45  Aligned_cols=52  Identities=31%  Similarity=0.793  Sum_probs=39.8

Q ss_pred             CCccccccccccccCCC----C---------CCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQE----F---------PGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~----~---------~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      +....|+|||.++....    .         ....+||.|+||..|+..|+. .+-.||+||.++.
T Consensus       569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            45668999999985321    0         124569999999999999998 4558999998763

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

Probab=98.48  E-value=3.1e-08  Score=80.79  Aligned_cols=53  Identities=26%  Similarity=0.707  Sum_probs=39.3

Q ss_pred             CCCccccccccccccCCCC---CCeEcCCCCcccHhhHHHHhccC--ccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEF---PGKQVPCGHVFHAKCISTWISLS--NSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~---~~~~~~C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~~  125 (128)
                      -++..+|+||...+..-+.   .-+...|.|.||..|+.+|++.+  .+||+||..+.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3567789999988862111   11334599999999999999754  48999998764

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

Probab=98.47  E-value=7.3e-08  Score=59.25  Aligned_cols=31  Identities=35%  Similarity=0.878  Sum_probs=28.4

Q ss_pred             cCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           96 VPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        96 ~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      -.|.|.||..||.+|++++..||+|.+++.+
T Consensus        79 G~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   79 GVCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             eecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            3599999999999999999999999988765

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

Probab=98.41  E-value=1.4e-07  Score=69.70  Aligned_cols=48  Identities=23%  Similarity=0.675  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +...+|.||+.+...    ..+|||.|. .|..|.+...-+++.||+||+++.
T Consensus       288 ~~gkeCVIClse~rd----t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~  336 (349)
T KOG4265|consen  288 ESGKECVICLSESRD----TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE  336 (349)
T ss_pred             cCCCeeEEEecCCcc----eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence            446789999999665    389999995 899999888778889999999764

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

Probab=98.34  E-value=4e-08  Score=72.45  Aligned_cols=50  Identities=24%  Similarity=0.542  Sum_probs=40.9

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      ...+..|+||++.++.-   .....|.|.||.+||...++ ..+.||.||+.+.
T Consensus        40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~   90 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV   90 (381)
T ss_pred             hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence            35677899999998763   45667999999999998886 5558999999764

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

Probab=98.32  E-value=1.8e-07  Score=75.12  Aligned_cols=52  Identities=21%  Similarity=0.564  Sum_probs=43.7

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ......|++|+..+.. .......+|+|.||..||..|-+...+||+||..|.
T Consensus       120 ~~~~~~CP~Ci~s~~D-qL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  120 THVENQCPNCLKSCND-QLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhhhhHHHHHHHH-HhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence            4566789999999866 444566789999999999999999999999998763

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

Probab=98.31  E-value=2.3e-07  Score=67.21  Aligned_cols=48  Identities=23%  Similarity=0.436  Sum_probs=39.0

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc-cccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~  126 (128)
                      ...+|+||+...--|    ..++|+|.||+.||+.-....+ +|++||.+++.
T Consensus         6 ~~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids   54 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS   54 (324)
T ss_pred             cCCcceeeeccCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence            345799999886554    8899999999999987765554 69999998753

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

Probab=98.27  E-value=2.2e-07  Score=52.62  Aligned_cols=45  Identities=27%  Similarity=0.625  Sum_probs=23.4

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      ....|++|.+.+..|   +.+..|.|.||..||..-+..  .||+|+.+-
T Consensus         6 ~lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Pa   50 (65)
T PF14835_consen    6 ELLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPA   50 (65)
T ss_dssp             HTTS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-
T ss_pred             HhcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCC--CCCCcCChH
Confidence            345699999999886   356789999999999775543  499998764

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

Probab=98.25  E-value=2.3e-07  Score=50.65  Aligned_cols=46  Identities=26%  Similarity=0.580  Sum_probs=36.0

Q ss_pred             CccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhc-cCccccccCcce
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWIS-LSNSCPVCRSRC  124 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~-~~~~CP~Cr~~~  124 (128)
                      ...+|-||++.....    ++-.|||. .|..|-.+.++ .+..||+||+++
T Consensus         6 ~~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    6 WSDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            347899999886553    55679995 89999777665 777999999875

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

Probab=98.23  E-value=5.4e-07  Score=67.36  Aligned_cols=44  Identities=27%  Similarity=0.908  Sum_probs=32.4

Q ss_pred             cccccccccccCCCCCC-eEcCCCCcccHhhHHHHhccC---ccccccC
Q 033086           77 GVCMVCMEDFDPQEFPG-KQVPCGHVFHAKCISTWISLS---NSCPVCR  121 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~-~~~~C~H~f~~~Ci~~w~~~~---~~CP~Cr  121 (128)
                      ..|.||-+.+.. +... .+-.|||+||..|+..|+...   ++||+||
T Consensus         5 A~C~Ic~d~~p~-~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~   52 (465)
T KOG0827|consen    5 AECHICIDGRPN-DHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ   52 (465)
T ss_pred             ceeeEeccCCcc-ccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence            469999544443 3333 344599999999999999643   5799998

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

Probab=98.22  E-value=2.8e-07  Score=73.77  Aligned_cols=48  Identities=27%  Similarity=0.590  Sum_probs=39.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      .+-..|++|...+..-    ++..|+|.||..|+...+. +.+.||.|.+.|-
T Consensus       641 K~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg  689 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFG  689 (698)
T ss_pred             HhceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence            3456799999877663    7778999999999999885 6678999998774

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

Probab=98.15  E-value=1e-06  Score=66.91  Aligned_cols=48  Identities=31%  Similarity=0.800  Sum_probs=42.8

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ..++.|.||+..+..+    +.+||||.||..||++-+.....||.||..+.
T Consensus        82 ~sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~  129 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQETECPLCRDELV  129 (398)
T ss_pred             cchhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCCCCcccccccc
Confidence            5678999999998886    77899999999999998888889999998764

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

Probab=98.12  E-value=6.6e-07  Score=67.27  Aligned_cols=49  Identities=37%  Similarity=0.984  Sum_probs=39.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc--CccccccCcceeeCC
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL--SNSCPVCRSRCIISG  128 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~~~g  128 (128)
                      ..-..|.||-+.    +..+++-||||..|..|+..|-..  ..+||.||  ..++|
T Consensus       367 sTFeLCKICaen----dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCR--cEIKG  417 (563)
T KOG1785|consen  367 STFELCKICAEN----DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCR--CEIKG  417 (563)
T ss_pred             chHHHHHHhhcc----CCCcccccccchHHHHHHHhhcccCCCCCCCcee--eEecc
Confidence            444569999877    556788999999999999999743  45899999  55554

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

Probab=98.12  E-value=1.3e-06  Score=65.13  Aligned_cols=52  Identities=35%  Similarity=0.758  Sum_probs=38.8

Q ss_pred             CCccccccccccccCCC-C---CCeEcCCCCcccHhhHHHHh--cc-----CccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQE-F---PGKQVPCGHVFHAKCISTWI--SL-----SNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~-~---~~~~~~C~H~f~~~Ci~~w~--~~-----~~~CP~Cr~~~~  125 (128)
                      ..+.+|.|||+...... .   -....+|.|.||..||..|-  ++     .+.||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            56789999999985531 0   11235699999999999998  34     468999996543

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

Probab=98.08  E-value=3.6e-06  Score=45.17  Aligned_cols=47  Identities=23%  Similarity=0.520  Sum_probs=24.8

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      |++|.+++...+....-=+||..+|..|....+. ..+.||-||+++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y~   48 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPYK   48 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B--
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence            7899999966554444456899999999999886 5779999998863

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

Probab=98.00  E-value=3.8e-06  Score=63.30  Aligned_cols=49  Identities=24%  Similarity=0.848  Sum_probs=38.6

Q ss_pred             CccccccccccccCCC-CCCeEcCCCCcccHhhHHHHhcc--CccccccCcc
Q 033086           75 TEGVCMVCMEDFDPQE-FPGKQVPCGHVFHAKCISTWISL--SNSCPVCRSR  123 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~  123 (128)
                      ...+|+||++.+..++ ..+..+.|||.|...||.+|+.+  ...||.|..+
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            4568999999996554 44567789999999999999952  2369999653

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

Probab=97.96  E-value=2.2e-06  Score=64.28  Aligned_cols=49  Identities=33%  Similarity=0.747  Sum_probs=41.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC--ccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS--NSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~--~~CP~Cr~  122 (128)
                      +.+..|..|-+.+...++....+||.|+||..|+...+.++  ++||.||+
T Consensus       363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            34567999999997767777899999999999999998544  48999995

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

Probab=97.92  E-value=1.1e-05  Score=58.05  Aligned_cols=51  Identities=31%  Similarity=0.568  Sum_probs=40.4

Q ss_pred             CCCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc--CccccccCccee
Q 033086           72 SGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL--SNSCPVCRSRCI  125 (128)
Q Consensus        72 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~CP~Cr~~~~  125 (128)
                      ......+|++|-+....|   ....+|+|+||+.|+..-+..  ..+||.|.....
T Consensus       235 ~~t~~~~C~~Cg~~PtiP---~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTIP---HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cccCCceeeccCCCCCCC---eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            356778999999887665   456679999999999877653  479999987654

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

Probab=97.88  E-value=1e-05  Score=45.22  Aligned_cols=43  Identities=33%  Similarity=0.653  Sum_probs=29.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc--Cccccc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL--SNSCPV  119 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~CP~  119 (128)
                      .....|||.+..|..|   +....|+|+|-+..|..|++.  ...||+
T Consensus         9 ~~~~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            4457899999999886   455689999999999999943  447998

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

Probab=97.81  E-value=1.1e-05  Score=61.51  Aligned_cols=49  Identities=33%  Similarity=0.672  Sum_probs=42.5

Q ss_pred             CCCccccccccccccCCCCCCeE-cCCCCcccHhhHHHHhccCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQ-VPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~-~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .++...|++|...+..+    .. ..|||.||..|+..|+..+..||.|+....
T Consensus        18 ~~~~l~C~~C~~vl~~p----~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~   67 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDP----VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT   67 (391)
T ss_pred             CcccccCccccccccCC----CCCCCCCCcccccccchhhccCcCCcccccccc
Confidence            46778999999999886    33 589999999999999999999999987654

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

Probab=97.61  E-value=2.1e-05  Score=57.32  Aligned_cols=37  Identities=22%  Similarity=0.673  Sum_probs=30.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHh
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI  111 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~  111 (128)
                      ....+|.|||--|.. .....+++|-|.||..|+.+.|
T Consensus       113 ~p~gqCvICLygfa~-~~~ft~T~C~Hy~H~~ClaRyl  149 (368)
T KOG4445|consen  113 HPNGQCVICLYGFAS-SPAFTVTACDHYMHFACLARYL  149 (368)
T ss_pred             CCCCceEEEEEeecC-CCceeeehhHHHHHHHHHHHHH
Confidence            455679999999987 4556788999999999997654

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

Probab=97.56  E-value=6.2e-05  Score=55.26  Aligned_cols=50  Identities=30%  Similarity=0.725  Sum_probs=40.7

Q ss_pred             cccccccccccCC--CCCCeEcCCCCcccHhhHHHHhccCc-cccccCcceee
Q 033086           77 GVCMVCMEDFDPQ--EFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRCII  126 (128)
Q Consensus        77 ~~C~IC~~~~~~~--~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~  126 (128)
                      ..|-||-++|...  +...+.+.|||.||..|+.+.+.... .||.||.+..+
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~   56 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEI   56 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccC
Confidence            5699999999654  45668889999999999988876554 79999987544

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

Probab=97.56  E-value=1.3e-05  Score=58.97  Aligned_cols=47  Identities=23%  Similarity=0.507  Sum_probs=39.2

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~  123 (128)
                      ....+|.+|-..|...   -.+..|-|.||..||.+.+....+||+|.-.
T Consensus        13 n~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~   59 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEESKYCPTCDIV   59 (331)
T ss_pred             ccceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence            3556899999998764   2455799999999999999999999999843

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=97.54  E-value=0.0001  Score=49.17  Aligned_cols=49  Identities=27%  Similarity=0.777  Sum_probs=36.1

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCC-----cccHhhHHHHhccCc--cccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGH-----VFHAKCISTWISLSN--SCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~~~~--~CP~Cr~~~~~  126 (128)
                      ...+..|-||.+.-..     ...||..     ..|+.|+.+|+..++  .|++|+.++.+
T Consensus         5 s~~~~~CRIC~~~~~~-----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          5 SLMDKCCWICKDEYDV-----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCCCeeEecCCCCCC-----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3566789999887432     2246644     569999999997544  79999998865

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

Probab=97.53  E-value=3.4e-05  Score=53.19  Aligned_cols=46  Identities=24%  Similarity=0.606  Sum_probs=39.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~  123 (128)
                      .-.+.|.||-.+|..|    +...|||.||..|..+-++....|-+|-+.
T Consensus       194 ~IPF~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         194 KIPFLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             CCceeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence            3456899999999887    788899999999999888888899999653

>PHA02862 5L protein; Provisional

Probab=97.52  E-value=9.5e-05  Score=48.46  Aligned_cols=45  Identities=33%  Similarity=0.909  Sum_probs=33.8

Q ss_pred             cccccccccccCCCCCCeEcCCC-----CcccHhhHHHHhccC--ccccccCcceee
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCG-----HVFHAKCISTWISLS--NSCPVCRSRCII  126 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~--~~CP~Cr~~~~~  126 (128)
                      ..|-||.+.-.+.     .-||.     ...|+.|+.+|++.+  ..|++|+.++.+
T Consensus         3 diCWIC~~~~~e~-----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDER-----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCCC-----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            4699999885331     35664     358999999999744  479999998865

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

Probab=97.34  E-value=0.00014  Score=49.35  Aligned_cols=53  Identities=25%  Similarity=0.666  Sum_probs=36.9

Q ss_pred             CccccccccccccCC---CCCCeEcCCCCcccHhhHHHHhcc------C-----ccccccCcceeeC
Q 033086           75 TEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWISL------S-----NSCPVCRSRCIIS  127 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~~~------~-----~~CP~Cr~~~~~~  127 (128)
                      +...|.||+..--.+   +++--...||..||+-|+..||+.      +     +.||.|.+++.++
T Consensus       164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            445677777654222   333345679999999999999962      2     2699999987653

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.31  E-value=0.00016  Score=53.71  Aligned_cols=53  Identities=26%  Similarity=0.555  Sum_probs=40.6

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      .+++..|+.|++++...+....--+||-..|+-|....-. -+++||-||+.++
T Consensus        11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~   64 (480)
T COG5175          11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD   64 (480)
T ss_pred             ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence            3555669999999988666667778999889888765542 3568999998764

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

Probab=97.29  E-value=0.00014  Score=62.70  Aligned_cols=54  Identities=28%  Similarity=0.808  Sum_probs=40.5

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHH-----HhccC-----ccccccCcceeeC
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIST-----WISLS-----NSCPVCRSRCIIS  127 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~-----w~~~~-----~~CP~Cr~~~~~~  127 (128)
                      .+.+..|.||+.+--. ......+.|+|.||..|..+     |+...     -.||+|+.++...
T Consensus      3483 QD~DDmCmICFTE~L~-AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALS-AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred             cccCceEEEEehhhhC-CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence            5677889999988644 44567889999999999975     44322     2799999887543

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

Probab=97.28  E-value=9.5e-05  Score=53.77  Aligned_cols=45  Identities=24%  Similarity=0.520  Sum_probs=39.1

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      .+.|-||..+|..|    ++..|+|.||..|...-++....|.+|-+..
T Consensus       241 Pf~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccc
Confidence            35699999999987    8889999999999988888888999997654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.22  E-value=0.00028  Score=50.23  Aligned_cols=51  Identities=20%  Similarity=0.300  Sum_probs=44.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      +..+.|+||.+.+..-...+.+.+|||+|+.+|+.+.++....||+|-+++
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl  269 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL  269 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence            356789999999987556677889999999999999999999999998765

>PF04641 Rtf2: Rtf2 RING-finger

Probab=97.14  E-value=0.00039  Score=50.37  Aligned_cols=52  Identities=27%  Similarity=0.471  Sum_probs=41.4

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ....+.|||....|.....-+.+.+|||+|...++...- ....||+|-++|.
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~  161 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT  161 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence            466789999999995533455677999999999999873 3567999998875

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

Probab=97.14  E-value=7.1e-05  Score=54.41  Aligned_cols=41  Identities=32%  Similarity=0.734  Sum_probs=32.4

Q ss_pred             ccccccccccccCCCCCCeEcCCCC-cccHhhHHHHhccCccccccCcce
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGH-VFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      ...|.|||+....    -+.|+||| +-|.+|-.++-    .||+||+.+
T Consensus       300 ~~LC~ICmDaP~D----CvfLeCGHmVtCt~CGkrm~----eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRD----CVFLECGHMVTCTKCGKRMN----ECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcc----eEEeecCcEEeehhhccccc----cCchHHHHH
Confidence            6789999988655    37899999 57889975542    799999854

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

Probab=97.13  E-value=0.0002  Score=56.09  Aligned_cols=53  Identities=25%  Similarity=0.536  Sum_probs=40.7

Q ss_pred             CCCCCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-----cCccccccCcceee
Q 033086           70 AGSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-----LSNSCPVCRSRCII  126 (128)
Q Consensus        70 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-----~~~~CP~Cr~~~~~  126 (128)
                      .....+...|.+|-++-+.    .....|.|.||+.|+..++.     .+-+||+|-..+.+
T Consensus       530 ~~enk~~~~C~lc~d~aed----~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  530 PDENKGEVECGLCHDPAED----YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI  587 (791)
T ss_pred             CccccCceeecccCChhhh----hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence            3445677889999988555    37789999999999988764     33489999876644

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

Probab=97.12  E-value=0.00033  Score=52.34  Aligned_cols=48  Identities=21%  Similarity=0.531  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .++..|+||......    +...||+|.-|+.||.+.+.+.+.|=.|+..+.
T Consensus       420 sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  420 SEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             cccccCcceecccch----hhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            577889999876544    377899999999999999999999999987553

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

Probab=97.01  E-value=0.00034  Score=51.19  Aligned_cols=47  Identities=30%  Similarity=0.611  Sum_probs=36.0

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHh-ccCcccccc-Ccceee
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVC-RSRCII  126 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~-~~~~~CP~C-r~~~~~  126 (128)
                      ..|+.|-..+..+   ..+..|+|.||.+||...| ...+.||.| |+.+.+
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll  323 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL  323 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence            6799999888775   2334689999999998766 577899999 444443

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

Probab=96.97  E-value=0.00063  Score=36.45  Aligned_cols=40  Identities=30%  Similarity=0.860  Sum_probs=26.0

Q ss_pred             cccccccccCCCCCCeEcCCCC-----cccHhhHHHHhc--cCcccccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGH-----VFHAKCISTWIS--LSNSCPVC  120 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~--~~~~CP~C  120 (128)
                      |-||++.-...+  ....||.-     ..|..|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~--~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE--PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS---EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC--ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678988876532  46677742     579999999996  44579887

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

Probab=96.94  E-value=0.00045  Score=52.44  Aligned_cols=37  Identities=27%  Similarity=0.608  Sum_probs=31.2

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS  112 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~  112 (128)
                      ....|.||++.... ......+||+|+||..|+...+.
T Consensus       183 slf~C~ICf~e~~G-~~c~~~lpC~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  183 SLFDCCICFEEQMG-QHCFKFLPCSHVFCKSCLKDYFT  219 (445)
T ss_pred             hcccceeeehhhcC-cceeeecccchHHHHHHHHHHHH
Confidence            34679999999765 56778999999999999998874

>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=96.88  E-value=0.00034  Score=43.59  Aligned_cols=33  Identities=36%  Similarity=0.685  Sum_probs=27.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIS  108 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~  108 (128)
                      .....|++|-..+..+  .....||||.||..|+.
T Consensus        76 ~~~~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNS--VFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCc--eEEEeCCCeEEeccccc
Confidence            5567799999998763  56788999999999975

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 [].

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

Probab=96.84  E-value=0.0007  Score=49.23  Aligned_cols=46  Identities=26%  Similarity=0.603  Sum_probs=39.8

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCc
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS  122 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~  122 (128)
                      .-||||.+.+......+..++|||..|..|+.......-+||+|.+
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence            3399999999776667788999999999999998877789999977

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

Probab=96.83  E-value=0.00095  Score=47.04  Aligned_cols=51  Identities=22%  Similarity=0.514  Sum_probs=38.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc--------CccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL--------SNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--------~~~CP~Cr~~~~~  126 (128)
                      +...-|..|-..+..+ + ...+.|-|.||++|+..|-.+        .-.||.|..++..
T Consensus        48 DY~pNC~LC~t~La~g-d-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP  106 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASG-D-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP  106 (299)
T ss_pred             CCCCCCceeCCccccC-c-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence            4455699999888774 2 356779999999999999742        1269999877653

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.81  E-value=0.00055  Score=37.64  Aligned_cols=45  Identities=29%  Similarity=0.650  Sum_probs=32.1

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ...|..|...    +.+..+++|||..|..|..-+  .-+-||+|-++++.
T Consensus         7 ~~~~~~~~~~----~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~   51 (55)
T PF14447_consen    7 EQPCVFCGFV----GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEF   51 (55)
T ss_pred             ceeEEEcccc----ccccccccccceeeccccChh--hccCCCCCCCcccC
Confidence            3446666554    234488999999999996554  44579999988864

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

Probab=96.75  E-value=0.00071  Score=55.46  Aligned_cols=50  Identities=34%  Similarity=0.688  Sum_probs=37.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC-------ccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS-------NSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-------~~CP~Cr~~  123 (128)
                      ...++|.||.+.+.....+-.-..|-|+||..||..|-+..       -.||.|...
T Consensus       189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            45678999999986533333344588999999999998632       169999843

>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=96.73  E-value=0.00082  Score=43.71  Aligned_cols=45  Identities=27%  Similarity=0.456  Sum_probs=31.5

Q ss_pred             ccccccccccccCCCCCCeEcCCC------CcccHhhHHHHhccCccccccC
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCG------HVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~------H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      ..+|.||++.+... .-++.++||      |.||..|+.+|-+..++=|.=|
T Consensus        26 ~~EC~IC~~~I~~~-~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR   76 (134)
T PF05883_consen   26 TVECQICFDRIDNN-DGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR   76 (134)
T ss_pred             CeeehhhhhhhhcC-CCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence            56799999999772 223444554      7899999999965555555443

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.

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

Probab=96.67  E-value=0.00071  Score=47.99  Aligned_cols=45  Identities=24%  Similarity=0.524  Sum_probs=31.9

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ..|..|..--.  .....++.|+|+||..|...-  ....||+||+++.
T Consensus         4 VhCn~C~~~~~--~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir   48 (233)
T KOG4739|consen    4 VHCNKCFRFPS--QDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIR   48 (233)
T ss_pred             EEeccccccCC--CCceeeeechhhhhhhhcccC--Cccccccccceee
Confidence            35777765544  345678899999999997543  2228999998753

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

Probab=96.66  E-value=0.0012  Score=48.73  Aligned_cols=48  Identities=25%  Similarity=0.440  Sum_probs=38.0

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR  123 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~  123 (128)
                      ......|+||+.....+   -+...-|-+||+.|+...+++.+.||+=..+
T Consensus       297 ~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             CCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence            34567899999998876   2334469999999999999999999985443

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

Probab=96.64  E-value=0.00088  Score=54.94  Aligned_cols=41  Identities=27%  Similarity=0.724  Sum_probs=34.3

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS  122 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~  122 (128)
                      ...|..|-..++.|   .+...|||.||+.|+.   .+...||.|+-
T Consensus       840 ~skCs~C~~~LdlP---~VhF~CgHsyHqhC~e---~~~~~CP~C~~  880 (933)
T KOG2114|consen  840 VSKCSACEGTLDLP---FVHFLCGHSYHQHCLE---DKEDKCPKCLP  880 (933)
T ss_pred             eeeecccCCccccc---eeeeecccHHHHHhhc---cCcccCCccch
Confidence            46799999998886   4677899999999997   45668999985

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

Probab=96.58  E-value=0.0019  Score=48.32  Aligned_cols=49  Identities=22%  Similarity=0.610  Sum_probs=38.7

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHH--HhccCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIST--WISLSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~--w~~~~~~CP~Cr~~~~  125 (128)
                      .++...|.||.+.+.-.    .++||+|..|--|..+  .|..++.||+||..+.
T Consensus        58 DEen~~C~ICA~~~TYs----~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          58 DEENMNCQICAGSTTYS----ARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccceeEEecCCceEE----EeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            34556799999887653    7899999999999764  4567889999998763

>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=96.53  E-value=0.0036  Score=32.88  Aligned_cols=41  Identities=22%  Similarity=0.621  Sum_probs=21.6

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc--ccccc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN--SCPVC  120 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~CP~C  120 (128)
                      |.+|.+....+. .-....|+-.+|..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~-~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQ-RCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSE-E-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeec-cCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            567777766541 101124888999999999997665  79987

; PDB: 3NW0_A 2CT0_A.

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

Probab=96.25  E-value=0.0025  Score=47.67  Aligned_cols=46  Identities=35%  Similarity=0.750  Sum_probs=32.4

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ......|.||++....    ...+||||.-|  |..-- +....||+||+.+.
T Consensus       302 ~~~p~lcVVcl~e~~~----~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKS----AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             cCCCCceEEecCCccc----eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            4556679999998655    47889999865  54322 23345999998764

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

Probab=96.17  E-value=0.0015  Score=43.80  Aligned_cols=31  Identities=26%  Similarity=0.742  Sum_probs=26.8

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccH
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHA  104 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~  104 (128)
                      .+...+|.||++++.. +..+.+|||-.++|.
T Consensus       174 ~ddkGECvICLEdL~~-GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEA-GDTIARLPCLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccC-CCceeccceEEEeec
Confidence            4667899999999998 678899999999885

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.12  E-value=0.0026  Score=45.59  Aligned_cols=53  Identities=28%  Similarity=0.702  Sum_probs=37.4

Q ss_pred             CCCccccccccccccCCCCCCeEcCC-----CCcccHhhHHHHhccC--------ccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPC-----GHVFHAKCISTWISLS--------NSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C-----~H~f~~~Ci~~w~~~~--------~~CP~Cr~~~~  125 (128)
                      .+.+..|-||+..-++.....-+-||     .|-.|..|+.+|+..+        -.||.|+..+.
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            45667899999886553222245576     3668999999999532        16999998764

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

Probab=96.01  E-value=0.0061  Score=46.20  Aligned_cols=47  Identities=26%  Similarity=0.463  Sum_probs=38.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC---ccccccC
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS---NSCPVCR  121 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---~~CP~Cr  121 (128)
                      ...+.|||=.+.-.. +..+..+.|||+.+.+-+.+..++.   ..||+|=
T Consensus       332 HSvF~CPVlKeqtsd-eNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP  381 (394)
T KOG2817|consen  332 HSVFICPVLKEQTSD-ENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP  381 (394)
T ss_pred             cceeecccchhhccC-CCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence            456789997777665 5677999999999999999998644   4799994

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

Probab=96.00  E-value=0.0029  Score=46.59  Aligned_cols=43  Identities=30%  Similarity=0.753  Sum_probs=31.4

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      -.|.-|--.+..-   .+++||.|+||.+|...  ...+.||.|-.++
T Consensus        91 HfCd~Cd~PI~IY---GRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIAIY---GRMIPCKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCcceee---ecccccchhhhhhhhhc--CccccCcCcccHH
Confidence            4577787666542   37889999999999643  3567899996544

>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=95.82  E-value=0.0069  Score=44.17  Aligned_cols=47  Identities=23%  Similarity=0.460  Sum_probs=35.5

Q ss_pred             ccccccccc-cCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCcce
Q 033086           78 VCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRC  124 (128)
Q Consensus        78 ~C~IC~~~~-~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~  124 (128)
                      .|++|-... ..++-....-+|+|..|..|++..+. +...||-|...+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence            488887665 34444555569999999999999985 555899997654

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

Probab=95.80  E-value=0.0048  Score=46.59  Aligned_cols=28  Identities=25%  Similarity=0.927  Sum_probs=21.0

Q ss_pred             CCCcccHhhHHHHhcc-------------CccccccCccee
Q 033086           98 CGHVFHAKCISTWISL-------------SNSCPVCRSRCI  125 (128)
Q Consensus        98 C~H~f~~~Ci~~w~~~-------------~~~CP~Cr~~~~  125 (128)
                      |....|.+|+.+|+..             +-.||+||++|=
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC  351 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC  351 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence            4556788999998842             237999999874

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

>PHA03096 p28-like protein; Provisional

Probab=95.43  E-value=0.0094  Score=43.77  Aligned_cols=46  Identities=26%  Similarity=0.606  Sum_probs=31.4

Q ss_pred             cccccccccccCCC----CCCeEcCCCCcccHhhHHHHhccC---ccccccCc
Q 033086           77 GVCMVCMEDFDPQE----FPGKQVPCGHVFHAKCISTWISLS---NSCPVCRS  122 (128)
Q Consensus        77 ~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~---~~CP~Cr~  122 (128)
                      ..|.||++......    .-..+..|.|.||..|+..|-...   .+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            56999999875421    111344699999999999998532   34555553

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

Probab=95.19  E-value=0.0082  Score=48.98  Aligned_cols=43  Identities=33%  Similarity=0.763  Sum_probs=34.0

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc--cccccCcce
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN--SCPVCRSRC  124 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~CP~Cr~~~  124 (128)
                      ..|.||++ ..    .....+|+|.||..|+..-+....  .||.||..+
T Consensus       455 ~~c~ic~~-~~----~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-LD----SFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-cc----cceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            78999999 22    247788999999999988775433  699999754

>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=95.19  E-value=0.022  Score=30.37  Aligned_cols=42  Identities=24%  Similarity=0.596  Sum_probs=25.1

Q ss_pred             ccccccccccCCCCCCeEcCC-CCcccHhhHHHHhccCccccccCccee
Q 033086           78 VCMVCMEDFDPQEFPGKQVPC-GHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C-~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      -|.-|+-....      ...| .|..|..|+..++..+..||+|.+++.
T Consensus         4 nCKsCWf~~k~------Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP   46 (50)
T PF03854_consen    4 NCKSCWFANKG------LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP   46 (50)
T ss_dssp             ---SS-S--SS------EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred             cChhhhhcCCC------eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence            35566644322      3346 689999999999999999999998764

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.

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

Probab=95.04  E-value=0.015  Score=37.80  Aligned_cols=50  Identities=24%  Similarity=0.489  Sum_probs=36.9

Q ss_pred             CccccccccccccCCCCCCeEcC---CCCcccHhhHHHHhcc---CccccccCcceeeC
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVP---CGHVFHAKCISTWISL---SNSCPVCRSRCIIS  127 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~---C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~~~~  127 (128)
                      ...+|.||.+...+.   ..+-|   ||-..|..|-...++.   ...||.|+.+|..+
T Consensus        79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            567899999886553   23333   8999999998776654   44799999888654

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

Probab=94.95  E-value=0.013  Score=48.63  Aligned_cols=37  Identities=27%  Similarity=0.591  Sum_probs=29.7

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHh
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI  111 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~  111 (128)
                      .+....|.+|...+...  .-.+.+|||.||+.|+.+-.
T Consensus       814 ~ep~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  814 LEPQDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ecCccchHHhcchhhcC--cceeeeccchHHHHHHHHHH
Confidence            46677899999998652  44678999999999997654

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

Probab=94.78  E-value=0.018  Score=44.47  Aligned_cols=36  Identities=22%  Similarity=0.447  Sum_probs=31.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL  113 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~  113 (128)
                      +++..|+||..-|.+|    ++++|+|..|+.|....+.+
T Consensus         2 eeelkc~vc~~f~~ep----iil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREP----IILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCc----eEeecccHHHHHHHHhhccc
Confidence            4677899999999887    99999999999998876643

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

Probab=94.69  E-value=0.001  Score=50.24  Aligned_cols=53  Identities=23%  Similarity=0.532  Sum_probs=42.2

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .....|.||...+...-.....+.|||..|..||.+|+.....||.||+.+..
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            45567999999986631233456799999999999999888899999987754

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

Probab=94.65  E-value=0.026  Score=41.82  Aligned_cols=44  Identities=32%  Similarity=0.725  Sum_probs=34.0

Q ss_pred             CCCccccccccccccCCCCCCeEcCC--CCcccHhhHHHHhccCccccccCcce
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPC--GHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C--~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      ..+-.+||||...+..|     ...|  ||..|..|-.+   ....||.||.++
T Consensus        45 ~~~lleCPvC~~~l~~P-----i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~   90 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPP-----IFQCDNGHLACSSCRTK---VSNKCPTCRLPI   90 (299)
T ss_pred             chhhccCchhhccCccc-----ceecCCCcEehhhhhhh---hcccCCcccccc
Confidence            35667899999999886     3456  89999998653   466799999765

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

Probab=94.62  E-value=0.01  Score=32.12  Aligned_cols=43  Identities=14%  Similarity=0.409  Sum_probs=21.4

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-----CccccccCcc
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-----SNSCPVCRSR  123 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-----~~~CP~Cr~~  123 (128)
                      ..|+|....+..|   ++...|.|.-|.+ +..|+..     .-.||+|.++
T Consensus         3 L~CPls~~~i~~P---~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP---VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE---EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC---ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            3588888888775   5777899987665 4445431     1269999864

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.

>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=94.55  E-value=0.0096  Score=42.49  Aligned_cols=48  Identities=25%  Similarity=0.501  Sum_probs=35.3

Q ss_pred             Ccccccccccccc-CCCCCCeEcC-CCCcccHhhHHHHhccCc-ccc--ccCc
Q 033086           75 TEGVCMVCMEDFD-PQEFPGKQVP-CGHVFHAKCISTWISLSN-SCP--VCRS  122 (128)
Q Consensus        75 ~~~~C~IC~~~~~-~~~~~~~~~~-C~H~f~~~Ci~~w~~~~~-~CP--~Cr~  122 (128)
                      .+..||||..+.- .|+-...+-| |-|..|..|+++.+.... .||  -|.+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            4557999988763 3444444456 999999999999997555 799  6654

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.23  E-value=0.025  Score=41.53  Aligned_cols=29  Identities=28%  Similarity=0.705  Sum_probs=22.1

Q ss_pred             CCCcccHhhHHHHhc-------------cCccccccCcceee
Q 033086           98 CGHVFHAKCISTWIS-------------LSNSCPVCRSRCII  126 (128)
Q Consensus        98 C~H~f~~~Ci~~w~~-------------~~~~CP~Cr~~~~~  126 (128)
                      |....|..|+-+|+.             ++-+||+||+.|-+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            566788999988873             33489999998743

>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=94.20  E-value=0.043  Score=36.76  Aligned_cols=32  Identities=22%  Similarity=0.567  Sum_probs=21.0

Q ss_pred             ccccccccccccCCCCCCeEcC------------CCCc-ccHhhHHHHh
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVP------------CGHV-FHAKCISTWI  111 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~------------C~H~-f~~~Ci~~w~  111 (128)
                      +..|+|||+.....    ++|-            |+.. -|..|+++.-
T Consensus         2 d~~CpICme~PHNA----VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    2 DVTCPICMEHPHNA----VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             CccCceeccCCCce----EEEEeccccCCccccccCCccchhHHHHHHH
Confidence            56799999987653    4443            4443 3678988654

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.

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

Probab=93.99  E-value=0.021  Score=40.07  Aligned_cols=38  Identities=34%  Similarity=0.715  Sum_probs=28.5

Q ss_pred             cccccccccCCCCCCeEcCCCC-cccHhhHHHHhccCccccccCcce
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGH-VFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H-~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      |-.|.+.    ...+.++||.| .+|..|-..    -..||+|+.+.
T Consensus       161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGER----EATVLLLPCRHLCLCGICDES----LRICPICRSPK  199 (207)
T ss_pred             ceecCcC----CceEEeecccceEeccccccc----CccCCCCcChh
Confidence            8888877    44568999999 488899533    44699998643

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

Probab=93.88  E-value=0.016  Score=49.84  Aligned_cols=45  Identities=29%  Similarity=0.764  Sum_probs=38.2

Q ss_pred             CCcccccccccccc-CCCCCCeEcCCCCcccHhhHHHHhccCccccccCc
Q 033086           74 TTEGVCMVCMEDFD-PQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~-~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~  122 (128)
                      .....|.||++.+. .+    .+..|||.+|..|...|+..+..||+|..
T Consensus      1151 ~~~~~c~ic~dil~~~~----~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQG----GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             hcccchHHHHHHHHhcC----CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            34457999999987 33    56679999999999999999999999974

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

Probab=93.80  E-value=0.06  Score=39.58  Aligned_cols=52  Identities=25%  Similarity=0.588  Sum_probs=36.7

Q ss_pred             CccccccccccccCCCCCCeEcCCC-----CcccHhhHHHHhc--cCccccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCG-----HVFHAKCISTWIS--LSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~--~~~~CP~Cr~~~~~  126 (128)
                      .+..|-||..+...........||.     ...|..|+..|+.  .+..|..|...+..
T Consensus        77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            3578999999765422113556663     3579999999997  55589999876543

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=92.57  E-value=0.16  Score=27.95  Aligned_cols=46  Identities=22%  Similarity=0.469  Sum_probs=33.8

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccc--cCcce
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPV--CRSRC  124 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~--Cr~~~  124 (128)
                      ....|++|-+.|..++..++-..||-.+|+.|-.+    ...|-+  |.+.+
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~~   51 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTGF   51 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCCc
Confidence            45669999999986566777778999999999543    445555  55444

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

Probab=92.42  E-value=0.08  Score=43.65  Aligned_cols=28  Identities=32%  Similarity=0.795  Sum_probs=23.9

Q ss_pred             CCeEcCCCCcccHhhHHHHhccCccccc
Q 033086           92 PGKQVPCGHVFHAKCISTWISLSNSCPV  119 (128)
Q Consensus        92 ~~~~~~C~H~f~~~Ci~~w~~~~~~CP~  119 (128)
                      ......|+|+.|..|...|+...-.||.
T Consensus      1042 s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1042 SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             chhhccccccccHHHHHHHHhcCCcCCC
Confidence            3456679999999999999998888884

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

Probab=92.14  E-value=0.036  Score=45.07  Aligned_cols=47  Identities=21%  Similarity=0.617  Sum_probs=37.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc---CccccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL---SNSCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---~~~CP~Cr~~~  124 (128)
                      .-..+|+||+..+..+    ..+.|-|.|+..|+..-+..   ...||+|+...
T Consensus        19 ~k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~   68 (684)
T KOG4362|consen   19 QKILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI   68 (684)
T ss_pred             hhhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence            3456799999999886    78899999999998766543   34799998644

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

Probab=92.10  E-value=0.058  Score=41.35  Aligned_cols=38  Identities=24%  Similarity=0.483  Sum_probs=27.7

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS  112 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~  112 (128)
                      ...+|.||+......+.......|+|.||.+|+.+.+.
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence            46789999944433233334678999999999997775

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=91.70  E-value=0.14  Score=38.27  Aligned_cols=49  Identities=29%  Similarity=0.546  Sum_probs=39.7

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      ...|+||.++....+....--+|++..|..|+......+.+||.||++.
T Consensus       249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~  297 (327)
T KOG2068|consen  249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY  297 (327)
T ss_pred             CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcc
Confidence            3679999998855455555667888889999988888999999999765

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

Probab=91.57  E-value=0.068  Score=43.25  Aligned_cols=41  Identities=27%  Similarity=0.664  Sum_probs=31.9

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCcccc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCP  118 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP  118 (128)
                      ...|.||+..|.......+-+.|||+.|..|+....  +.+||
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp   51 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP   51 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence            346999988886544556788899999999998774  45777

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

Probab=91.23  E-value=0.28  Score=40.92  Aligned_cols=52  Identities=21%  Similarity=0.591  Sum_probs=37.3

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCC-----cccHhhHHHHhccC--ccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGH-----VFHAKCISTWISLS--NSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~~~--~~CP~Cr~~~~~  126 (128)
                      .+++..|.||..+=.. +.. ..-||..     ..|++|+.+|+..+  ..|-+|..++..
T Consensus         9 N~d~~~CRICr~e~~~-d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F   67 (1175)
T COG5183           9 NEDKRSCRICRTEDIR-DDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF   67 (1175)
T ss_pred             CccchhceeecCCCCC-CCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence            4566889999987544 333 3336643     47999999999744  479999987764

>KOG3113 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.57  E-value=0.36  Score=34.87  Aligned_cols=50  Identities=18%  Similarity=0.298  Sum_probs=37.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ...+.|+|---+|...-.-....+|||+|-..-+.+.  ....|++|.+.+.
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~  158 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ  158 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence            4567899987777553233357789999999888776  4668999988764

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

Probab=88.13  E-value=0.46  Score=35.47  Aligned_cols=48  Identities=27%  Similarity=0.412  Sum_probs=35.7

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC---ccccccC
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS---NSCPVCR  121 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---~~CP~Cr  121 (128)
                      -...+.||+--+.-.. ...+..+.|||+.-.+-+....++.   +.||.|-
T Consensus       333 fHs~FiCPVlKe~~t~-ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP  383 (396)
T COG5109         333 FHSLFICPVLKELCTD-ENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP  383 (396)
T ss_pred             ccceeeccccHhhhcc-cCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence            3556789986665544 4566899999999999988876543   3799994

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

Probab=87.76  E-value=0.31  Score=40.56  Aligned_cols=47  Identities=13%  Similarity=0.241  Sum_probs=33.3

Q ss_pred             ccccccccccccCCCCCCeEcC---CCCcccHhhHHHHhccC------ccccccCc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVP---CGHVFHAKCISTWISLS------NSCPVCRS  122 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~---C~H~f~~~Ci~~w~~~~------~~CP~Cr~  122 (128)
                      ...|.+|..++..++.-.-..+   |+|.||..||..|..+-      -.|++|..
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~  151 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE  151 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence            3468888888876443334445   99999999999998532      25788854

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

Probab=86.97  E-value=1.1  Score=24.78  Aligned_cols=45  Identities=27%  Similarity=0.643  Sum_probs=30.8

Q ss_pred             cccccccccccCCCCCCeEcCCC--CcccHhhHHHHhccCccccccCccee
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCG--HVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~--H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ..|-.|-.++......+.+  |.  .+||.+|....|  +..||.|...|.
T Consensus         6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv   52 (57)
T PF06906_consen    6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELV   52 (57)
T ss_pred             CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence            3477777777653223333  54  479999999886  668999976654

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

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=86.40  E-value=0.46  Score=33.20  Aligned_cols=42  Identities=31%  Similarity=0.750  Sum_probs=28.9

Q ss_pred             CCcccccccccc-----ccCCCCCCeEcCCCCcccHhhHHHHhccCccccccC
Q 033086           74 TTEGVCMVCMED-----FDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        74 ~~~~~C~IC~~~-----~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      .....|.+|-..     |+. +.+.+-..|+..||..|..     +..||.|.
T Consensus       150 ~kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~  196 (202)
T PF13901_consen  150 QKGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA  196 (202)
T ss_pred             hCCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence            345678888752     222 3455666799999999964     26799994

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

Probab=85.98  E-value=0.94  Score=33.02  Aligned_cols=48  Identities=19%  Similarity=0.515  Sum_probs=32.6

Q ss_pred             cccccccccccCCCCCCe---EcCCCCcccHhhHHHHhc---------cCccccccCcce
Q 033086           77 GVCMVCMEDFDPQEFPGK---QVPCGHVFHAKCISTWIS---------LSNSCPVCRSRC  124 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~---~~~C~H~f~~~Ci~~w~~---------~~~~CP~Cr~~~  124 (128)
                      ..|.+|...+.+.++.+.   ...|.-.+|..|+..-+.         ....||.|++.+
T Consensus       183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~  242 (276)
T KOG3005|consen  183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL  242 (276)
T ss_pred             hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence            579999999954333222   223888999999988332         124799998743

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

Probab=84.85  E-value=0.49  Score=25.69  Aligned_cols=43  Identities=21%  Similarity=0.444  Sum_probs=20.7

Q ss_pred             cccccccccCCC------CCCeEcCCCCcccHhhHHHHhccCccccccC
Q 033086           79 CMVCMEDFDPQE------FPGKQVPCGHVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        79 C~IC~~~~~~~~------~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      |.-|+..|..+.      ....-..|++.||.+|=.-.-..-.+||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            455666665431      1223446999999999544333445799884

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

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

Probab=83.49  E-value=0.17  Score=29.31  Aligned_cols=41  Identities=22%  Similarity=0.513  Sum_probs=22.3

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ..||.|..++...+        ++.+|..|-.. +.....||-|.+++.+
T Consensus         2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le~   42 (70)
T PF07191_consen    2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLEV   42 (70)
T ss_dssp             -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred             CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHHH
Confidence            46999988865521        66677777653 3455579999888754

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

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

Probab=82.73  E-value=0.68  Score=35.59  Aligned_cols=46  Identities=22%  Similarity=0.452  Sum_probs=31.7

Q ss_pred             CccccccccccccCC-CCCCeEcCCCCcccHhhHHHHhccCcccccc
Q 033086           75 TEGVCMVCMEDFDPQ-EFPGKQVPCGHVFHAKCISTWISLSNSCPVC  120 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~C  120 (128)
                      ....|+.|.-.+... +-....=.|||.||+.|...|...+..|..|
T Consensus       305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~  351 (384)
T KOG1812|consen  305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC  351 (384)
T ss_pred             hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence            356799988776432 2223333499999999999998777766443

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

Probab=82.33  E-value=0.73  Score=26.30  Aligned_cols=12  Identities=33%  Similarity=0.902  Sum_probs=8.8

Q ss_pred             cccHhhHHHHhc
Q 033086          101 VFHAKCISTWIS  112 (128)
Q Consensus       101 ~f~~~Ci~~w~~  112 (128)
                      .||+.|+.+|+.
T Consensus        11 gFCRNCLskWy~   22 (68)
T PF06844_consen   11 GFCRNCLSKWYR   22 (68)
T ss_dssp             S--HHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999985

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

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

Probab=82.10  E-value=0.89  Score=35.53  Aligned_cols=37  Identities=24%  Similarity=0.626  Sum_probs=29.9

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS  112 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~  112 (128)
                      .....+|.||.+.+..   ....+.|||.||..|....+.
T Consensus        67 ~~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~  103 (444)
T KOG1815|consen   67 KKGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLG  103 (444)
T ss_pred             CCccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhh
Confidence            3566789999998754   357789999999999988775

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

Probab=80.80  E-value=0.87  Score=32.08  Aligned_cols=46  Identities=22%  Similarity=0.477  Sum_probs=36.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~  122 (128)
                      +....|.+|-.....+   ++.-.|+-.+|..|+...+.....||.|.-
T Consensus       179 dnlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d  224 (235)
T KOG4718|consen  179 DNLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGD  224 (235)
T ss_pred             HHHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhc
Confidence            3456799999887664   355668888999999999998889999943

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

Probab=80.50  E-value=0.6  Score=38.76  Aligned_cols=38  Identities=26%  Similarity=0.523  Sum_probs=28.6

Q ss_pred             CCccccccccccccCCC---CCCeEcCCCCcccHhhHHHHh
Q 033086           74 TTEGVCMVCMEDFDPQE---FPGKQVPCGHVFHAKCISTWI  111 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~---~~~~~~~C~H~f~~~Ci~~w~  111 (128)
                      ..+..|.-|++.....+   .....+.|||.||..|+.--.
T Consensus       782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~  822 (846)
T KOG2066|consen  782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMES  822 (846)
T ss_pred             eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHH
Confidence            34447999999886544   456788999999999986443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	128
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		9e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		5e-07
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		8e-05
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-04
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		8e-04

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 34/49 (69%), Gaps = 1/49 (2%)
Query: 74  TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
           + + +C+VCM DF+ ++   + +PC H FHAKC+  W+  + +CP+CR+
Sbjct: 21  SEQTLCVVCMCDFESRQLL-RVLPCNHEFHAKCVDKWLKANRTCPICRA 68

>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 = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/55 (47%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 72  SGTTEGV-----CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           SGT E V     C VC ED+   E   +Q+PC H+FH  CI  W+   +SCPVCR
Sbjct: 6   SGTEEHVGSGLECPVCKEDYALGESV-RQLPCNHLFHDSCIVPWLEQHDSCPVCR 59

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 78  VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC 120
           +C VC+EDF P++  G   PC H FH KC+  W+ +   CP+C
Sbjct: 17  LCAVCLEDFKPRDELG-ICPCKHAFHRKCLIKWLEVRKVCPLC 58

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 71  GSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           G+   E  C +C  ++   +    ++PC H FH  C+S W+  S +CPVCR
Sbjct: 35  GAVGQEMCCPICCSEYVKGDV-ATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C VC+ + +  E       CGH FHA+C+  W+   ++CP+CR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C +C+   +  E   +++PC H+FH  C+  W+  +  CP+CR
Sbjct: 17  CTICLSILEEGE-DVRRLPCMHLFHQVCVDQWLITNKKCPICR 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	128
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-15
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-14
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-14
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	9e-14
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	4e-13
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	9e-13
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	1e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-12
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-12
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	3e-12
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	7e-12
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-11
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-10
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	8e-09
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	8e-09
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	3e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	7e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	7e-08
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	7e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	8e-08
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	5e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	8e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-05
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	4e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	5e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	7e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	8e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	5e-04
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	9e-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 = 1e-15
 Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 71  GSGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           G+   E  C +C  ++   +    ++PC H FH  C+S W+  S +CPVCR
Sbjct: 35  GAVGQEMCCPICCSEYVKGD-VATELPCHHYFHKPCVSIWLQKSGTCPVCR 84

>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 = 1e-14
 Identities = 26/59 (44%), Positives = 33/59 (55%), Gaps = 6/59 (10%)

Query: 68  TGAGSGTTEGV-----CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           +   SGT E V     C VC ED+   E   +Q+PC H+FH  CI  W+   +SCPVCR
Sbjct: 2   SSGSSGTEEHVGSGLECPVCKEDYALGE-SVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59

>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 = 61.9 bits (151), Expect = 2e-14
 Identities = 13/49 (26%), Positives = 20/49 (40%)

Query: 73  GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
            +    C +C+ED          +PCGH+ H  C    +     CP+C 
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50

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

 Score = 60.8 bits (148), Expect = 9e-14
 Identities = 22/61 (36%), Positives = 38/61 (62%), Gaps = 5/61 (8%)

Query: 66  LPT---GAGSGTTEG-VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           LP+      +  +E  +C+VCM DF+ ++   + +PC H FHAKC+  W+  + +CP+CR
Sbjct: 9   LPSYRFNPNNHQSEQTLCVVCMCDFESRQ-LLRVLPCNHEFHAKCVDKWLKANRTCPICR 67

Query: 122 S 122
           +
Sbjct: 68  A 68

>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 = 58.9 bits (143), Expect = 4e-13
 Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 75  TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           TE  C +C+   +  E   +++PC H+FH  C+  W+  +  CP+CR
Sbjct: 13  TEEKCTICLSILEEGE-DVRRLPCMHLFHQVCVDQWLITNKKCPICR 58

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

 Score = 58.2 bits (141), Expect = 9e-13
 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 72  SGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
                 +C VC+EDF P++      PC H FH KC+  W+ +   CP+C 
Sbjct: 11  ELNLHELCAVCLEDFKPRD-ELGICPCKHAFHRKCLIKWLEVRKVCPLCN 59

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

 Score = 57.5 bits (139), Expect = 1e-12
 Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 3/49 (6%)

Query: 79  CMVCMEDFDPQEFPGKQV---PCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C +CM+ +      G+ +    CGHVF ++C+   +  +N+CP CR + 
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

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

 Score = 57.6 bits (139), Expect = 1e-12
 Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 63  ASDLPTGAGSGTTEGVCMVCMEDFDPQEFPGKQV---PCGHVFHAKCISTWISLSNSCPV 119
           +S         +    C +CM+ +      G+ +    CGHVF ++C+   +  +N+CP 
Sbjct: 2   SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 61

Query: 120 CRSRC 124
           CR + 
Sbjct: 62  CRKKI 66

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

 Score = 57.4 bits (139), Expect = 1e-12
 Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 76  EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           E  C +CM+           +PC H F  KCI  W     +CP+CR
Sbjct: 15  EEECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHRNCPICR 55

>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 = 57.5 bits (139), Expect = 2e-12
 Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 3/49 (6%)

Query: 79  CMVCMEDFDPQEFPGKQV---PCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C +CM+ +      G+ +    CGHVF ++C+   +  +N+CP CR + 
Sbjct: 13  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 56.4 bits (137), Expect = 3e-12
 Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 2/46 (4%)

Query: 79  CMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLSNSCPVCRSR 123
           C VC+ + +  E   + +P CGH FHA+C+  W+   ++CP+CR  
Sbjct: 8   CAVCLAELEDGE-EARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

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

 Score = 56.1 bits (135), Expect = 7e-12
 Identities = 13/46 (28%), Positives = 22/46 (47%)

Query: 76  EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
              C+ C  +   ++       C H FH  C+S W+  +N CP+C+
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 55.1 bits (133), Expect = 1e-11
 Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 3/45 (6%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR 123
           C +C+ED          +PC H F   CI+ WI  + +CP+C+  
Sbjct: 8   CPICLEDP---SNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVP 49

>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 = 55.2 bits (132), Expect = 4e-10
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 7/53 (13%)

Query: 74  TTEGVCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRC 124
           +T  +C +C E+  D      K  PCGH+    C+++W  S    CP CR   
Sbjct: 330 STFQLCKICAENDKDV-----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377

>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 = 49.1 bits (116), Expect = 8e-09
 Identities = 12/43 (27%), Positives = 15/43 (34%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C         +E       C H FH  CIS W+     CP+  
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

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

 Score = 49.1 bits (116), Expect = 8e-09
 Identities = 12/43 (27%), Positives = 15/43 (34%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C         +E       C H FH  CIS W+     CP+  
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 48.3 bits (115), Expect = 1e-08
 Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C++C   F         + C H F   CI  ++  S  CP+C  + 
Sbjct: 18  CVLCGGYF---IDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

>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 = 48.0 bits (114), Expect = 1e-08
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 6/48 (12%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRC 124
           C +CME   D +  P     C  +    CI  W++     CP CR+  
Sbjct: 25  CFICMEKLRDARLCP----HCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

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

 Score = 47.1 bits (112), Expect = 2e-08
 Identities = 13/47 (27%), Positives = 14/47 (29%), Gaps = 5/47 (10%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C +C     D          C H F   CI      SN CP C    
Sbjct: 18  CSICKGYLIDATTIT----ECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

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

 Score = 48.5 bits (115), Expect = 3e-08
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 6/46 (13%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR 123
           C++C E F +        + C H F + CI+ W+     CP+CR  
Sbjct: 67  CIICSEYFIEAVT-----LNCAHSFCSYCINEWMKRKIECPICRKD 107

>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 = 46.8 bits (110), Expect = 7e-08
 Identities = 15/66 (22%), Positives = 21/66 (31%), Gaps = 19/66 (28%)

Query: 76  EGVCMVCMEDF--------------DPQEFPGKQVPCGHVFHAKCISTWISLSN-----S 116
           E  C++CME                      G+   C H FH  C+       N      
Sbjct: 25  EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQ 84

Query: 117 CPVCRS 122
           CP C++
Sbjct: 85  CPSCKT 90

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

 Score = 45.6 bits (108), Expect = 7e-08
 Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 6/44 (13%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           C +C + F +P         C H F   C       +  C +C 
Sbjct: 18  CFICRQAFQNP-----VVTKCRHYFCESCALEHFRATPRCYICD 56

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

 Score = 45.6 bits (108), Expect = 7e-08
 Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 6/47 (12%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C +C++    P       +PC HVF   C+     L   C +CR   
Sbjct: 18  CAICLQTCVHP-----VSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 46.7 bits (110), Expect = 8e-08
 Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 3/49 (6%)

Query: 79  CMVCMEDFDPQEFPGKQV---PCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C +CM+ +      G+ +    CGHVF ++C+   +  +N+CP CR + 
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58

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

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 13/44 (29%), Positives = 21/44 (47%)

Query: 78  VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
           +CM    +            CGHVF ++C+   +  +N+CP CR
Sbjct: 77  ICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120

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

 Score = 43.9 bits (104), Expect = 5e-07
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN---SCPVCRSRCIISG 128
           C +CME F  ++   K + CGH    +C+   ++ S     CP C     I+ 
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS 70

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

 Score = 44.0 bits (104), Expect = 5e-07
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 5/47 (10%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C +C E F      P     C H + + CI  ++S    CP C    
Sbjct: 25  CGICFEYFNIAMIIP----QCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

>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 = 41.1 bits (96), Expect = 3e-06
 Identities = 9/47 (19%), Positives = 16/47 (34%), Gaps = 5/47 (10%)

Query: 78  VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNS--CPVCRS 122
           +C +C       +       CG   H  C++ +   +    CP C  
Sbjct: 17  ICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60

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

 Score = 40.5 bits (94), Expect = 8e-06
 Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 1/45 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRS 122
           C +CME  +  +       CG+     C     +  N  CP CR 
Sbjct: 14  CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 42.0 bits (98), Expect = 1e-05
 Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 7/49 (14%)

Query: 79  CMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLSNS--CPVCRSRC 124
           C +C          G+    CG   H  C++ +   +    CP C    
Sbjct: 183 CNICHSLL----IQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

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

 Score = 41.8 bits (97), Expect = 2e-05
 Identities = 10/59 (16%), Positives = 14/59 (23%), Gaps = 15/59 (25%)

Query: 79  CMVCMEDFDPQEFPGKQV----PCGHVFHAKCISTWI-----------SLSNSCPVCRS 122
           C +C                   C    HA C+  W                 CP C++
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKA 369

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

 Score = 39.6 bits (92), Expect = 3e-05
 Identities = 12/48 (25%), Positives = 15/48 (31%), Gaps = 7/48 (14%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRC 124
           C+ C E    P         C H     C+     +   SCP CR   
Sbjct: 55  CICCQELVFRP-----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 37.8 bits (88), Expect = 4e-05
 Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 7/48 (14%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRC 124
           C  C      P+     Q  CGH F   C++  +S S+  C  C+   
Sbjct: 18  CEKCHLVLCSPK-----QTECGHRFCESCMAALLSSSSPKCTACQESI 60

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

 Score = 39.1 bits (91), Expect = 5e-05
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 7/47 (14%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C  C     +P         C H+F + C+S  I     CPVC +  
Sbjct: 25  CSRCTNILREPVCLG----GCEHIFCSNCVSDCI--GTGCPVCYTPA 65

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

 Score = 39.2 bits (91), Expect = 7e-05
 Identities = 12/48 (25%), Positives = 14/48 (29%), Gaps = 7/48 (14%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRC 124
           C+ C E    P         C H     C+         SCP CR   
Sbjct: 81  CVCCQELVYQP-----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

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

 Score = 38.3 bits (89), Expect = 8e-05
 Identities = 14/49 (28%), Positives = 18/49 (36%), Gaps = 7/49 (14%)

Query: 78  VCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNS-CPVCRSRC 124
            C +C+    +       Q PCGH F   CI   I  +   CPV     
Sbjct: 20  ECPICLMALREAV-----QTPCGHRFCKACIIKSIRDAGHKCPVDNEIL 63

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

 Score = 38.0 bits (88), Expect = 1e-04
 Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 7/48 (14%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNS-CPVCRSRC 124
           C +C     DP      +  C H+F   CI   + +  S CP CR  C
Sbjct: 26  CQICEHILADPV-----ETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

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

 Score = 37.6 bits (87), Expect = 2e-04
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 6/48 (12%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRC 124
           C +C++   +          C H F A CI T +   N  CP CR + 
Sbjct: 57  CPICLDMLKNTMTTK----ECLHRFCADCIITALRSGNKECPTCRKKL 100

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

 Score = 35.8 bits (83), Expect = 2e-04
 Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 9/52 (17%)

Query: 78  VCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIISG 128
            C  C  +   P     K +PC H   + C+    +    CP+C++   +  
Sbjct: 8   RCQQCQAEAKCP-----KLLPCLHTLCSGCLE---ASGMQCPICQAPWPLGA 51

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

 Score = 36.8 bits (85), Expect = 3e-04
 Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 7/48 (14%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCI-STWISLSNSCPVCRSRC 124
           C +CME   +P       +PC H     C  ST    S  CP CR R 
Sbjct: 18  CGICMEILVEP-----VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60

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

 Score = 37.0 bits (85), Expect = 5e-04
 Identities = 14/49 (28%), Positives = 18/49 (36%), Gaps = 7/49 (14%)

Query: 78  VCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNS-CPVCRSRC 124
            C +C+    +       Q PCGH F   CI   I  +   CPV     
Sbjct: 20  ECPICLMALREA-----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL 63

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

 Score = 35.9 bits (82), Expect = 9e-04
 Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 7/50 (14%)

Query: 78  VCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSNS-CPVCRSRCI 125
           +C  C      P      Q  CGH + + C+++ +S     C  C    I
Sbjct: 33  LCSACRNVLRRPF-----QAQCGHRYCSFCLASILSSGPQNCAACVHEGI 77

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	128
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.69
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.68
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.67
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.66
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.66
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.65
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.65
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.64
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.62
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.61
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.61
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.61
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.6
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.59
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.58
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.58
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.57
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.57
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.56
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.56
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.55
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.55
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.54
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.53
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.53
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.51
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.51
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.51
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.51
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.51
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.5
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.48
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.48
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.48
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.47
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.47
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.46
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.45
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.45
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.42
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.41
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.41
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.4
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.4
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.4
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.4
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.37
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.37
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.36
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.34
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.33
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.32
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.31
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.28
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.27
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.26
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.21
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.2
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.18
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.13
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.12
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.11
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	99.07
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.03
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.02
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.98
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.93
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.91
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.89
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.71
3nw0_A	238	Non-structural maintenance of chromosomes element	98.28
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.14
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.38
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.04
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	95.36
1we9_A	64	PHD finger family protein; structural genomics, PH	94.91
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	94.58
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	93.34
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	93.07
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	92.98
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	92.85
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	92.61
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	91.37
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	91.09
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	90.9
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	90.59
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	90.29
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	90.17
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	89.49
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	89.32
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	89.3
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	89.18
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	88.46
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	88.22
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	88.1
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	87.95
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	87.89
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	87.68
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	87.05
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	86.82
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	86.02
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	85.97
1z60_A	59	TFIIH basal transcription factor complex P44 subun	85.35
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	85.25
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	84.76
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	84.21
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	83.99
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	83.91
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	83.88
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	83.76
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	83.64
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	82.93
1weu_A	91	Inhibitor of growth family, member 4; structural g	81.67
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	81.66
2yt5_A	66	Metal-response element-binding transcription facto	81.36
1wem_A	76	Death associated transcription factor 1; structura	81.32
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	81.17
1wee_A	72	PHD finger family protein; structural genomics, PH	81.05
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	80.69
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	80.69

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

Probab=99.69  E-value=1.5e-17  Score=92.07  Aligned_cols=52  Identities=31%  Similarity=0.924  Sum_probs=44.2

Q ss_pred             CCccccccccccccCCCCCCeEcC-CCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ++...|+||++.+..+ .....++ |||.||..||.+|++.+.+||+||+++.+
T Consensus         3 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~v   55 (55)
T 1iym_A            3 DDGVECAVCLAELEDG-EEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCSCCCTTTCCCCCTT-SCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCcCccCCccccCC-CceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeEC
Confidence            4567899999999873 3456666 99999999999999999999999998754

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

Probab=99.68  E-value=2.6e-17  Score=96.71  Aligned_cols=54  Identities=37%  Similarity=0.941  Sum_probs=46.3

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceeeC
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIIS  127 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~  127 (128)
                      ..+...|+||++.|..+ ..+..++|+|.||..||.+|++.+.+||+||+.+..+
T Consensus        20 ~~~~~~C~IC~~~~~~~-~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESR-QLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             SSSCCEETTTTEECCBT-CEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             cCCCCCCeECCcccCCC-CeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            35677899999999873 4557789999999999999999999999999988653

>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=99.67  E-value=6.8e-17  Score=93.35  Aligned_cols=53  Identities=28%  Similarity=0.797  Sum_probs=45.2

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ......|+||++.+.. ......++|||.||..||..|+..+.+||+||+.+..
T Consensus        11 ~~~~~~C~IC~~~~~~-~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           11 EDTEEKCTICLSILEE-GEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             TTCCCSBTTTTBCCCS-SSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CCCCCCCeeCCccccC-CCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            3566789999999976 3456788999999999999999988999999998753

>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=99.66  E-value=4.1e-17  Score=90.20  Aligned_cols=51  Identities=25%  Similarity=0.757  Sum_probs=44.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~  124 (128)
                      .....|+||++.+..++.....++|+|.||..||.+|++.+.+||+||+++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   53 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS   53 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSS
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcC
Confidence            456789999999976556678899999999999999999889999999765

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

Probab=99.66  E-value=6.5e-17  Score=98.46  Aligned_cols=53  Identities=32%  Similarity=0.761  Sum_probs=45.7

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ......|+||++.|.. +.....++|||.||..||..|++.+.+||+||+++..
T Consensus        37 ~~~~~~C~IC~~~~~~-~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVK-GDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SSSCSEETTTTEECCT-TCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCcccChhhcC-CCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            3567789999999987 4456778999999999999999999999999998753

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

Probab=99.65  E-value=9.8e-17  Score=95.69  Aligned_cols=52  Identities=29%  Similarity=0.669  Sum_probs=40.7

Q ss_pred             CccccccccccccC----------CCCCC-eEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           75 TEGVCMVCMEDFDP----------QEFPG-KQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~----------~~~~~-~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ++..|+||++.|..          .+... ...+|+|.||..||.+|++.+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            45568888888754          23333 444599999999999999999999999998764

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

Probab=99.65  E-value=1.1e-16  Score=93.67  Aligned_cols=51  Identities=35%  Similarity=0.952  Sum_probs=43.9

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .....|+||++.+..+ .....++|+|.||..||.+|++.+.+||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~   63 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPR-DELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL   63 (74)
T ss_dssp             CCSCBCSSSCCBCCSS-SCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCS
T ss_pred             CCCCCCcCCCcccCCC-CcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccc
Confidence            5567899999999874 44566799999999999999998889999998764

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

Probab=99.64  E-value=1.4e-16  Score=94.19  Aligned_cols=52  Identities=38%  Similarity=0.850  Sum_probs=44.7

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .....|+||++.|..+ .....++|+|.||..||.+|++.+.+||+||+++..
T Consensus        13 ~~~~~C~IC~~~~~~~-~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           13 GSGLECPVCKEDYALG-ESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             SSSCCCTTTTSCCCTT-SCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             CCCCCCeeCCccccCC-CCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            5667899999999873 355678999999999999999988999999998753

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

Probab=99.62  E-value=1.7e-16  Score=92.06  Aligned_cols=53  Identities=26%  Similarity=0.642  Sum_probs=45.5

Q ss_pred             CCccccccccccccCC---CCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.+..+   +.....++|||.||..||.+|++.+.+||+||+++..
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   63 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccCh
Confidence            5677899999999653   3455788999999999999999999999999998753

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

Probab=99.61  E-value=2.6e-16  Score=90.66  Aligned_cols=52  Identities=27%  Similarity=0.669  Sum_probs=44.6

Q ss_pred             CCccccccccccccCC---CCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.+..+   ...+..++|||.||..||..|+..+.+||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            5677899999999764   234478899999999999999998899999998875

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

Probab=99.61  E-value=5e-16  Score=90.24  Aligned_cols=48  Identities=27%  Similarity=0.600  Sum_probs=43.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.+..+    ..++|||.||..||..|+..+.+||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP----VSLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             SSCCBCSSSSSBCSSE----EEETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             CCCCCCccCCcccCCC----EEccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            5667899999998775    77899999999999999998899999998874

>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=99.61  E-value=5.2e-16  Score=96.91  Aligned_cols=52  Identities=25%  Similarity=0.550  Sum_probs=43.6

Q ss_pred             CccccccccccccCC--------------CCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQ--------------EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~--------------~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ++..|+||++.|..+              +..+..++|+|.||..||.+|+..+.+||+||++|.+
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  101 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCccee
Confidence            456799999998753              1235678999999999999999999999999998764

>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=99.60  E-value=7.7e-16  Score=97.09  Aligned_cols=50  Identities=30%  Similarity=0.686  Sum_probs=40.8

Q ss_pred             ccccccccccccCCC--------------CCCeEcCCCCcccHhhHHHHh-----ccCccccccCccee
Q 033086           76 EGVCMVCMEDFDPQE--------------FPGKQVPCGHVFHAKCISTWI-----SLSNSCPVCRSRCI  125 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~--------------~~~~~~~C~H~f~~~Ci~~w~-----~~~~~CP~Cr~~~~  125 (128)
                      +..|+||++.|..+.              ..+..++|+|.||..||..|+     ..+.+||+||+.+.
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~   93 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG   93 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccC
Confidence            458999999996542              233478999999999999999     45679999999874

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

Probab=99.59  E-value=1.8e-15  Score=88.15  Aligned_cols=50  Identities=26%  Similarity=0.596  Sum_probs=42.9

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc---cCccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS---LSNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~---~~~~CP~Cr~~~~~  126 (128)
                      ..+...|+||++.+..+    ..++|||.||..||..|++   ....||+||+++..
T Consensus        17 ~~~~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           17 LQEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCBCTTTCSBCSSE----EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             CccCCEeccCCcccCCe----EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            35678899999999875    7789999999999999996   45589999998764

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

Probab=99.58  E-value=1.2e-15  Score=88.88  Aligned_cols=50  Identities=26%  Similarity=0.472  Sum_probs=43.3

Q ss_pred             CCCccccccccccccCCCCCCeEc-CCCCcccHhhHHHHhccCccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ..+...|+||++.+..+    ..+ +|||.||..||..|+..+.+||+||+++..
T Consensus        12 ~~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           12 LTPYILCSICKGYLIDA----TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             CCGGGSCTTTSSCCSSC----EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             cCCCCCCCCCChHHHCc----CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            35678899999999875    555 999999999999999888899999998753

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

Probab=99.58  E-value=2.3e-15  Score=90.60  Aligned_cols=54  Identities=28%  Similarity=0.620  Sum_probs=45.4

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC---ccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS---NSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---~~CP~Cr~~~~~  126 (128)
                      ..+...|+||++.|.........++|||.||..|+..|+..+   ..||+||+++..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             ccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            356788999999998744445888999999999999999865   689999998754

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

Probab=99.57  E-value=2e-15  Score=89.82  Aligned_cols=48  Identities=19%  Similarity=0.472  Sum_probs=42.9

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .....|+||++.+..+    ..++|||.||..||..|+.....||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE----EECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe----eEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            4567899999999775    77999999999999999998889999998763

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

Probab=99.57  E-value=9.1e-16  Score=99.99  Aligned_cols=47  Identities=32%  Similarity=0.801  Sum_probs=42.3

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ++..|+||++.|..+    +.++|||.||..||..|+..+.+||+||+++.
T Consensus        52 ~~~~C~iC~~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   98 (138)
T 4ayc_A           52 NELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK   98 (138)
T ss_dssp             HHSBCTTTCSBCSSE----EEETTSCEEEHHHHHHHTTTCSBCTTTCCBCC
T ss_pred             ccCCCcccCcccCCc----eECCCCCCccHHHHHHHHHcCCcCCCCCCcCC
Confidence            456799999999876    78899999999999999999999999998764

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

Probab=99.56  E-value=1.3e-15  Score=86.44  Aligned_cols=51  Identities=27%  Similarity=0.671  Sum_probs=43.6

Q ss_pred             CccccccccccccCC---CCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +...|+||++.+..+   ......++|||.||..|+.+|++.+.+||+||+++.
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   55 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   55 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCT
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCC
Confidence            456899999999653   345578899999999999999999899999999875

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

Probab=99.56  E-value=3e-15  Score=87.64  Aligned_cols=49  Identities=27%  Similarity=0.699  Sum_probs=42.3

Q ss_pred             CCCccccccccccccCCCCCCeEcC-CCCcccHhhHHHHhccC--ccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLS--NSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~~  125 (128)
                      ..+...|+||++.|..+    ..++ |||.||..||..|+..+  ..||+||+++.
T Consensus        12 ~~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           12 IPDELLCLICKDIMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             SCGGGSCSSSCCCCTTC----EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCCCcCCChHHhCC----eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            35678899999999886    7789 99999999999999755  68999999754

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

Probab=99.55  E-value=1.5e-15  Score=87.30  Aligned_cols=49  Identities=33%  Similarity=0.796  Sum_probs=42.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +....|+||++.+..+   ...++|||.||..|+.+|++.+.+||+||+++.
T Consensus         3 ~~~~~C~IC~~~~~~~---~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~   51 (68)
T 1chc_A            3 TVAERCPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCCSSCCSCCCSC---EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCCeeCCccccCC---cEecCCCCeeHHHHHHHHHhCcCcCcCCChhhH
Confidence            4566899999998663   378899999999999999998899999998764

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

Probab=99.55  E-value=4.9e-15  Score=84.79  Aligned_cols=49  Identities=27%  Similarity=0.571  Sum_probs=42.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.+..+    ..++|||.||..||..|+. ....||+||+++..
T Consensus        13 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSP----KQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CCCEECTTTCCEESSC----CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CcCCCCCCCChHhcCe----eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            5678899999999876    5579999999999999994 56689999998753

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

Probab=99.54  E-value=2.2e-15  Score=87.16  Aligned_cols=47  Identities=36%  Similarity=0.898  Sum_probs=41.8

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.+..     ..++|||.||..|+.+|+..+.+||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~-----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (70)
T 2ecn_A           13 TDEEECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMT   59 (70)
T ss_dssp             CCCCCCSSSCCSCCS-----EEETTTEEECHHHHHHSSCCCSSCHHHHHCTT
T ss_pred             CCCCCCeeCCcCccC-----cccCCCCcccHHHHHHHHHCcCcCCCcCCccc
Confidence            567789999999765     77899999999999999998899999998764

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

Probab=99.53  E-value=5.8e-15  Score=87.09  Aligned_cols=49  Identities=16%  Similarity=0.405  Sum_probs=43.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..+    ..++|||.||..||..|+.. +.+||+||+++..
T Consensus         6 ~~~~~C~IC~~~~~~P----v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCccccccCC----EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            5678899999999886    77899999999999999986 7799999998753

>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=99.53  E-value=2.4e-15  Score=93.00  Aligned_cols=49  Identities=24%  Similarity=0.682  Sum_probs=42.8

Q ss_pred             CCccccccccccccCCCCCCeE-cCCCCcccHhhHHHHhccC-ccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQ-VPCGHVFHAKCISTWISLS-NSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~-~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..+    +. ++|||.||..||..|+... ..||+||+++..
T Consensus        20 ~~~~~C~IC~~~~~~p----~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           20 AEVFRCFICMEKLRDA----RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHHTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCCCCCccCCccccCc----cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            4567899999999876    66 9999999999999999877 699999998754

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

Probab=99.51  E-value=4e-15  Score=87.87  Aligned_cols=49  Identities=29%  Similarity=0.617  Sum_probs=42.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-------CccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-------SNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-------~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.+..+    ..++|||.||..|+..|+..       ...||+||+++..
T Consensus        10 ~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           10 QEEVTCPICLELLTEP----LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             CCCCEETTTTEECSSC----CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             ccCCCCcCCCcccCCe----eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            5678899999999876    56899999999999999976       5689999998753

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

Probab=99.51  E-value=1.3e-14  Score=88.11  Aligned_cols=48  Identities=27%  Similarity=0.692  Sum_probs=41.9

Q ss_pred             CCCccccccccccccCCCCCCeEcC-CCCcccHhhHHHHhccC--ccccccCcce
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLS--NSCPVCRSRC  124 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~  124 (128)
                      ..+...|+||++.|..+    ..++ |||.||..||..|+...  ..||+||+++
T Consensus        10 ~~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           10 IPDELLCLICKDIMTDA----VVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CCTTTEETTTTEECSSC----EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CCcCCCCCCCChhhcCc----eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            35678999999999886    7889 99999999999999643  5899999986

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

Probab=99.51  E-value=1.9e-14  Score=85.76  Aligned_cols=49  Identities=29%  Similarity=0.635  Sum_probs=42.7

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc------CccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL------SNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~------~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.+..+    ..++|||.||..|+..|+..      ...||+||+++..
T Consensus        17 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP----VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CTTTSCTTTCSCCSSC----EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             ccCCCCcCCChhhCcc----eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            5677899999999876    68899999999999999976      6689999998753

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

Probab=99.51  E-value=2.8e-14  Score=80.86  Aligned_cols=44  Identities=30%  Similarity=0.680  Sum_probs=38.3

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc---cCcccccc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS---LSNSCPVC  120 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~---~~~~CP~C  120 (128)
                      ..+...|+||++.+..+    ..++|||.||..||.+|++   ...+||+|
T Consensus        17 ~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSC----EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCe----EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            35678899999999876    7789999999999999997   45589998

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

Probab=99.51  E-value=1.1e-14  Score=83.09  Aligned_cols=52  Identities=17%  Similarity=0.439  Sum_probs=41.7

Q ss_pred             Cccccccccc-cccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCcceee
Q 033086           75 TEGVCMVCME-DFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~-~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~  126 (128)
                      ++..|+||++ .+..+......++|||.||..||.+|+. ....||+||+++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            3567999999 7877544446789999999999999975 44689999998753

>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=99.50  E-value=1.8e-15  Score=95.79  Aligned_cols=52  Identities=25%  Similarity=0.550  Sum_probs=0.9

Q ss_pred             CccccccccccccCC--------------CCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQ--------------EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~--------------~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+..|+||++.|..+              +..+..++|+|.||..||.+|++.+.+||+||++|.+
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            346799999999652              1233446899999999999999999999999998764

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

Probab=99.48  E-value=1.2e-14  Score=89.41  Aligned_cols=49  Identities=24%  Similarity=0.606  Sum_probs=42.4

Q ss_pred             CCccccccccccccCCCCCCeEc-CCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.+..+    ..+ +|||.||..|+..|+..+.+||+||+.+..
T Consensus        20 ~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           20 DDLLRCGICFEYFNIA----MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHHTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCCcccCChhhCCc----CEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            3456899999999875    555 899999999999999988999999987753

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

Probab=99.48  E-value=2.8e-14  Score=85.08  Aligned_cols=49  Identities=31%  Similarity=0.674  Sum_probs=42.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc------CccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL------SNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~------~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.+..+    ..++|||.||..|+..|+..      ...||+||+.+..
T Consensus        17 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP----LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCTTTCSCCSSC----BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             cCCCCCCCCCcccCCc----eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            5677899999999875    66799999999999999976      6789999988753

>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=99.48  E-value=1.8e-14  Score=90.04  Aligned_cols=48  Identities=25%  Similarity=0.645  Sum_probs=42.6

Q ss_pred             CCccccccccccccCCCCCCeEc-CCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.+..+    ..+ +|||.||..||..|+..+..||+||+.+.
T Consensus        13 ~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDA----TTIIECLHSFCKTCIVRYLETSKYCPICDVQVH   61 (108)
T ss_dssp             GGGTBCTTTSSBCSSE----EEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSC
T ss_pred             CCcCCCccCChHHhCc----CEeCCCCChhhHHHHHHHHHhCCcCcCCCcccc
Confidence            4567899999999875    665 99999999999999998899999998875

>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=99.47  E-value=1.6e-14  Score=92.43  Aligned_cols=49  Identities=22%  Similarity=0.387  Sum_probs=42.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc-cccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..+    ..++|||.||..||..|+..+. .||+||+++..
T Consensus        50 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCc----EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            4557899999999886    7889999999999999997544 89999998753

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

Probab=99.47  E-value=2e-14  Score=92.37  Aligned_cols=52  Identities=27%  Similarity=0.669  Sum_probs=45.2

Q ss_pred             CCccccccccccccCC---CCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.|..+   +..+..++|||.||..||.+|++.+.+||+||+.+.
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   59 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   59 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCc
Confidence            4567899999999764   445588999999999999999999999999999875

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

Probab=99.46  E-value=4.7e-14  Score=83.78  Aligned_cols=51  Identities=29%  Similarity=0.822  Sum_probs=41.8

Q ss_pred             CCccccccccccccCCCCCCeEcCCC-----CcccHhhHHHHhccC--ccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCG-----HVFHAKCISTWISLS--NSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~--~~CP~Cr~~~~~  126 (128)
                      .+...|.||++++..+ .. .++||.     |.||..||.+|+..+  .+||+||..+.+
T Consensus        13 ~~~~~C~IC~~~~~~~-~~-l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           13 SSQDICRICHCEGDDE-SP-LITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             TTSCCCSSSCCCCCSS-SC-EECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCCeEcCccccCC-Ce-eEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            5567899999998753 23 568996     999999999999765  489999998865

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

Probab=99.45  E-value=9.3e-14  Score=77.22  Aligned_cols=43  Identities=37%  Similarity=0.916  Sum_probs=37.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc---cCcccccc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS---LSNSCPVC  120 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~---~~~~CP~C  120 (128)
                      .+...|+||++.+..+    ..++|||.||..||..|+.   ...+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC----CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc----EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            5677899999999876    6689999999999999954   55689998

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

Probab=99.45  E-value=1e-13  Score=81.96  Aligned_cols=53  Identities=21%  Similarity=0.407  Sum_probs=40.5

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      .+++..|+||++.+...+.....++|||.||..|+..|+. ....||.||+++.
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~   61 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   61 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCS
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccC
Confidence            3567889999999865332222345999999999999874 4568999999875

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

Probab=99.42  E-value=2.8e-14  Score=90.10  Aligned_cols=49  Identities=31%  Similarity=0.683  Sum_probs=42.6

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~  125 (128)
                      ..++..|+||++.+..+    ..++|||.||..||..|+.. ...||+||+.+.
T Consensus        12 ~~~~~~C~iC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (115)
T 3l11_A           12 SLSECQCGICMEILVEP----VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS   61 (115)
T ss_dssp             CHHHHBCTTTCSBCSSC----EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCH
T ss_pred             CCCCCCCccCCcccCce----eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccC
Confidence            35678899999999876    78899999999999999976 568999999864

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

Probab=99.41  E-value=5.8e-14  Score=93.84  Aligned_cols=48  Identities=29%  Similarity=0.710  Sum_probs=41.4

Q ss_pred             CCccccccccccccCCCCCCeEc-CCCCcccHhhHHHHhcc-CccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISL-SNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~  125 (128)
                      .....|+||++.|..+    ..+ +|||.||..||..|+.. ...||+||+++.
T Consensus        52 ~~~~~C~IC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  101 (165)
T 2ckl_B           52 HSELMCPICLDMLKNT----MTTKECLHRFCADCIITALRSGNKECPTCRKKLV  101 (165)
T ss_dssp             HHHHBCTTTSSBCSSE----EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             CCCCCCcccChHhhCc----CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCC
Confidence            4567899999999875    554 99999999999999986 678999998873

>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=99.41  E-value=8.7e-14  Score=88.26  Aligned_cols=50  Identities=28%  Similarity=0.541  Sum_probs=43.5

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc-cccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~  126 (128)
                      ..+...|+||++.+..+    +.++|||.||..||..|+.... +||+||+++..
T Consensus        15 ~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           15 LESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             CCGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCcCChhhcCe----EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            46778999999999876    7789999999999999997665 99999988753

>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=99.40  E-value=4.3e-13  Score=82.54  Aligned_cols=49  Identities=12%  Similarity=0.050  Sum_probs=44.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCC-CcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCG-HVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+.+.|+||++.|..|    ++++|| |+||+.||.+|+..+.+||+||+++..
T Consensus        20 p~~~~CpI~~~~m~dP----V~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHhcCCcCccccccCC----eECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            5678999999999997    889999 999999999999988899999998753

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

Probab=99.40  E-value=2.6e-13  Score=81.45  Aligned_cols=49  Identities=16%  Similarity=0.052  Sum_probs=44.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..|    +.++|||+|++.||..|+..+.+||+||+++..
T Consensus        12 p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP----VRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             chheECcccCchhcCC----eECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            4678899999999997    889999999999999999988899999988753

>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=99.40  E-value=9e-14  Score=91.78  Aligned_cols=49  Identities=22%  Similarity=0.419  Sum_probs=42.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc-cccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..+    ..++|||.||..||..|+.... .||+||.++..
T Consensus        76 ~~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  125 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ  125 (150)
T ss_dssp             HHHTBCTTTSSBCSSE----EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCEeecCChhhcCC----EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCC
Confidence            3557899999999886    7799999999999999998654 89999998753

>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=99.40  E-value=7e-14  Score=87.63  Aligned_cols=48  Identities=21%  Similarity=0.591  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc---cccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN---SCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~---~CP~Cr~~~~~  126 (128)
                      ....|+||++.+..+    ..++|||.||..||..|+..+.   +||+||+++..
T Consensus        20 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           20 KILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHTSCSSSCCCCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCCCcccChhhcCe----EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            456799999999875    6689999999999999997653   89999987753

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

Probab=99.37  E-value=2.9e-13  Score=79.00  Aligned_cols=49  Identities=18%  Similarity=0.522  Sum_probs=41.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC--ccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS--NSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~--~~CP~Cr~~~~  125 (128)
                      +....|+||.+.+..+.   ....|+|.||..||.+||+.+  .+||+||+.|.
T Consensus        13 ~~i~~C~IC~~~i~~g~---~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQ---SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSE---ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCC---ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            55678999999998642   333899999999999999877  78999999875

>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=99.37  E-value=7e-13  Score=81.88  Aligned_cols=49  Identities=14%  Similarity=0.060  Sum_probs=44.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..|    +.++|||+||+.||..|+..+.+||+||.++..
T Consensus        27 p~~~~CpI~~~~m~dP----V~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP----VRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             STTTBCTTTCSBCSSE----EEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cHhhCCcCccCcccCC----eECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            4678899999999997    889999999999999999988899999998753

>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=99.36  E-value=1.8e-13  Score=86.44  Aligned_cols=48  Identities=25%  Similarity=0.675  Sum_probs=42.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.+..+    ..++|||.||..||..|+.. ..+||+||+++.
T Consensus        21 ~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   69 (116)
T 1rmd_A           21 VKSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (116)
T ss_dssp             HHHTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCCCCCCCCCcHhcCc----EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCC
Confidence            3467899999999876    77899999999999999986 679999999875

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

Probab=99.35  E-value=1.3e-13  Score=76.47  Aligned_cols=47  Identities=21%  Similarity=0.530  Sum_probs=40.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceeeC
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIIS  127 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~  127 (128)
                      .+...|+||++.|..+    ..++|||.||..|+..|   ...||+||+.+.+.
T Consensus         4 ~~~~~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCe----EEcCCCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            5667899999999876    77899999999999774   56899999987653

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

Probab=99.34  E-value=2.6e-13  Score=87.06  Aligned_cols=52  Identities=27%  Similarity=0.669  Sum_probs=44.3

Q ss_pred             CCccccccccccccCC---CCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|+||++.+..+   ......++|||.||..||.+|++.+++||+||+++.
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            5677899999999653   334478899999999999999999999999998875

>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=99.33  E-value=3.4e-13  Score=88.13  Aligned_cols=47  Identities=21%  Similarity=0.562  Sum_probs=41.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc-cccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~  124 (128)
                      .+...|+||++.+..+    +.++|||.||..||..|+.... +||+||+++
T Consensus        29 ~~~~~C~IC~~~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP----FQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CcCcCCCCCChhhcCc----EECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            5778899999999886    7789999999999999998664 899999864

>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=99.32  E-value=4.2e-13  Score=76.40  Aligned_cols=48  Identities=23%  Similarity=0.456  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCCCCCeEc--CCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV--PCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~--~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .++..|.||++.+...    ..+  ||||. ||..|+..|.+.+..||+||+++.
T Consensus         6 ~~~~~C~IC~~~~~~~----~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            6 NAIEPCVICQGRPKNG----CIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGGSCCTTTSSSCSCE----EEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CCcCCCCcCCCCCCCE----EEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            4566899999987663    544  99999 899999999988889999999764

>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=99.31  E-value=3.5e-13  Score=85.35  Aligned_cols=47  Identities=28%  Similarity=0.624  Sum_probs=40.6

Q ss_pred             CCccccccccccccCCCCCCeEc-CCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .+...|+||++.|..+    +.+ +|||.||..||..|+.  ..||+||+++..
T Consensus        20 ~~~~~C~IC~~~~~~p----v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           20 EKLLRCSRCTNILREP----VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             HHTTSCSSSCSCCSSC----BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hhCCCCCCCChHhhCc----cEeCCCCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            3567799999999876    666 9999999999999987  789999998743

>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=99.28  E-value=1e-12  Score=74.57  Aligned_cols=48  Identities=19%  Similarity=0.434  Sum_probs=40.2

Q ss_pred             CCccccccccccccCCCCCCeEc--CCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV--PCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~--~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .....|.||++.+...    ..+  ||||. ||..|+..|.+.+..||+||+++.
T Consensus         5 ~~~~~C~IC~~~~~~~----~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDG----NIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGGSBCTTTSSSBSCE----EEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             CcCCCCcccCCcCCCe----EEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            4567899999987653    444  99998 999999999988889999999764

>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=99.27  E-value=2.3e-12  Score=96.09  Aligned_cols=46  Identities=30%  Similarity=0.837  Sum_probs=40.9

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      ...|+||++.+..+    ..++|||.||..|+..|+. ...+||+||+++.
T Consensus       332 ~~~C~ICle~~~~p----v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~  378 (389)
T 2y1n_A          332 FQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK  378 (389)
T ss_dssp             SSBCTTTSSSBCCE----EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCcCCCCe----EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccC
Confidence            46899999998775    8899999999999999998 6789999999764

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

Probab=99.26  E-value=9.3e-13  Score=76.98  Aligned_cols=43  Identities=30%  Similarity=0.750  Sum_probs=37.6

Q ss_pred             CccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +...|+||++.+..+    ..++|||. ||..|+..|    ..||+||+++.
T Consensus        23 ~~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   66 (74)
T 4ic3_A           23 EEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEAV----DKCPMCYTVIT   66 (74)
T ss_dssp             HHTBCTTTSSSBCCE----EEETTCCBCCCHHHHTTC----SBCTTTCCBCS
T ss_pred             cCCCCCCCCCCCCCE----EEcCCCChhHHHHhhhcC----ccCCCcCcCcc
Confidence            456799999998775    78899999 999999998    78999998764

>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=99.21  E-value=5.4e-12  Score=84.59  Aligned_cols=49  Identities=29%  Similarity=0.570  Sum_probs=42.8

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc-cccccCccee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRSRCI  125 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-~CP~Cr~~~~  125 (128)
                      ..+...|+||++.+..+    +.++|||.||..||.+|+..+. +||+||+++.
T Consensus        15 ~~~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   64 (170)
T 3hcs_A           15 LESKYECPICLMALREA----VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILL   64 (170)
T ss_dssp             CCGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCChhhcCc----EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcc
Confidence            36778999999999886    7789999999999999997544 9999998765

>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=99.20  E-value=6.2e-12  Score=76.71  Aligned_cols=46  Identities=22%  Similarity=0.526  Sum_probs=39.8

Q ss_pred             CCccccccccccccCCCCCCeEcC-CCCcccHhhHHHHhccC------ccccc--cCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVP-CGHVFHAKCISTWISLS------NSCPV--CRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Ci~~w~~~~------~~CP~--Cr~~  123 (128)
                      .....|+||++.|..|    +.++ |||+||+.||..|+..+      .+||+  |++.
T Consensus         5 ~~~~~CPI~~~~~~dP----V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP----VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SSCCBCTTTCSBCSSE----EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CcEeECcCcCchhcCC----EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            5678899999999987    7885 99999999999999753      48999  9865

>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=99.18  E-value=8.8e-12  Score=88.92  Aligned_cols=50  Identities=18%  Similarity=0.100  Sum_probs=43.2

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC-ccccccCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS-NSCPVCRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~~  126 (128)
                      ......|+||++.|..|    ++++|||+||+.||..|+..+ .+||+||.++..
T Consensus       205 ~~~~~~c~i~~~~~~dP----v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          205 IPDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CCSTTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCcccCCcCcCCHhcCC----eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            34678899999999997    889999999999999999754 459999998753

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

Probab=99.13  E-value=1.2e-11  Score=90.55  Aligned_cols=55  Identities=22%  Similarity=0.468  Sum_probs=42.1

Q ss_pred             CCCccccccccccccCCCCCC----eEcCCCCcccHhhHHHHhccC-----------ccccccCcceeeC
Q 033086           73 GTTEGVCMVCMEDFDPQEFPG----KQVPCGHVFHAKCISTWISLS-----------NSCPVCRSRCIIS  127 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~----~~~~C~H~f~~~Ci~~w~~~~-----------~~CP~Cr~~~~~~  127 (128)
                      .+...+|+||++.+...+...    ....|+|.||..||.+|++..           ++||+||+++..+
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            356778999999997633222    235799999999999999642           4799999988643

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

Probab=99.12  E-value=1.3e-11  Score=72.22  Aligned_cols=43  Identities=30%  Similarity=0.762  Sum_probs=35.7

Q ss_pred             CccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +...|+||++.+..+    ..++|||. ||..|+..    ...||+||+++.
T Consensus        24 ~~~~C~IC~~~~~~~----~~~pCgH~~~C~~C~~~----~~~CP~Cr~~i~   67 (75)
T 2ecg_A           24 EEKLCKICMDRNIAI----VFVPCGHLVTCKQCAEA----VDKCPMCYTVIT   67 (75)
T ss_dssp             HHHSCSSSCSSCCCB----CCSSSCCCCBCHHHHHH----CSBCTTTCCBCC
T ss_pred             CCCCCCcCCCCCCCE----EEecCCCHHHHHHHhhC----CCCCccCCceec
Confidence            345799999998775    77899999 99999964    368999998764

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

Probab=99.11  E-value=3.9e-11  Score=81.04  Aligned_cols=49  Identities=18%  Similarity=0.123  Sum_probs=43.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC-ccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS-NSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~~  126 (128)
                      .....|+||++.|..|    ++++|||+|++.||..|+... .+||+||.++..
T Consensus       104 p~~f~CPI~~elm~DP----V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCCCC----eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            5678999999999987    888999999999999999754 479999998753

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

Probab=99.07  E-value=9.5e-11  Score=65.70  Aligned_cols=49  Identities=27%  Similarity=0.742  Sum_probs=38.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCC--C---cccHhhHHHHhcc--CccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCG--H---VFHAKCISTWISL--SNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~--H---~f~~~Ci~~w~~~--~~~CP~Cr~~~~~  126 (128)
                      ++...|.||++....   . ..+||.  +   .||..||.+|+..  +.+||+||.+|.+
T Consensus         4 ~~~~~CrIC~~~~~~---~-l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELGN---E-RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSC---C-CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCCC---c-eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456789999998433   2 358865  3   8999999999964  5689999998875

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

Probab=99.03  E-value=2.2e-10  Score=65.78  Aligned_cols=44  Identities=25%  Similarity=0.612  Sum_probs=36.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .+...|.||++.+...    ..+||||. ||..|+..    ...||+||+++.
T Consensus        13 ~~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~----~~~CP~CR~~i~   57 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNW----VLLPCRHTCLCDGCVKY----FQQCPMCRQFVQ   57 (68)
T ss_dssp             CCSSCCSSSSSSCCCC----EETTTTBCCSCTTHHHH----CSSCTTTCCCCC
T ss_pred             CCCCCCCCcCcCCCCE----EEECCCChhhhHHHHhc----CCCCCCCCcchh
Confidence            4567899999987653    88999999 99999974    468999998764

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=99.02  E-value=4.3e-11  Score=70.74  Aligned_cols=43  Identities=42%  Similarity=0.852  Sum_probs=36.3

Q ss_pred             CccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      +...|+||++.+...    ..+||||. ||..|+..|    ..||+||+++.
T Consensus        17 ~~~~C~IC~~~~~~~----v~~pCgH~~~C~~C~~~~----~~CP~Cr~~i~   60 (79)
T 2yho_A           17 EAMLCMVCCEEEINS----TFCPCGHTVCCESCAAQL----QSCPVCRSRVE   60 (79)
T ss_dssp             HHTBCTTTSSSBCCE----EEETTCBCCBCHHHHTTC----SBCTTTCCBCC
T ss_pred             CCCEeEEeCcccCcE----EEECCCCHHHHHHHHHhc----CcCCCCCchhh
Confidence            445799999997764    88899999 999999877    39999998764

>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=98.98  E-value=3.3e-10  Score=80.31  Aligned_cols=50  Identities=22%  Similarity=0.525  Sum_probs=42.1

Q ss_pred             CCCccccccccccccCCCCCCeE-cCCCCcccHhhHHHHhccC--ccccc--cCcceee
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQ-VPCGHVFHAKCISTWISLS--NSCPV--CRSRCII  126 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~-~~C~H~f~~~Ci~~w~~~~--~~CP~--Cr~~~~~  126 (128)
                      ......||||++.|..|    +. +.|||+||+.||..|+..+  .+||+  ||+.+..
T Consensus       178 ~~~el~CPIcl~~f~DP----Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          178 GKIELTCPITCKPYEAP----LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             SBCCSBCTTTSSBCSSE----EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             CceeeECcCccCcccCC----eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            45677899999999887    55 5999999999999999754  47999  9987653

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

Probab=98.93  E-value=3.7e-10  Score=68.63  Aligned_cols=49  Identities=20%  Similarity=0.635  Sum_probs=37.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc--------Cccccc--cCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL--------SNSCPV--CRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--------~~~CP~--Cr~~  123 (128)
                      ....+|+||++.+..+ ....+.+|||.||..|+..++..        ...||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~-~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVE-QMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGG-GEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccc-cceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3567899999998764 22233479999999999998852        237999  9987

>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=98.91  E-value=2.4e-10  Score=84.44  Aligned_cols=44  Identities=32%  Similarity=0.793  Sum_probs=38.2

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCc-ccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHV-FHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      .++..|+||++.+..+    ..+||||. ||..|+..|    ..||+||+++.
T Consensus       293 ~~~~~C~IC~~~~~~~----v~lpCgH~~fC~~C~~~~----~~CP~CR~~i~  337 (345)
T 3t6p_A          293 QEERTCKVCMDKEVSV----VFIPCGHLVVCQECAPSL----RKCPICRGIIK  337 (345)
T ss_dssp             HTTCBCTTTSSSBCCE----EEETTCCEEECTTTGGGC----SBCTTTCCBCC
T ss_pred             cCCCCCCccCCcCCce----EEcCCCChhHhHHHHhcC----CcCCCCCCCcc
Confidence            3457899999998875    78899999 999999988    68999998764

>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=98.89  E-value=4.6e-10  Score=63.05  Aligned_cols=47  Identities=9%  Similarity=0.153  Sum_probs=41.2

Q ss_pred             ccccccccccccCCCCCCeEc-CCCCcccHhhHHHHhccCccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ...|+|+++.+..+    +.+ ++||+|.+.||.+|++.+.+||+.++++..
T Consensus         3 ~~~CpIs~~~m~dP----V~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRP----VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSE----EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCC----EEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            35799999999987    777 899999999999999888899999988753

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

Probab=98.71  E-value=6.4e-09  Score=63.17  Aligned_cols=45  Identities=27%  Similarity=0.569  Sum_probs=37.8

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      .|.+|--++..-   .+++||+|+||.+|+..|.+ ..++||.|+.++.
T Consensus         3 fC~~C~~Pi~iy---gRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            3 FCDKCGLPIKVY---GRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             BCTTTCSBCSEE---EEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             ecCccCCCeEEE---eeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            588888888663   48899999999999999984 5679999998764

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

Probab=98.28  E-value=5.6e-07  Score=63.28  Aligned_cols=49  Identities=18%  Similarity=0.508  Sum_probs=39.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc--cccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN--SCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~CP~Cr~~~~  125 (128)
                      +....|.||.+....+   .....|+|.||..|+.+|++.+.  .||.|+..|.
T Consensus       178 ~~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~  228 (238)
T 3nw0_A          178 DAVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP  228 (238)
T ss_dssp             TTCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCC
T ss_pred             CCCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCC
Confidence            3467899999998874   23334999999999999997654  8999998874

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

Probab=96.38  E-value=0.0016  Score=39.23  Aligned_cols=36  Identities=17%  Similarity=0.387  Sum_probs=25.8

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHH-Hh
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIST-WI  111 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~-w~  111 (128)
                      ++..|.||.+.+..+ .+..-+.|+|.||..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~-av~~C~~C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQD-AVKTCVTCEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCB-CCEEETTTTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCC-ceEECCcCChHHhHHHCHHHhc
Confidence            356799999764331 1223489999999999998 53

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

Probab=96.04  E-value=0.0052  Score=34.48  Aligned_cols=45  Identities=20%  Similarity=0.367  Sum_probs=33.1

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc----cccccCcc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN----SCPVCRSR  123 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~----~CP~Cr~~  123 (128)
                      ....|.||.+.    +..+.--.|...||..|+...+....    .||.|+..
T Consensus        11 ~~~~C~vC~~~----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            44569999753    44555667899999999988775432    79999753

>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=95.36  E-value=0.024  Score=33.18  Aligned_cols=35  Identities=26%  Similarity=0.399  Sum_probs=24.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      ..+..|.||-.-- . +.......|+.+||..|+.+.
T Consensus        13 ~~D~~C~VC~~~t-~-~~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCEVWT-A-ESLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTCCCC-S-SCCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCcccccc-c-cceeccccccccccHhhcccc
Confidence            3677899996332 2 222333458999999999986

>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=94.91  E-value=0.0045  Score=34.28  Aligned_cols=50  Identities=28%  Similarity=0.552  Sum_probs=34.0

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-----cCccccccCc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-----LSNSCPVCRS  122 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-----~~~~CP~Cr~  122 (128)
                      .++...|+||...+...+..+.--.|..-||..|+.--..     ....||.|+.
T Consensus         3 ~~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            3 SGSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             CSSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            3566779999988754333444456888999999853221     3447999964

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

Probab=94.58  E-value=0.02  Score=31.42  Aligned_cols=47  Identities=21%  Similarity=0.449  Sum_probs=32.2

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc----CccccccCcc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL----SNSCPVCRSR  123 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~  123 (128)
                      ......|.||...    +..+.--.|...||..|+..-+..    .-.||.|++.
T Consensus         8 ~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~~   58 (61)
T 2l5u_A            8 TDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE   58 (61)
T ss_dssp             SCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGGG
T ss_pred             CCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECcccccc
Confidence            3456779999863    334444468889999999875432    2269999753

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.34  E-value=0.012  Score=31.73  Aligned_cols=46  Identities=24%  Similarity=0.525  Sum_probs=32.0

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRS  122 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~  122 (128)
                      ...+..|.||...    +..+.--.|...||..|+.+-+...    -.||.|++
T Consensus         6 ~~~~~~C~vC~~~----g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS----SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC----CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            4566779999864    4445555788999999998654322    25998854

>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=93.07  E-value=0.022  Score=31.26  Aligned_cols=46  Identities=20%  Similarity=0.391  Sum_probs=31.8

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~  123 (128)
                      .....|.||...    +..+.--.|...||..|+..-+...    -.||.|+..
T Consensus         7 ~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCCcCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            456679999753    4444555688899999998644322    269999754

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=92.98  E-value=0.079  Score=43.86  Aligned_cols=48  Identities=10%  Similarity=0.025  Sum_probs=42.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCC-CcccHhhHHHHhccCccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCG-HVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      -+...|||-++.+..|    ++++-| +++=+..|.+|+..+.+||+=|.++.
T Consensus       889 P~~F~cPIs~~lM~DP----VilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~  937 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDP----VILPASKMNIDRSTIKAHLLSDSTDPFNRMPLK  937 (968)
T ss_dssp             CGGGBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCC
T ss_pred             cHHhCCcchhhHHhCC----eEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCC
Confidence            3677899999999997    889998 58999999999998889999888764

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=92.85  E-value=0.053  Score=28.40  Aligned_cols=44  Identities=23%  Similarity=0.474  Sum_probs=29.0

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRS  122 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~  122 (128)
                      .|.||...-.. +..+.--.|...||..|+.+=+...    -.||.|++
T Consensus         2 ~C~vC~~~~~~-~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCC-CCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            47888765322 3344555788999999997544322    26999975

>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=92.61  E-value=0.027  Score=37.64  Aligned_cols=45  Identities=27%  Similarity=0.432  Sum_probs=32.0

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCcc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRSR  123 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~  123 (128)
                      .+..|.+|...    +..+..-.|...||..|+.+-+...    -.||.|+..
T Consensus         3 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   51 (184)
T 3o36_A            3 NEDWCAVCQNG----GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDL   51 (184)
T ss_dssp             SCSSCTTTCCC----SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCS
T ss_pred             CCCccccCCCC----CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCc
Confidence            45669999744    4455555688999999997765432    269999863

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=91.37  E-value=0.095  Score=30.96  Aligned_cols=47  Identities=21%  Similarity=0.402  Sum_probs=33.3

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCcc
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRSR  123 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~  123 (128)
                      ......|.+|...    +..+..-.|...||..|+.+=+...    -.||.|+..
T Consensus        22 d~n~~~C~vC~~~----g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           22 DDSATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCcCcCcCCC----CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            3566689999864    4455555788899999997755432    269999753

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

Probab=91.09  E-value=0.042  Score=31.26  Aligned_cols=50  Identities=18%  Similarity=0.341  Sum_probs=33.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc----cCccccccCcce
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS----LSNSCPVCRSRC  124 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~----~~~~CP~Cr~~~  124 (128)
                      .+...|.||...... ...+.--.|...||..|+..-..    ..-.||.|+..+
T Consensus        16 ~~~~~C~~C~~~~~~-~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           16 NQIWICPGCNKPDDG-SPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             CEEECBTTTTBCCSS-CCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             CCCcCCCCCCCCCCC-CCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            445569999877532 23334446888999999975443    233699997654

>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=90.90  E-value=0.031  Score=38.08  Aligned_cols=46  Identities=26%  Similarity=0.398  Sum_probs=31.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~  123 (128)
                      ..+..|.+|...    +..+..-.|...||..|+.+.+...    -.||.|+..
T Consensus         5 ~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~   54 (207)
T 3u5n_A            5 PNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDI   54 (207)
T ss_dssp             SSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCS
T ss_pred             CCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCc
Confidence            345679999744    3333444688899999997765422    269999763

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=90.59  E-value=0.042  Score=30.56  Aligned_cols=45  Identities=24%  Similarity=0.417  Sum_probs=31.3

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~  122 (128)
                      ..+..|.||...    +..+.--.|...||..|+.+-+...    -.||.|..
T Consensus         6 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            6 KNEDECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             SCCCSBSSSSCC----SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCccCCCC----CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            456779999864    3445555788899999998544322    26999964

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

Probab=90.29  E-value=0.29  Score=31.48  Aligned_cols=45  Identities=22%  Similarity=0.350  Sum_probs=32.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc---------cC--ccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS---------LS--NSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~---------~~--~~CP~Cr~  122 (128)
                      ..+..|.+|.+.    +..+..-.|-..||..||.+-+.         ..  -.||.|+.
T Consensus        61 g~~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           61 GMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             SCBCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCeecccCCC----CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            456779999865    44445557889999999997663         11  26999974

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=90.17  E-value=0.037  Score=30.16  Aligned_cols=45  Identities=24%  Similarity=0.553  Sum_probs=31.0

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCcc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRSR  123 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~~  123 (128)
                      .+..|.||...    +..+.--.|...||..|+.+-+...    -.||.|+..
T Consensus         4 ~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   52 (60)
T 2puy_A            4 HEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQ   52 (60)
T ss_dssp             CCSSCTTTCCC----SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHH
T ss_pred             CCCCCcCCCCC----CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccCh
Confidence            45679999864    3445555788999999998644322    269999653

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=89.49  E-value=0.1  Score=29.53  Aligned_cols=50  Identities=18%  Similarity=0.297  Sum_probs=32.4

Q ss_pred             CCCccccccccccc-cCCCCCCeEcCCCCcccHhhHHHHhccC--ccccccCc
Q 033086           73 GTTEGVCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLS--NSCPVCRS  122 (128)
Q Consensus        73 ~~~~~~C~IC~~~~-~~~~~~~~~~~C~H~f~~~Ci~~w~~~~--~~CP~Cr~  122 (128)
                      ......|.||...- ..++..+.--.|...||..|+..-....  -.||.|+.
T Consensus        13 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           13 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            35667899998763 1223334444688899999997533222  26998864

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=89.32  E-value=0.03  Score=34.19  Aligned_cols=51  Identities=18%  Similarity=0.289  Sum_probs=32.1

Q ss_pred             ccccccccccccCCCCCCeEc-CCCCcccHhhHHHH------h----ccCccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTW------I----SLSNSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w------~----~~~~~CP~Cr~~~~~  126 (128)
                      ...|.||...+...+..+..- .|..-||..|+.--      +    .....||.|+.....
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~~~~   64 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKEG   64 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHTTTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCcCCC
Confidence            346999999975533333332 57888999998411      1    133479999765443

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=89.30  E-value=0.1  Score=32.03  Aligned_cols=45  Identities=20%  Similarity=0.416  Sum_probs=29.2

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRS  122 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~  122 (128)
                      .|.||...-...+..+.--.|...||..|+.+-+...    -.||.|+.
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            5777875422223344455689999999997655422    26999975

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=89.18  E-value=0.13  Score=30.85  Aligned_cols=46  Identities=17%  Similarity=0.288  Sum_probs=30.1

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc---cCccccccCc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS---LSNSCPVCRS  122 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~---~~~~CP~Cr~  122 (128)
                      +...| ||...... +..+.--.|...||..|+..-..   ....||.|+.
T Consensus        27 d~vrC-iC~~~~~~-~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           27 DVTRC-ICGFTHDD-GYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CBCCC-TTSCCSCS-SCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCEEe-ECCCccCC-CcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            44567 88776544 33444556888999999865332   2347999973

>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=88.46  E-value=0.25  Score=28.26  Aligned_cols=49  Identities=20%  Similarity=0.444  Sum_probs=31.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHh-----ccCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI-----SLSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~-----~~~~~CP~Cr~~  123 (128)
                      .+...| ||..........+.--.|..-||..|+.--.     .....||.|+..
T Consensus        10 ~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~   63 (79)
T 1wep_A           10 LVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             CCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccc
Confidence            344456 8988775333344455688899999984211     134589999864

>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=88.22  E-value=0.14  Score=34.26  Aligned_cols=47  Identities=23%  Similarity=0.591  Sum_probs=32.2

Q ss_pred             cccccccccccCCCC---CCeEcCCCCcccHhhHHH------Hhc-----cCccccccCcc
Q 033086           77 GVCMVCMEDFDPQEF---PGKQVPCGHVFHAKCIST------WIS-----LSNSCPVCRSR  123 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~---~~~~~~C~H~f~~~Ci~~------w~~-----~~~~CP~Cr~~  123 (128)
                      ..|+||...+..++.   .+..-.|..-||..|+.-      -+.     ....||.|+..
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            459999999877432   334456889999999732      111     14589999864

>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=88.10  E-value=0.28  Score=27.12  Aligned_cols=35  Identities=17%  Similarity=0.359  Sum_probs=23.8

Q ss_pred             CCccccccccccccCCCCCCeEc-CCCCcccHhhHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQV-PCGHVFHAKCIS  108 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~  108 (128)
                      +....|++|..++......+.-- .|..-||..|+.
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            45567999999976533334444 788899999983

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=87.95  E-value=0.13  Score=34.56  Aligned_cols=43  Identities=23%  Similarity=0.436  Sum_probs=30.2

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc----CccccccCcc
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL----SNSCPVCRSR  123 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~  123 (128)
                      ..|.+|...    +..+..-.|...||..|+.+=+..    .-.||.|+..
T Consensus         3 ~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~   49 (189)
T 2ro1_A            3 TICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   49 (189)
T ss_dssp             CCBTTTCCC----SSCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCS
T ss_pred             CcCccCCCC----CceeECCCCCchhccccCCCCcccCCCCCCCCcCccCC
Confidence            459999854    445566678899999999764432    2269999753

>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=87.89  E-value=0.19  Score=30.64  Aligned_cols=38  Identities=21%  Similarity=0.390  Sum_probs=26.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS  112 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~  112 (128)
                      ..+..|.||...=.. ...+.--.|+..||..|+...+.
T Consensus         5 ~~~~~C~~C~~~g~~-~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            5 SSGANCAVCDSPGDL-LDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCSCBTTTCCCCCT-TTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCcCCCCCCCC-cCCeECCCCCCCcChHHhCCccc
Confidence            466789999876322 22245567899999999987654

>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=87.68  E-value=1.1  Score=26.35  Aligned_cols=51  Identities=18%  Similarity=0.403  Sum_probs=35.3

Q ss_pred             CccccccccccccCC---CCCCeEcCCCCcccHhhHHHHh-ccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~-~~~~~CP~Cr~~~~  125 (128)
                      ....|.||-+.+...   +.-+..--|+--.|+.|..--. ..+..||.|+.++.
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            446799999997331   1122334578788999987554 46668999998874

>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=87.05  E-value=0.31  Score=25.57  Aligned_cols=44  Identities=16%  Similarity=0.233  Sum_probs=27.3

Q ss_pred             ccccccccccCCCCCCeEc-CCCCcccHhhHHHH----hccCccccccC
Q 033086           78 VCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTW----ISLSNSCPVCR  121 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w----~~~~~~CP~Cr  121 (128)
                      .|.+|..++..+...+.-- .|..-||..|+.--    ...+..||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            3778888775433233333 57778999997421    12455799885

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=86.82  E-value=0.066  Score=33.49  Aligned_cols=47  Identities=21%  Similarity=0.390  Sum_probs=29.7

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccC
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR  121 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr  121 (128)
                      ....|..|...|..-....-...||.+||..|........+.|-.|-
T Consensus        18 ~~~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~~vRVC~~C~   64 (120)
T 1y02_A           18 LEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   64 (120)
T ss_dssp             --CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             ccCcccCcCCccccccccccCCCCCCeeCHHHhCCCCCCceECHHHH
Confidence            44579999999865322334557999999999766554455677663

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

Probab=86.02  E-value=0.5  Score=27.71  Aligned_cols=38  Identities=24%  Similarity=0.366  Sum_probs=26.8

Q ss_pred             CCCccccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           73 GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        73 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      ..+...|.+|...|..-....--..||.+||..|....
T Consensus         6 ~~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~   43 (88)
T 1wfk_A            6 SGMESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFS   43 (88)
T ss_dssp             CCCCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEE
T ss_pred             CCcCCCCcCcCCcccCccccccCCCCCCEEChhHcCCc
Confidence            35566899999998753222234569999999997543

>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=85.97  E-value=0.29  Score=32.14  Aligned_cols=48  Identities=25%  Similarity=0.528  Sum_probs=31.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHh-----ccCccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI-----SLSNSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~-----~~~~~CP~Cr~  122 (128)
                      ++...| +|.......+..+..-.|...||..|+.--.     .....||.|+.
T Consensus         6 ~~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~   58 (174)
T 2ri7_A            6 DTKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS   58 (174)
T ss_dssp             -CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHH
T ss_pred             CCCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcc
Confidence            456678 9988765433344455688899999984211     23447999975

>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=85.35  E-value=0.31  Score=26.53  Aligned_cols=42  Identities=26%  Similarity=0.492  Sum_probs=29.0

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCcccccc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC  120 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~C  120 (128)
                      .|-.|...|.... ...-..|++.||.+|=.-.-..-..||-|
T Consensus        17 ~C~~C~~~~~~~~-~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           17 FCYGCQGELKDQH-VYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEECTTSE-EECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             cccccCcccCCCc-cEECCccCcCcccchhHHHHhhccCCcCC
Confidence            4989998885421 12355799999999965443444579988

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=85.25  E-value=0.096  Score=31.12  Aligned_cols=48  Identities=19%  Similarity=0.324  Sum_probs=31.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC----ccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS----NSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~CP~Cr~  122 (128)
                      .+...|.||...-.. +..+..-.|...||..|+.+=+...    -.||.|+.
T Consensus        14 ~~~~~C~vC~~~~~~-~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~   65 (92)
T 2e6r_A           14 IDSYICQVCSRGDED-DKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL   65 (92)
T ss_dssp             CCCCCCSSSCCSGGG-GGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHH
T ss_pred             cCCCCCccCCCcCCC-CCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcC
Confidence            345579999876432 3344455688899999997544322    25999964

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=84.76  E-value=0.55  Score=29.38  Aligned_cols=36  Identities=25%  Similarity=0.494  Sum_probs=26.4

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      +...|.+|...|..-....-...||++||..|....
T Consensus        68 ~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~~  103 (125)
T 1joc_A           68 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN  103 (125)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             CCCCCcCcCCccccccccccCCCCCeEEChHHhCCc
Confidence            445799999999753333345579999999997554

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

Probab=84.21  E-value=0.65  Score=34.47  Aligned_cols=47  Identities=17%  Similarity=0.379  Sum_probs=32.1

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHh---cc--CccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI---SL--SNSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~---~~--~~~CP~Cr~~~~~  126 (128)
                      ...||+-...+..|   ++...|.|.-|.+- ..|+   .+  .-.||+|.+.+.+
T Consensus       249 SL~CPlS~~ri~~P---vRg~~C~HlQCFDl-~sfL~~~~~~~~W~CPIC~k~~~~  300 (371)
T 3i2d_A          249 SLQCPISYTRMKYP---SKSINCKHLQCFDA-LWFLHSQLQIPTWQCPVCQIDIAL  300 (371)
T ss_dssp             ESBCTTTSSBCSSE---EEETTCCSSCCEEH-HHHHHHHHHSCCCBCTTTCCBCCG
T ss_pred             eecCCCcccccccc---CcCCcCCCcceECH-HHHHHHhhcCCceeCCCCCcccCH
Confidence            45799988888776   57788999866553 2333   22  2379999887643

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=83.99  E-value=0.66  Score=27.25  Aligned_cols=37  Identities=24%  Similarity=0.427  Sum_probs=26.9

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHh
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI  111 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~  111 (128)
                      +...|.+|...|..-........||++||..|...+.
T Consensus        19 ~~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~~   55 (90)
T 3t7l_A           19 EAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKC   55 (90)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEEE
T ss_pred             cCCcCcCCCCcccchhhCccccCCCCEECCcccCCee
Confidence            4567999999996533333455799999999986543

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=83.91  E-value=0.23  Score=29.23  Aligned_cols=49  Identities=18%  Similarity=0.331  Sum_probs=31.1

Q ss_pred             CCcccccccccccc-CCCCCCeEcCCCCcccHhhHHHHhccC--ccccccCc
Q 033086           74 TTEGVCMVCMEDFD-PQEFPGKQVPCGHVFHAKCISTWISLS--NSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~-~~~~~~~~~~C~H~f~~~Ci~~w~~~~--~~CP~Cr~  122 (128)
                      +++..|.||...-. ..+..+..-.|.-.||..|+..-+...  -.||.|+.
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~   74 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   74 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccC
Confidence            45678999987531 112233344688899999997543222  26999864

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

Probab=83.88  E-value=0.87  Score=26.29  Aligned_cols=37  Identities=19%  Similarity=0.273  Sum_probs=27.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      .+...|.+|...|..-....--..||++||..|....
T Consensus        19 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           19 EDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             TTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             CCCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            3456799999999763333345579999999997654

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

Probab=83.76  E-value=0.71  Score=26.55  Aligned_cols=37  Identities=24%  Similarity=0.496  Sum_probs=26.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      .+...|.+|...|..-....--..||.+||..|....
T Consensus        17 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   53 (82)
T 2yw8_A           17 DEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNE   53 (82)
T ss_dssp             CCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEE
T ss_pred             ccCCcccCcCCcccCccccccCCCCCCEEChHHhCCe
Confidence            3455799999999753233345579999999997643

>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=83.64  E-value=0.73  Score=34.07  Aligned_cols=47  Identities=17%  Similarity=0.383  Sum_probs=32.1

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHh---ccC--ccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI---SLS--NSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~---~~~--~~CP~Cr~~~~~  126 (128)
                      ...||+-...+..|   ++...|.|.-|.+- ..|+   .+.  -.||+|.+.+.+
T Consensus       215 SL~CPlS~~ri~~P---~Rg~~C~HlqCFDl-~sfL~~~~~~~~W~CPiC~k~~~~  266 (360)
T 4fo9_A          215 SLMCPLGKMRLTIP---CRAVTCTHLQCFDA-ALYLQMNEKKPTWICPVCDKKAAY  266 (360)
T ss_dssp             ESBCTTTCSBCSSE---EEETTCCCCCCEEH-HHHHHHHHHSCCCBCTTTCSBCCG
T ss_pred             eeeCCCccceeccC---CcCCCCCCCccCCH-HHHHHHHhhCCCeECCCCCcccCH
Confidence            45699988888776   47788999866552 2333   222  379999987643

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=82.93  E-value=2.1  Score=25.96  Aligned_cols=34  Identities=21%  Similarity=0.422  Sum_probs=23.5

Q ss_pred             Cccccccccccc-----cCCCCCCeEcCCCCcccHhhHH
Q 033086           75 TEGVCMVCMEDF-----DPQEFPGKQVPCGHVFHAKCIS  108 (128)
Q Consensus        75 ~~~~C~IC~~~~-----~~~~~~~~~~~C~H~f~~~Ci~  108 (128)
                      ....|.+|+..-     ..++..+.-..|+..||..|+.
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            345699998753     1223455566799999999995

>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=81.67  E-value=1.3  Score=26.09  Aligned_cols=47  Identities=19%  Similarity=0.310  Sum_probs=27.8

Q ss_pred             CCccccccccccccCCCCCCeEcC--CC-CcccHhhHHHHhc--cCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVP--CG-HVFHAKCISTWIS--LSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~--C~-H~f~~~Ci~~w~~--~~~~CP~Cr~~  123 (128)
                      .+...| ||.....  +..+..-.  |. ..||..|+.---.  .+-.||.|+..
T Consensus        34 ~e~~yC-iC~~~~~--g~MI~CD~~dC~~~WfH~~CVgl~~~p~g~W~Cp~C~~~   85 (91)
T 1weu_A           34 NEPTYC-LCHQVSY--GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCSQE   85 (91)
T ss_dssp             CCCBCS-TTCCBCC--SCCCCCSCSSCSCCCCCSTTTTCSSCCCSSCCCTTTCCC
T ss_pred             CCCcEE-ECCCCCC--CCEeEecCCCCCCCCEecccCCcCcCCCCCEECcCccCc
Confidence            445567 9987643  22333334  54 5799999861111  23379999764

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.66  E-value=1  Score=25.98  Aligned_cols=36  Identities=25%  Similarity=0.494  Sum_probs=25.6

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIST  109 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~  109 (128)
                      .+...|.+|...|..-....--..||.+||..|...
T Consensus        12 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A           12 NNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             CCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            344579999999965322333456999999999754

>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=81.36  E-value=0.57  Score=25.63  Aligned_cols=50  Identities=24%  Similarity=0.506  Sum_probs=32.7

Q ss_pred             CCccccccccccccC-CCCCCeEcCCCCcccHhhHHHHhc-------cCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDP-QEFPGKQVPCGHVFHAKCISTWIS-------LSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Ci~~w~~-------~~~~CP~Cr~~  123 (128)
                      .+...|.||...... .+..+.--.|...||..|+..-+.       ..-.|+.|+..
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~   61 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFA   61 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHT
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCc
Confidence            456789999976432 233334446888999999876432       22269998643

>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=81.32  E-value=0.53  Score=26.61  Aligned_cols=46  Identities=22%  Similarity=0.454  Sum_probs=29.7

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHH---------hccCccccccCcc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW---------ISLSNSCPVCRSR  123 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w---------~~~~~~CP~Cr~~  123 (128)
                      ...| ||...... +..+.--.|..-||..|+.--         ......||.|+..
T Consensus        16 ~~~C-~C~~~~~~-~~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~   70 (76)
T 1wem_A           16 ALYC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTIL   70 (76)
T ss_dssp             CCCS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHH
T ss_pred             CCEE-ECCCccCC-CCEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCc
Confidence            3456 88877653 333444468889999998421         1245689999754

>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=81.17  E-value=1.4  Score=27.73  Aligned_cols=45  Identities=22%  Similarity=0.350  Sum_probs=30.0

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc---------cC--ccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS---------LS--NSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~---------~~--~~CP~Cr~  122 (128)
                      ..+..|.||.+.    ++.+.--.|-..||..||.+-+.         ..  =.|++|+.
T Consensus        55 g~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           55 GMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             SCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            345569999854    33333446889999999997531         11  27999964

>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=81.05  E-value=0.2  Score=28.15  Aligned_cols=49  Identities=22%  Similarity=0.224  Sum_probs=30.7

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHh----ccCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI----SLSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~----~~~~~CP~Cr~~  123 (128)
                      .+...| ||......+...+.--.|..-||..|+.--.    .....||.|+..
T Consensus        14 ~~~~~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~~   66 (72)
T 1wee_A           14 NWKVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             SSEECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             CcceEe-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccCC
Confidence            445568 7887654322344444688889999985321    234479999654

>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=80.69  E-value=0.19  Score=28.25  Aligned_cols=45  Identities=29%  Similarity=0.580  Sum_probs=26.8

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-----CccccccCcc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-----SNSCPVCRSR  123 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-----~~~CP~Cr~~  123 (128)
                      .|.||...-.. +..+.--.|...||..|+.+=+..     .=.||.|+..
T Consensus        20 ~C~~C~~~~~~-~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~~   69 (70)
T 3asl_A           20 ACHLCGGRQDP-DKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND   69 (70)
T ss_dssp             SBTTTCCCSCG-GGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSCC
T ss_pred             CCcCCCCcCCC-CCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccCc
Confidence            45677654222 222333357889999999854432     2269999753

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

Probab=80.69  E-value=1.1  Score=25.19  Aligned_cols=33  Identities=27%  Similarity=0.538  Sum_probs=24.1

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHH
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIST  109 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~  109 (128)
                      ..|.+|...|..-....--..||.+||..|...
T Consensus        12 ~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           12 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             CcccCCCCccCCccccccCCCCCEEEcccccCC
Confidence            469999999875322334456999999999754

---

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	128
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	3e-13
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-10
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	7e-08
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-06
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	9e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	2e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 58.0 bits (140), Expect = 3e-13
 Identities = 16/48 (33%), Positives = 27/48 (56%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII 126
           C VC+ + +  E       CGH FHA+C+  W+   ++CP+CR   ++
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55

>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 = 51.9 bits (124), Expect = 1e-10
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 73  GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCR 121
            T    C +C+ED          +PC H F   CI+ WI  + +CP+C+
Sbjct: 2   ATVAERCPICLEDP---SNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47

>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 = 51.3 bits (122), Expect = 2e-10
 Identities = 12/44 (27%), Positives = 15/44 (34%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS 122
           C         +E       C H FH  CIS W+     CP+   
Sbjct: 38  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>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 = 47.7 bits (113), Expect = 5e-09
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 5/52 (9%)

Query: 73  GTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSR 123
           G+T  +C +C E+        K  PCGH+    C+++W       CP CR  
Sbjct: 20  GSTFQLCKICAENDKD----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCE 67

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.1 bits (104), Expect = 7e-08
 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 7/46 (15%)

Query: 78  VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSR 123
            C  C  +        K +PC H   + C+         CP+C++ 
Sbjct: 8   RCQQCQAEAKC----PKLLPCLHTLCSGCLEAS---GMQCPICQAP 46

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

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

 Score = 43.2 bits (101), Expect = 1e-07
 Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 1/45 (2%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-SCPVCRS 122
           C +CME  +  +       CG+     C     +  N  CP CR 
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47

>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 = 41.0 bits (95), Expect = 1e-06
 Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 78  VCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLS--NSCPVCRSR 123
           VC +C E+   + F            H  C+STW+++S   +C +C   
Sbjct: 8   VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 40.9 bits (95), Expect = 1e-06
 Identities = 9/49 (18%), Positives = 14/49 (28%), Gaps = 2/49 (4%)

Query: 76  EGVCMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRS 122
           +  C  C                CGH     C+       + +CP C +
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGT 51

>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 = 39.9 bits (93), Expect = 4e-06
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 5/47 (10%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRC 124
           C +C            +  C H+F   CI   +  + + CP CR  C
Sbjct: 26  CQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 40.1 bits (93), Expect = 6e-06
 Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 79  CMVCMEDF-DPQEFPGKQVPCGHVFHAKCISTWISLSN---SCPVCRSRC 124
           C +C+E   +P         C H+F   C+   ++       CP+C++  
Sbjct: 24  CPICLELIKEP-----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

>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 = 39.6 bits (91), Expect = 9e-06
 Identities = 11/51 (21%), Positives = 16/51 (31%), Gaps = 5/51 (9%)

Query: 77  GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN-----SCPVCRS 122
           G   +           G+   C H FH  C+       N      CP C++
Sbjct: 40  GYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 1e-04
 Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 5/46 (10%)

Query: 79  CMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRC 124
           C  C               C H+F + C+S    +   CPVC +  
Sbjct: 25  CSRCTNILREPVC---LGGCEHIFCSNCVSDC--IGTGCPVCYTPA 65

>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 = 35.8 bits (82), Expect = 2e-04
 Identities = 11/64 (17%), Positives = 23/64 (35%), Gaps = 11/64 (17%)

Query: 72  SGTTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN--------SCPVCRSR 123
           SG++   C +C+ ++  ++       C  +F   C+  ++ L          SCP     
Sbjct: 3   SGSSG--CKLCLGEYPVEQMT-TIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

Query: 124 CIIS 127
               
Sbjct: 60  KQGH 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	128
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.79
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.69
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.66
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.63
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.62
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.56
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.55
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.52
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.5
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.49
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.43
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.38
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.37
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.36
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.19
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.79
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	95.24
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	94.73
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	94.67
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	94.41
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	93.96
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	91.09
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	90.98
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	90.85
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	87.07
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	85.26
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	85.06
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	84.66
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	83.23
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	81.3
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	80.91
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	80.83

>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=99.79  E-value=2.9e-20  Score=101.92  Aligned_cols=53  Identities=30%  Similarity=0.817  Sum_probs=44.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ++..+|+||+++|..++......+|+|.||..|+.+|++.+.+||+||+++.+
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~v   55 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV   55 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSCC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeEC
Confidence            45667999999998854444445699999999999999999999999998753

>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=99.69  E-value=3.9e-18  Score=92.26  Aligned_cols=48  Identities=23%  Similarity=0.476  Sum_probs=41.4

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCccee
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRCI  125 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~  125 (128)
                      +|+||+++|..++..+..++|||.||..|+.+|++. +.+||+||++|.
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            699999999775556677799999999999999985 457999999875

>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=99.66  E-value=1.3e-17  Score=95.00  Aligned_cols=48  Identities=31%  Similarity=0.795  Sum_probs=41.6

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~  125 (128)
                      ....|+||++.+..+   .+.++|||.||..||.+|++.+.+||+||+++.
T Consensus         4 ~~d~C~IC~~~~~~~---~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~   51 (68)
T d1chca_           4 VAERCPICLEDPSNY---SMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE   51 (68)
T ss_dssp             CCCCCSSCCSCCCSC---EEETTTTEEESTTHHHHHHHHSCSTTTTCCCCC
T ss_pred             CCCCCccCCcCccCC---cEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchH
Confidence            455699999998653   467899999999999999999999999998763

>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=99.63  E-value=1.2e-16  Score=95.23  Aligned_cols=51  Identities=24%  Similarity=0.518  Sum_probs=42.0

Q ss_pred             ccccccccccccCCC--------------CCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQE--------------FPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~--------------~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      +..|+||++.+..+.              ..+..++|||.||..||.+||+.+.+||+||++|.+
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            445999988875431              134678999999999999999999999999999875

>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=99.62  E-value=1e-16  Score=90.45  Aligned_cols=52  Identities=17%  Similarity=0.372  Sum_probs=41.1

Q ss_pred             CccccccccccccCC-CCCCeEcCCCCcccHhhHHHHhc-cCccccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQ-EFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~~  126 (128)
                      ++..|+||++.+..+ ......++|||.||..||..|+. .+.+||+||+++..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            457899999986432 34456779999999999999995 45689999998743

>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=99.59  E-value=2.9e-16  Score=91.79  Aligned_cols=46  Identities=30%  Similarity=0.837  Sum_probs=39.6

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      ...|+||++.+..+    +.++|||.||..||..|+. ++++||+||+.+.
T Consensus        23 ~~~C~IC~~~~~~~----~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~   69 (79)
T d1fbva4          23 FQLCKICAENDKDV----KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK   69 (79)
T ss_dssp             TTBCTTTSSSBCCE----ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCC
T ss_pred             CCCCccCCCcCCCe----EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCcc
Confidence            34699999998764    8899999999999999997 4568999998764

>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=99.56  E-value=9.7e-16  Score=95.32  Aligned_cols=51  Identities=27%  Similarity=0.636  Sum_probs=39.9

Q ss_pred             ccccccccccccCC--------------CCCCeEcCCCCcccHhhHHHHhccC-----ccccccCcceee
Q 033086           76 EGVCMVCMEDFDPQ--------------EFPGKQVPCGHVFHAKCISTWISLS-----NSCPVCRSRCII  126 (128)
Q Consensus        76 ~~~C~IC~~~~~~~--------------~~~~~~~~C~H~f~~~Ci~~w~~~~-----~~CP~Cr~~~~~  126 (128)
                      +..|+||++.+..+              ...+.+++|+|.||..||..|++.+     .+||+||+.+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            45699999998542              2234678999999999999999643     379999987743

>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=99.55  E-value=7.4e-16  Score=91.18  Aligned_cols=47  Identities=26%  Similarity=0.697  Sum_probs=41.2

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhc-cCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWIS-LSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~CP~Cr~~~~  125 (128)
                      ....|+||++.+..+    +.++|||.||+.||.+|++ ++.+||+||.++.
T Consensus        22 ~~l~C~IC~~~~~~p----v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~   69 (86)
T d1rmda2          22 KSISCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCF   69 (86)
T ss_dssp             HHTBCTTTCSBCSSE----EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             cCcCCccCCcchhcc----eecCCCChhhHHHHHHHHhhCCCcCcccCCCCC
Confidence            456899999999886    8899999999999999996 4568999998765

>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=99.52  E-value=1.1e-15  Score=83.68  Aligned_cols=45  Identities=9%  Similarity=0.183  Sum_probs=40.4

Q ss_pred             ccccccccccCCCCCCeEc-CCCCcccHhhHHHHhccCccccccCcceee
Q 033086           78 VCMVCMEDFDPQEFPGKQV-PCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      .|+||++.+..+    ..+ .|||+||+.||.+|++.+++||+||+++..
T Consensus         2 ~C~Ic~~~~~~P----v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           2 LCAISGKVPRRP----VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCTTTCSCCSSE----EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCccCCchHHhc----CccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            599999999886    555 699999999999999999999999998764

>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=99.50  E-value=3.6e-15  Score=91.17  Aligned_cols=48  Identities=21%  Similarity=0.591  Sum_probs=40.6

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc---cccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN---SCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~---~CP~Cr~~~~~  126 (128)
                      ....|+||++.|..|    ..++|||.||..||..|+....   .||+||+++..
T Consensus        20 ~~l~CpIC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          20 KILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HHTSCSSSCCCCSSC----CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             cCcCCCccCchhCCe----EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            446799999999886    6789999999999999996543   79999988753

>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=99.49  E-value=1.3e-15  Score=83.27  Aligned_cols=46  Identities=22%  Similarity=0.557  Sum_probs=39.0

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceeeC
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCIIS  127 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~~  127 (128)
                      +...|+||++.+..+    +.++|||.||..||.+|   +.+||+||+++.+.
T Consensus         5 ~~l~C~IC~~~~~~p----~~lpCgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCP----KLLPCLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCC----SCSTTSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCC----EEecCCCHHhHHHHHcC---CCcCcCCCCcccCC
Confidence            446899999999876    77899999999999776   66899999988653

>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=99.43  E-value=3.8e-14  Score=78.39  Aligned_cols=53  Identities=23%  Similarity=0.542  Sum_probs=39.3

Q ss_pred             CCccccccccccccCCCCCC-eEcCCCCcccHhhHHHHhc--cCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPG-KQVPCGHVFHAKCISTWIS--LSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~-~~~~C~H~f~~~Ci~~w~~--~~~~CP~Cr~~~~~  126 (128)
                      ++...|.||++.+..+.... ....|+|.||..||..|+.  ++.+||+||++|.+
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            56678999999886541111 1223469999999999995  45589999999875

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.38  E-value=8.9e-14  Score=81.14  Aligned_cols=48  Identities=19%  Similarity=0.158  Sum_probs=42.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc-CccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL-SNSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~  125 (128)
                      -++..|+||++.|..|    +.++|||+||+.||.+|+.. +.+||.||+++.
T Consensus         5 P~~l~CpIc~~l~~dP----v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~   53 (80)
T d2c2la2           5 PDYLCGKISFELMREP----CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT   53 (80)
T ss_dssp             CSTTBCTTTCSBCSSE----EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CccccCcCcCchhhhh----cccCCcCeecHHHHHHHHhcCCccCCCcccccc
Confidence            3677899999999987    88999999999999999964 557999998764

>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=99.37  E-value=1.8e-13  Score=79.38  Aligned_cols=48  Identities=17%  Similarity=0.433  Sum_probs=42.4

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC-ccccccCccee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS-NSCPVCRSRCI  125 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~CP~Cr~~~~  125 (128)
                      .+++.|+||++.|..+    +.++|||.||+.||..|+..+ ..||.|+.++.
T Consensus         6 P~~l~CpIc~~~m~dP----V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~   54 (78)
T d1t1ha_           6 PEYFRCPISLELMKDP----VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSSSCTTTSCCCSSE----EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             CccCCCcCcCchhhCc----eEccCCCcchHHHHHHHHHHCCCCCCcccccCC
Confidence            4678899999999987    788999999999999999764 57999998764

>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=99.36  E-value=5.1e-14  Score=85.06  Aligned_cols=47  Identities=28%  Similarity=0.564  Sum_probs=38.3

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCcceee
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      ....|+||++.|..|   +...+|||.||..||.+|+.  ..||.||+++..
T Consensus        21 ~~l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (97)
T d1jm7b_          21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (97)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             hcCCCccCCchhhcC---ceeCCCCCchhHHHHHHHHh--ccccccCCcCch
Confidence            456799999999876   23458999999999999984  459999987653

>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=99.19  E-value=1.6e-11  Score=73.97  Aligned_cols=49  Identities=12%  Similarity=0.068  Sum_probs=43.1

Q ss_pred             CCccccccccccccCCCCCCeEcCCCC-cccHhhHHHHhccCccccccCcceee
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGH-VFHAKCISTWISLSNSCPVCRSRCII  126 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~Ci~~w~~~~~~CP~Cr~~~~~  126 (128)
                      -+++.|+||.+.|..|    ++++|+| .|++.||.+|+..+..||+||+++..
T Consensus        20 P~~f~CPI~~~lm~dP----V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDP----VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CTTTBCTTTCSBCSSE----EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             cHHhCCcCchhHHHHH----HhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            3578999999999997    8888765 89999999999999999999998754

>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=98.79  E-value=8.7e-10  Score=65.51  Aligned_cols=47  Identities=21%  Similarity=0.566  Sum_probs=35.7

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccC--------ccccccC
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLS--------NSCPVCR  121 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~--------~~CP~Cr  121 (128)
                      .....|+||++++.. +.....++|+|.||..|+..|+..+        -+||.|+
T Consensus         3 ~~~~~C~IC~~~~~~-~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           3 SGSSGCKLCLGEYPV-EQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             CSBCCCSSSCCCCBG-GGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCCcCccCCCcccC-CceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            345679999999865 3444667899999999999999522        2699853

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

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

Probab=95.24  E-value=0.0039  Score=31.65  Aligned_cols=44  Identities=23%  Similarity=0.495  Sum_probs=30.4

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc----cccccCc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN----SCPVCRS  122 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~----~CP~Cr~  122 (128)
                      .|.||...-.. +..+.--.|...||..|+..-+....    .||.||.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            47888755433 34445557899999999987764322    6999974

>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=94.73  E-value=0.016  Score=32.32  Aligned_cols=35  Identities=26%  Similarity=0.529  Sum_probs=25.5

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      ..+..|.|| +.+... ......-|+.+||..|+.+.
T Consensus        13 ~~D~mC~vC-~v~t~~-~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAE-SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSS-CCSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Cccccc-ceecceeecchhhHHHHHHh
Confidence            467789999 666553 23333348999999999987

>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=94.67  E-value=0.0022  Score=34.25  Aligned_cols=50  Identities=28%  Similarity=0.561  Sum_probs=33.7

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHh---c--cCccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI---S--LSNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~---~--~~~~CP~Cr~~  123 (128)
                      .....|.+|..........+.--.|+..||..|+..-.   .  ....||.|+..
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~   58 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCc
Confidence            45567999998765533334455799999999985311   1  23479999653

>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=94.41  E-value=0.0052  Score=32.44  Aligned_cols=46  Identities=20%  Similarity=0.405  Sum_probs=31.9

Q ss_pred             CCccccccccccccCCCCCCeEcCCCCcccHhhHHHHhcc----CccccccCcc
Q 033086           74 TTEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISL----SNSCPVCRSR  123 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~----~~~CP~Cr~~  123 (128)
                      .....|.+|.+.    +..+.--.|...||..|+...+..    .-.||.|+.+
T Consensus         7 ~~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            344569999753    445555678999999999765542    2369999753

>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=93.96  E-value=0.0065  Score=32.97  Aligned_cols=45  Identities=22%  Similarity=0.439  Sum_probs=31.2

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCc----cccccCcc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSN----SCPVCRSR  123 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~----~CP~Cr~~  123 (128)
                      ....|.+|...    +..+.--.|...||..|+.+.+....    .||.|+..
T Consensus         6 ~c~~C~~C~~~----~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~   54 (70)
T d1fp0a1           6 SATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   54 (70)
T ss_dssp             SSSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCCCCCCc----CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCc
Confidence            34457777643    44555567999999999987764332    69999753

>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=91.09  E-value=0.047  Score=28.39  Aligned_cols=44  Identities=25%  Similarity=0.478  Sum_probs=30.1

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCcccccc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVC  120 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~C  120 (128)
                      ...|.-|...+.. .....-..|++.||.+|=.-.-..-.+||-|
T Consensus        15 ~~~C~gC~~~l~~-~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKD-QHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTT-SEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCC-CceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            4568888888754 2233456799999999954443444579988

>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=90.98  E-value=0.17  Score=27.62  Aligned_cols=45  Identities=20%  Similarity=0.462  Sum_probs=29.6

Q ss_pred             cccccccccCCCCCCeEcCCCCcccHhhHH---HHhc--cCccccccCcc
Q 033086           79 CMVCMEDFDPQEFPGKQVPCGHVFHAKCIS---TWIS--LSNSCPVCRSR  123 (128)
Q Consensus        79 C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~---~w~~--~~~~CP~Cr~~  123 (128)
                      +-||.......+..+.--.|.--||..|+.   .-..  .+..||.|+..
T Consensus        14 ~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          14 YCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             EeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            349988765533344455788999999984   1112  23589999864

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.85  E-value=0.0093  Score=30.39  Aligned_cols=45  Identities=20%  Similarity=0.400  Sum_probs=28.9

Q ss_pred             ccccccccccCCCCCCeEcCCCCcccHhhHHHHhccCccccccCc
Q 033086           78 VCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWISLSNSCPVCRS  122 (128)
Q Consensus        78 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~  122 (128)
                      .|.+|...|..-.....-..||.+||..|....-+..+.|..|.+
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHhh
Confidence            478888888653223344569999999997665455567888853

>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=87.07  E-value=0.18  Score=27.06  Aligned_cols=46  Identities=22%  Similarity=0.495  Sum_probs=28.6

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHH------HH---hccCccccccCc
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCIS------TW---ISLSNSCPVCRS  122 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~------~w---~~~~~~CP~Cr~  122 (128)
                      ....| ||...... +..+.--.|.-.||..|+.      ..   ......||.|+.
T Consensus        15 ~~~~C-iC~~~~~~-~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          15 NALYC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             TCCCS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CcCEE-ECCCccCC-CeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            33457 88766543 3344444688899999982      11   123468999964

>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=85.26  E-value=0.1  Score=29.02  Aligned_cols=49  Identities=18%  Similarity=0.398  Sum_probs=30.7

Q ss_pred             CCccccccccccccCC-CCCCeEcCCCCcccHhhHHHHhc--------cCccccccCc
Q 033086           74 TTEGVCMVCMEDFDPQ-EFPGKQVPCGHVFHAKCISTWIS--------LSNSCPVCRS  122 (128)
Q Consensus        74 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Ci~~w~~--------~~~~CP~Cr~  122 (128)
                      +....|.||....... ...+.--.|...||..|+...+.        ..-.||.|..
T Consensus        14 ~~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~   71 (88)
T d1weva_          14 EMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             HHCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             cCcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCc
Confidence            3445699998765432 22233446889999999864321        1336999964

>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=85.06  E-value=0.39  Score=25.64  Aligned_cols=43  Identities=26%  Similarity=0.485  Sum_probs=24.2

Q ss_pred             ccccccccccccCCCCCCeEc---CCC-CcccHhhHHHHhc---cCccccccCcc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQV---PCG-HVFHAKCISTWIS---LSNSCPVCRSR  123 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~---~C~-H~f~~~Ci~~w~~---~~~~CP~Cr~~  123 (128)
                      ...| ||.......   .+..   .|- ..||..|+. +..   ..-.||.|+..
T Consensus        16 ~~~C-iC~~~~~~~---~i~c~~~~C~~~wfH~~Cvg-l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          16 PTYC-LCNQVSYGE---MIGCDNEQCPIEWFHFSCVS-LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCCS-TTCCCCCSS---EECCSCTTCSCCCEETTTTT-CSSCCSSCCCCTTTSSC
T ss_pred             CCEE-EeCCCCCCC---EEEEECCCCCCcCccCccCC-CCcCCCCcEECcCCccc
Confidence            3456 998764331   1222   233 469999984 221   22379999753

>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=84.66  E-value=0.69  Score=25.60  Aligned_cols=51  Identities=18%  Similarity=0.403  Sum_probs=34.5

Q ss_pred             CccccccccccccCC---CCCCeEcCCCCcccHhhHHHHh-ccCccccccCccee
Q 033086           75 TEGVCMVCMEDFDPQ---EFPGKQVPCGHVFHAKCISTWI-SLSNSCPVCRSRCI  125 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~Ci~~w~-~~~~~CP~Cr~~~~  125 (128)
                      ....|.||-+.+...   +.-+..-.|+--.|+.|..-=. ..++.||.|+.++.
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Yk   69 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhh
Confidence            455799999988432   1112233577788999986444 46678999998763

>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=83.23  E-value=0.059  Score=28.96  Aligned_cols=47  Identities=23%  Similarity=0.254  Sum_probs=29.5

Q ss_pred             ccccccccccccCCCCCCeEcCCCCcccHhhHHHHh----ccCccccccCcc
Q 033086           76 EGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI----SLSNSCPVCRSR  123 (128)
Q Consensus        76 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~----~~~~~CP~Cr~~  123 (128)
                      ...| ||..........+.--.|...||..|+..-.    .....||.|+..
T Consensus        16 ~~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~~   66 (72)
T d1weea_          16 KVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIEL   66 (72)
T ss_dssp             EECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHHH
T ss_pred             eEEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcCc
Confidence            3457 7876554433344455788899999975321    134479999653

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

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

Probab=81.30  E-value=0.47  Score=24.92  Aligned_cols=34  Identities=26%  Similarity=0.490  Sum_probs=24.2

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      ..|.+|...|..-....--..||.+||..|...+
T Consensus         6 ~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~   39 (67)
T d1vfya_           6 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSNS   39 (67)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCEE
T ss_pred             cccccCCCcccCcccccccccCCCEecccccCCc
Confidence            3599999998653223334469999999997544

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.91  E-value=0.51  Score=24.54  Aligned_cols=37  Identities=24%  Similarity=0.474  Sum_probs=25.9

Q ss_pred             CccccccccccccCCCCCCeEcCCCCcccHhhHHHHh
Q 033086           75 TEGVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTWI  111 (128)
Q Consensus        75 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~  111 (128)
                      +...|.+|-..|..-....--..||++||..|.....
T Consensus         7 ~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~~~   43 (64)
T d1joca1           7 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKNA   43 (64)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEEE
T ss_pred             cCCcCcCcCCcccCCccccchhhhCCeecccccCCce
Confidence            4456999999986532223345699999999976543

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

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

Probab=80.83  E-value=0.41  Score=25.60  Aligned_cols=34  Identities=26%  Similarity=0.542  Sum_probs=25.0

Q ss_pred             cccccccccccCCCCCCeEcCCCCcccHhhHHHH
Q 033086           77 GVCMVCMEDFDPQEFPGKQVPCGHVFHAKCISTW  110 (128)
Q Consensus        77 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w  110 (128)
                      ..|.+|...|..-.....-..||++||..|....
T Consensus        14 ~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~~   47 (72)
T d1dvpa2          14 RVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAKQ   47 (72)
T ss_dssp             SBCTTTCCBCCSSSCCEECTTTCCEECSTTSCEE
T ss_pred             CccccCCCcccCccccccccccCCeeChhhhCCc
Confidence            4699999999653333345579999999997543