Psyllid ID: psy16979

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110----
Protein Sequence
MSQEDDGFNTSGFIIYHGAMGETIIIDRFLNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP
Secondary Structure (PSIPRED)
cccccccccccccEEEcccHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHccccEEEcccccccccccccccccccccccEEccccccccHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEEEEEcHHHHHHHHHHHHcHHHHHHHHHccccccccccccccHHHHHccccEEEccccccccccEEEccccccccEEEEccccccccHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
msqeddgfntsGFIIYHGAMGETIIIDRFLNISRRYNDalsldselspprapfstrrfgqipsiafpadeapdaqcviclapfqpgeevKELLChhkfhseclepwlrerqhcp
Flexible Loop (DISEMBL)
MSQEDDGFNTSGFIIYHGAMGETIIIDRFLNISRRYNDALsldselspprapFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSeclepwlrerqhcp
Low Complexity Region (SEG)
MSQEDDGFNTSGFIIYHGAMGETIIIDRFLNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP
Disordered region (IsUnstruct)
********NTSGFIIYHGAMGETIIIDRFLNISRRYNDAL*****************FGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL*******
Disordered Region (DISOPRED)
******GFNTSGFIIYHGAMGETIIIDRFLNISRRY***********************QIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP
Disordered Region (DISEMBL)
********NTSGFIIYHGAMGETIIIDRFLNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP
Disordered Region (DISPRO)
*******FNTSGFIIYHGAMGETIIIDRFLNISRRYNDALSLDSE*SP*RAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSQEDDGFNTSGFIIYHGAMGETIIIDRFLNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP
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	114	2.2.26 [Sep-21-2011]
Q8AWW4	404	E3 ubiquitin-protein liga	N/A	N/A	0.385	0.108	0.422	6e-08
Q8GUU2	359	E3 ubiquitin protein liga	no	N/A	0.385	0.122	0.477	1e-07
O22755	185	RING-H2 finger protein AT	no	N/A	0.649	0.4	0.367	4e-07
Q8RXD3	310	E3 ubiquitin-protein liga	no	N/A	0.587	0.216	0.375	6e-07
Q6GPV5	156	E3 ubiquitin-protein liga	N/A	N/A	0.719	0.525	0.337	1e-06
Q5M974	156	E3 ubiquitin-protein liga	yes	N/A	0.649	0.474	0.358	1e-06
Q06003	461	Protein goliath OS=Drosop	no	N/A	0.342	0.084	0.410	1e-06
Q7L0R7	432	RING finger protein 44 OS	no	N/A	0.763	0.201	0.3	3e-06
Q8LPN7	328	E3 ubiquitin-protein liga	no	N/A	0.552	0.192	0.338	3e-06
Q6AY01	381	E3 ubiquitin-protein liga	yes	N/A	0.517	0.154	0.396	3e-06

>sp|Q8AWW4|RN128_XENLA E3 ubiquitin-protein ligase RNF128 OS=Xenopus laevis GN=rnf128 PE=2 SV=2

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 19/45 (42%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 71  APDA-QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
            PD   C +C+ P++P + V+ L C+H FH  C++PWL E + CP
Sbjct: 254 GPDGDSCAVCIEPYKPSDVVRILTCNHFFHKNCIDPWLLEHRTCP 298

E3 ubiquitin-protein ligase that catalyzes polyubiquitin chains (By similarity). Converts epidermis into cement gland and neural tissue in whole embryos.
Xenopus laevis (taxid: 8355)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q8GUU2|RIE1_ARATH E3 ubiquitin protein ligase RIE1 OS=Arabidopsis thaliana GN=RIE1 PE=2 SV=1

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/44 (47%), Positives = 28/44 (63%)

Query: 71  APDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           A DA C ICL+ ++ G E+  L C+H FHS C+  WL+ R  CP
Sbjct: 302 AEDADCCICLSSYEDGAELHALPCNHHFHSTCIVKWLKMRATCP 345

Probable E3 ubiquitin-protein ligase required for embryo development.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O22755|ATL44_ARATH RING-H2 finger protein ATL44 OS=Arabidopsis thaliana GN=ATL44 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 39/79 (49%), Gaps = 5/79 (6%)

Query: 37  NDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKEL-LCH 95
           N  L   +  S PR+ F+        +    A+E    +C ICL  F  GEE++ L LC 
Sbjct: 67  NKGLKKKALQSLPRSTFTAAE----STSGAAAEEGDSTECAICLTDFADGEEIRVLPLCG 122

Query: 96  HKFHSECLEPWLRERQHCP 114
           H FH EC++ WL  R  CP
Sbjct: 123 HSFHVECIDKWLVSRSSCP 141

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXD3|AIP2_ARATH E3 ubiquitin-protein ligase AIP2 OS=Arabidopsis thaliana GN=AIP2 PE=1 SV=1

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 40/72 (55%), Gaps = 5/72 (6%)

Query: 48  PPRAPFSTRRF-GQIPSIAFPADE----APDAQCVICLAPFQPGEEVKELLCHHKFHSEC 102
           PPRAP +++    ++P I F  +       +A+C IC      G++++EL C H FH  C
Sbjct: 197 PPRAPPASKEVVEKLPVIIFTEELLKKFGAEAECCICKENLVIGDKMQELPCKHTFHPPC 256

Query: 103 LEPWLRERQHCP 114
           L+PWL E   CP
Sbjct: 257 LKPWLDEHNSCP 268

E3 ubiquitin-protein ligase that acts as a negative regulator of abscisic acid (ABA) signaling. Mediates ubiquitination and subsequent proteasomal degradation of the transcription factor ABI3.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6GPV5|RN181_XENLA E3 ubiquitin-protein ligase RNF181 OS=Xenopus laevis GN=rnf181 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 4/86 (4%)

Query: 30  LNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDA-QCVICLAPFQPGEE 88
           ++I     D    D  L PP    S +    +P +    ++A  A +C +CL  F+ GE 
Sbjct: 35  MDIDLGAVDFTEWDQRLPPPA---SKKVVESLPKVTVTPEQADAALKCPVCLLEFEEGET 91

Query: 89  VKELLCHHKFHSECLEPWLRERQHCP 114
           V++L C H FHS C+ PWL +   CP
Sbjct: 92  VRQLPCEHLFHSACILPWLGKTNSCP 117

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.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5M974|RN181_XENTR E3 ubiquitin-protein ligase RNF181 OS=Xenopus tropicalis GN=rnf181 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 4/78 (5%)

Query: 38  DALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDA-QCVICLAPFQPGEEVKELLCHH 96
           D    D  L PP A    +    +P +    ++A  A +C +CL  F+ GE V++L C H
Sbjct: 43  DFTEWDQRLPPPAA---KKVVESLPKVTVTPEQADAALKCPVCLLEFEEGETVRQLPCEH 99

Query: 97  KFHSECLEPWLRERQHCP 114
            FHS C+ PWL +   CP
Sbjct: 100 LFHSSCILPWLGKTNSCP 117

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.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q06003|GOLI_DROME Protein goliath OS=Drosophila melanogaster GN=gol PE=2 SV=3

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/39 (41%), Positives = 26/39 (66%)

Query: 76  CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           C IC+  ++P + ++ L C H+FH  C++PWL E + CP
Sbjct: 303 CAICIEAYKPTDTIRILPCKHEFHKNCIDPWLIEHRTCP 341

Regulation of gene expression during embryonic mesoderm formation. Putative role as transcription factor.

Drosophila melanogaster (taxid: 7227)

>sp|Q7L0R7|RNF44_HUMAN RING finger protein 44 OS=Homo sapiens GN=RNF44 PE=2 SV=1

 Score = 50.8 bits (120), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/110 (30%), Positives = 52/110 (47%), Gaps = 23/110 (20%)

Query: 19  AMGETIIID------------RFLNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAF 66
           AMG TI +D              LN++ R  DA         PR   +     Q+PS  F
Sbjct: 318 AMGPTISLDLDVDDVEMENYEALLNLAERLGDAK--------PRG-LTKADIEQLPSYRF 368

Query: 67  PADEAPDAQ--CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
             D     Q  CV+C + F+  + ++ L C+H+FH++C++ WL+  + CP
Sbjct: 369 NPDSHQSEQTLCVVCFSDFEARQLLRVLPCNHEFHTKCVDKWLKANRTCP 418

Homo sapiens (taxid: 9606)

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

 Score = 50.8 bits (120), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 2/65 (3%)

Query: 52  PFSTRRFGQIPSIAFPAD--EAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109
           P S      +P++    D  ++   QC +C+  F+ G +VK++ C H FH +CL PWL  
Sbjct: 190 PASKSAIDALPTVKVTKDMLKSEMNQCAVCMDEFEDGSDVKQMPCKHVFHQDCLLPWLEL 249

Query: 110 RQHCP 114
              CP
Sbjct: 250 HNSCP 254

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|Q6AY01|RN133_RAT E3 ubiquitin-protein ligase RNF133 OS=Rattus norvegicus GN=Rnf133 PE=2 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 4/63 (6%)

Query: 56  RRFGQIP-SIAFPADE--APDA-QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ 111
           + FGQ+   I    DE  +P+A  CVIC   ++P E V+ L C H FH  C++PW+    
Sbjct: 232 KAFGQLQVRILKEGDEEVSPNADSCVICFEAYKPNEIVRILTCKHFFHKNCIDPWILAHG 291

Query: 112 HCP 114
            CP
Sbjct: 292 TCP 294

Has E3 ubiquitin-protein ligase activity.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	114
388501556	232	unknown [Lotus japonicus]	0.973	0.478	0.274	8e-08
358339822	403	E3 ubiquitin-protein ligase RNF13 [Clono	0.543	0.153	0.365	8e-08
71994179	487	Protein Y47D3B.11 [Caenorhabditis elegan	0.5	0.117	0.385	9e-08
341880268	483	hypothetical protein CAEBREN_11800 [Caen	0.5	0.118	0.385	9e-08
440799256	387	zinc finger, C3HC4 type (RING finger) do	0.807	0.237	0.279	1e-07
147822557	140	hypothetical protein VITISV_012359 [Viti	0.710	0.578	0.378	2e-07
449487516	259	PREDICTED: E3 ubiquitin ligase BIG BROTH	0.833	0.366	0.343	2e-07
449433191	803	PREDICTED: uncharacterized protein LOC10	0.833	0.118	0.343	2e-07
268572797	374	Hypothetical protein CBG13282 [Caenorhab	0.5	0.152	0.368	3e-07
167522052	455	hypothetical protein [Monosiga brevicoll	0.403	0.101	0.5	3e-07

>gi|388501556|gb|AFK38844.1| unknown [Lotus japonicus]

 Score = 61.2 bits (147), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 2/113 (1%)

Query: 2   SQEDDGFNTSGFIIYHGAMGETIIIDRFLNISRRYNDALSLDSELSPPRAPFSTRRFGQI 61
           ++ ++GF     I+ +      ++ID   ++   + +  S  ++   P  P S      +
Sbjct: 47  TESEEGFQRQRIILVNPFTQGMVVIDGASSLEALFRELGSAANKGGRP--PASKESIDAM 104

Query: 62  PSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           PS+     +  D +CV+CL  F+ G+ VKE+ C H+FH +C+E WL     CP
Sbjct: 105 PSVEVGEGDDDDGECVVCLEGFEVGKVVKEMPCKHRFHPDCIEKWLGIHGSCP 157

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358339822|dbj|GAA47810.1| E3 ubiquitin-protein ligase RNF13 [Clonorchis sinensis]

 Score = 61.2 bits (147), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 41/63 (65%), Gaps = 1/63 (1%)

Query: 53  FSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPW-LRERQ 111
            ++R+  ++PS  F   + PD +CVICL  ++ G+ ++ L C H +H+ C++PW L+ R+
Sbjct: 85  LTSRQLKRLPSTKFIKGQTPDGKCVICLEDYEDGDRLRTLPCEHVYHTRCIDPWLLKGRR 144

Query: 112 HCP 114
            CP
Sbjct: 145 VCP 147

Source: Clonorchis sinensis

Species: Clonorchis sinensis

Genus: Clonorchis

Family: Opisthorchiidae

Order: Opisthorchiida

Class: Trematoda

Phylum: Platyhelminthes

Superkingdom: Eukaryota

>gi|71994179|ref|NP_499473.2| Protein Y47D3B.11 [Caenorhabditis elegans] gi|30424367|emb|CAB54384.2| Protein Y47D3B.11 [Caenorhabditis elegans]

 Score = 60.8 bits (146), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 37/57 (64%)

Query: 58  FGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           FG + S+A  +  +   +CVICL  ++ G E++ L C H+FH +C++PWL  ++ CP
Sbjct: 299 FGSLTSVAQSSSHSAQERCVICLEEYEEGTELRVLFCGHEFHPKCVDPWLLSKRRCP 355

Source: Caenorhabditis elegans

Species: Caenorhabditis elegans

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|341880268|gb|EGT36203.1| hypothetical protein CAEBREN_11800 [Caenorhabditis brenneri]

 Score = 60.8 bits (146), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 37/57 (64%)

Query: 58  FGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           FG + S+A  +  +   +CVICL  ++ G E++ L C H+FH +C++PWL  ++ CP
Sbjct: 294 FGSLTSVAQSSSHSAQERCVICLEEYEEGTELRVLFCGHEFHPKCVDPWLLSKRRCP 350

Source: Caenorhabditis brenneri

Species: Caenorhabditis brenneri

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|440799256|gb|ELR20311.1| zinc finger, C3HC4 type (RING finger) domain containing protein [Acanthamoeba castellanii str. Neff]

 Score = 60.8 bits (146), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/93 (27%), Positives = 50/93 (53%), Gaps = 1/93 (1%)

Query: 23  TIIIDRFLNISRRYND-ALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLA 81
           +++  R  + ++   D  +S +  +S P      R   ++P++ F A    +  CVICL+
Sbjct: 287 SLLTQRLAHATQDAEDHQMSYEDLVSLPNVAVGVRDIDRLPTMTFRAGMTCEPSCVICLS 346

Query: 82  PFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
            F  G+ ++ + C H FH EC++ WL++ + CP
Sbjct: 347 DFTTGDTLRRMECMHVFHKECVDKWLQQSKKCP 379

Source: Acanthamoeba castellanii str. Neff

Species: Acanthamoeba castellanii

Genus: Acanthamoeba

Superkingdom: Eukaryota

>gi|147822557|emb|CAN75077.1| hypothetical protein VITISV_012359 [Vitis vinifera]

 Score = 60.1 bits (144), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 42/82 (51%), Gaps = 1/82 (1%)

Query: 34  RRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKEL- 92
           +R N +L   S  S     +    F     I  P DEA DA CVICL  F+ GE++++L 
Sbjct: 43  QRLNSSLGEKSFASRSLNQYLVSSFKYKKGINTPEDEASDADCVICLLGFEDGEDLQQLP 102

Query: 93  LCHHKFHSECLEPWLRERQHCP 114
            C+H FH+ C+  WL     CP
Sbjct: 103 RCNHSFHAPCINMWLYSHSDCP 124

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449487516|ref|XP_004157665.1| PREDICTED: E3 ubiquitin ligase BIG BROTHER-related-like [Cucumis sativus]

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/102 (34%), Positives = 51/102 (50%), Gaps = 7/102 (6%)

Query: 18  GAMGETIIIDRFLNISRRYNDA-----LSLDSELSPPRAPFSTRRFGQIPSIAFPADEAP 72
           G M +  +    L++ R +N+      LSLD E +   A  ST R   +P      D   
Sbjct: 153 GDMDDVRMNRDILHMQRDFNENDYEMLLSLD-ENNHRHAGASTNRINSLPQSTVQTDSTQ 211

Query: 73  DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +A C ICL     G+ ++ L C HKFH +C++PWL+ R  CP
Sbjct: 212 EA-CAICLDTPTIGDVIRHLPCLHKFHKDCIDPWLQRRTSCP 252

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433191|ref|XP_004134381.1| PREDICTED: uncharacterized protein LOC101205482 [Cucumis sativus]

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/102 (34%), Positives = 51/102 (50%), Gaps = 7/102 (6%)

Query: 18  GAMGETIIIDRFLNISRRYNDA-----LSLDSELSPPRAPFSTRRFGQIPSIAFPADEAP 72
           G M +  +    L++ R +N+      LSLD E +   A  ST R   +P      D   
Sbjct: 697 GDMDDVRMNRDILHMQRDFNENDYEMLLSLD-ENNHRHAGASTNRINSLPQSTVQTDSTQ 755

Query: 73  DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +A C ICL     G+ ++ L C HKFH +C++PWL+ R  CP
Sbjct: 756 EA-CAICLDTPTIGDVIRHLPCLHKFHKDCIDPWLQRRTSCP 796

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|268572797|ref|XP_002641415.1| Hypothetical protein CBG13282 [Caenorhabditis briggsae]

 Score = 59.3 bits (142), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 35/57 (61%)

Query: 58  FGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           FG + S+A     +   +C ICL  ++ G E++ L C H+FH +C++PWL  ++ CP
Sbjct: 296 FGSLTSVAQSTSHSTPERCAICLDDYEEGTELRVLFCGHEFHPKCVDPWLLSKRRCP 352

Source: Caenorhabditis briggsae

Species: Caenorhabditis briggsae

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|167522052|ref|XP_001745364.1| hypothetical protein [Monosiga brevicollis MX1] gi|163776322|gb|EDQ89942.1| predicted protein [Monosiga brevicollis MX1]

 Score = 59.3 bits (142), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 23/46 (50%), Positives = 31/46 (67%)

Query: 69  DEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           DE  +  C ICLA F+ G+ V+ L C H++H EC +PWL ER+ CP
Sbjct: 263 DEDEEPMCAICLAEFETGDVVRTLPCKHEYHKECCDPWLTERRTCP 308

Source: Monosiga brevicollis MX1

Species: Monosiga brevicollis

Genus: Monosiga

Family: Codonosigidae

Order: Choanoflagellida

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	114
WB|WBGene00012944	487	Y47D3B.11 [Caenorhabditis eleg	0.5	0.117	0.385	1e-09
TAIR|locus:2053863	185	RHA3A "RING-H2 finger A3A" [Ar	0.649	0.4	0.392	2.2e-09
WB|WBGene00007226	170	C01G6.4 [Caenorhabditis elegan	0.473	0.317	0.418	2.9e-09
TAIR|locus:2092895	315	AT3G13430 [Arabidopsis thalian	0.798	0.288	0.340	8.7e-09
FB|FBgn0038627	147	CG7694 [Drosophila melanogaste	0.622	0.482	0.337	1.2e-08
UNIPROTKB|Q3T0W3	153	RNF181 "E3 ubiquitin-protein l	0.596	0.444	0.347	1.2e-08
MGI|MGI:1913760	165	Rnf181 "ring finger protein 18	0.596	0.412	0.361	1.2e-08
TAIR|locus:2161740	343	AT5G55970 [Arabidopsis thalian	0.736	0.244	0.352	1.4e-08
UNIPROTKB|B4DYE0	351	RNF44 "cDNA FLJ61466, highly s	0.842	0.273	0.306	1.4e-08
ZFIN|ZDB-GENE-040426-1024	156	rnf181 "ring finger protein 18	0.719	0.525	0.313	1.6e-08

WB|WBGene00012944 Y47D3B.11 [Caenorhabditis elegans (taxid:6239)]

 Score = 149 (57.5 bits), Expect = 1.0e-09, P = 1.0e-09
 Identities = 22/57 (38%), Positives = 37/57 (64%)

Query:    58 FGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
             FG + S+A  +  +   +CVICL  ++ G E++ L C H+FH +C++PWL  ++ CP
Sbjct:   299 FGSLTSVAQSSSHSAQERCVICLEEYEEGTELRVLFCGHEFHPKCVDPWLLSKRRCP 355

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2053863 RHA3A "RING-H2 finger A3A" [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 31/79 (39%), Positives = 41/79 (51%)

Query:    37 NDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKEL-LCH 95
             N  L   +  S PR+ F+     +  S A  A+E    +C ICL  F  GEE++ L LC 
Sbjct:    67 NKGLKKKALQSLPRSTFTA---AESTSGA-AAEEGDSTECAICLTDFADGEEIRVLPLCG 122

Query:    96 HKFHSECLEPWLRERQHCP 114
             H FH EC++ WL  R  CP
Sbjct:   123 HSFHVECIDKWLVSRSSCP 141

GO:0005634 "nucleus" evidence=ISM

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

WB|WBGene00007226 C01G6.4 [Caenorhabditis elegans (taxid:6239)]

 Score = 136 (52.9 bits), Expect = 2.9e-09, P = 2.9e-09
 Identities = 23/55 (41%), Positives = 33/55 (60%)

Query:    60 QIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
             QIP+  F  D   + +C IC+  F+PGE ++ L C H FH EC++ WL +   CP
Sbjct:    80 QIPADVFRGDMTSN-ECAICMIDFEPGERIRFLPCMHSFHQECVDEWLMKSFTCP 133

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2092895 AT3G13430 [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 8.7e-09, P = 8.7e-09
 Identities = 33/97 (34%), Positives = 49/97 (50%)

Query:    18 GAMGETIIIDRFLNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCV 77
             G++G+  I   F  + +R  +   L++    P A   T+    + ++A    E    QC 
Sbjct:   173 GSLGDYFIGPGFETLLQRLAEN-DLNNRYGTPPA---TKE--AVEALAMVKIEDSLLQCS 226

Query:    78 ICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
             +CL  F+ G E KE+ C HKFHS+CL PWL     CP
Sbjct:   227 VCLDDFEIGMEAKEMPCKHKFHSDCLLPWLELHSSCP 263

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

FB|FBgn0038627 CG7694 [Drosophila melanogaster (taxid:7227)]

 Score = 130 (50.8 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 25/74 (33%), Positives = 40/74 (54%)

Query:    42 LDSELSPPRAPFSTRRFGQIPSIAF-PADEAPDAQCVICLAPFQPGEEVKELLCHHKFHS 100
             +D E+  P A  S R   ++P      +DE  D +C +C  P + G++ + L C H+FH 
Sbjct:    37 IDMEIEVPEA--SKRAILELPVHEIVKSDEGGDLECSVCKEPAEEGQKYRILPCKHEFHE 94

Query:   101 ECLEPWLRERQHCP 114
             EC+  WL++   CP
Sbjct:    95 ECILLWLKKTNSCP 108

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q3T0W3 RNF181 "E3 ubiquitin-protein ligase RNF181" [Bos taurus (taxid:9913)]

 Score = 130 (50.8 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 25/72 (34%), Positives = 35/72 (48%)

Query:    43 DSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSEC 102
             D  L PP A  +      +P       +A + +C +CL  F+  E   E+ CHH FHS C
Sbjct:    47 DHHLPPPAAKTAVEN---LPRTVIRGSQA-ELKCPVCLLEFEEEETAIEMPCHHLFHSNC 102

Query:   103 LEPWLRERQHCP 114
             + PWL +   CP
Sbjct:   103 ILPWLSKTNSCP 114

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1913760 Rnf181 "ring finger protein 181" [Mus musculus (taxid:10090)]

 Score = 130 (50.8 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 26/72 (36%), Positives = 36/72 (50%)

Query:    43 DSELSPPRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSEC 102
             +  L PP A         +P     + +A D +C +CL  F+  E V E+ CHH FHS C
Sbjct:    59 EHHLPPPAAKAVVE---SLPRTVISSAKA-DLKCPVCLLEFEAEETVIEMPCHHLFHSNC 114

Query:   103 LEPWLRERQHCP 114
             + PWL +   CP
Sbjct:   115 ILPWLSKTNSCP 126

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

TAIR|locus:2161740 AT5G55970 [Arabidopsis thaliana (taxid:3702)]

 Score = 136 (52.9 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 30/85 (35%), Positives = 45/85 (52%)

Query:    31 NISRRYNDALSLDSELSP-PRAPFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEV 89
             N++   +D  + D ++S  P   F         S +  A    D +C ICLA ++  EEV
Sbjct:   251 NMNMGSSDRAASDDQISSLPSWKFKRIDDSASDSDSDSATVTDDPECCICLAKYKDKEEV 310

Query:    90 KELLCHHKFHSECLEPWLRERQHCP 114
             ++L C HKFHS+C++ WLR    CP
Sbjct:   311 RKLPCSHKFHSKCVDQWLRIISCCP 335

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

UNIPROTKB|B4DYE0 RNF44 "cDNA FLJ61466, highly similar to Homo sapiens ring finger protein 44 (RNF44), mRNA" [Homo sapiens (taxid:9606)]

 Score = 136 (52.9 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 31/101 (30%), Positives = 52/101 (51%)

Query:    19 AMGETIIIDRFLNI--SRRYNDALSLDSELSPPRAPFSTRR-FGQIPSIAFPADEAPDAQ 75
             AMG TI +D  ++      Y   L+L   L   +    T+    Q+PS  F  D     Q
Sbjct:   237 AMGPTISLDLDVDDVEMENYEALLNLAERLGDAKPRGLTKADIEQLPSYRFNPDSHQSEQ 296

Query:    76 --CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
               CV+C + F+  + ++ L C+H+FH++C++ WL+  + CP
Sbjct:   297 TLCVVCFSDFEARQLLRVLPCNHEFHTKCVDKWLKANRTCP 337

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-040426-1024 rnf181 "ring finger protein 181" [Danio rerio (taxid:7955)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 27/86 (31%), Positives = 41/86 (47%)

Query:    30 LNISRRYNDALSLDSELSPPRAPFSTRRFGQIPSIAFPADEAPDA-QCVICLAPFQPGEE 88
             L+I     D    D  L PP A    +    +P +    ++A    +C +CL  F+  E 
Sbjct:    35 LDIDSGSFDLSDWDQRLPPPAAKAVVQ---SLPVVIISPEQADKGVKCPVCLLEFEEQES 91

Query:    89 VKELLCHHKFHSECLEPWLRERQHCP 114
             V+E+ C H FH+ C+ PWL +   CP
Sbjct:    92 VREMPCKHLFHTGCILPWLNKTNSCP 117

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	114
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	4e-12
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	1e-07
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-06
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	3e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	9e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	1e-04
smart00184	40	smart00184, RING, Ring finger	3e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	5e-04
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	6e-04

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

 Score = 55.9 bits (135), Expect = 4e-12
 Identities = 23/40 (57%), Positives = 26/40 (65%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +C ICL  F+PGEEV  L C H FH ECL+ WLR    CP
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCP 41

Length = 46

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

 Score = 44.7 bits (106), Expect = 1e-07
 Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 10/61 (16%)

Query: 64  IAFPADEAPDAQCVICLAPF--------QPGEE--VKELLCHHKFHSECLEPWLRERQHC 113
           +A  + +  D  C IC   F         PG++  V    C H FH  C+  WL+ R  C
Sbjct: 10  VALWSWDIEDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTC 69

Query: 114 P 114
           P
Sbjct: 70  P 70

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

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

 Score = 40.5 bits (95), Expect = 3e-06
 Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 3/41 (7%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCP 114
           +C ICL  F+  E V  L C H F   C++ WL+  +  CP
Sbjct: 1   ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCP 39

Length = 45

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

 Score = 43.8 bits (103), Expect = 3e-06
 Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 1/41 (2%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CP 114
           +C IC++ F   + ++ L C H+FH  C++ WL    + CP
Sbjct: 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCP 365

Length = 374

>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 = 37.9 bits (88), Expect = 9e-05
 Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 76  CVICLAPFQPGEEVKEL--LCHHKFHSECLEPWLRERQHCP 114
           C  C     PG+E   +  +C+H FH  C+  WL  +  CP
Sbjct: 34  CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCP 74

Length = 88

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

 Score = 39.6 bits (92), Expect = 1e-04
 Identities = 19/52 (36%), Positives = 22/52 (42%), Gaps = 10/52 (19%)

Query: 73  DAQCVICL-APFQPGEEV---------KELLCHHKFHSECLEPWLRERQHCP 114
           D  C IC+   F P  E          K L C H  H  CL+ WL  +Q CP
Sbjct: 287 DRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCP 338

Length = 491

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

 Score = 35.2 bits (81), Expect = 3e-04
 Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 3/40 (7%)

Query: 76  CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP 114
           C ICL  +   ++   L C H F   C+  WL      CP
Sbjct: 1   CPICLEEYL--KDPVILPCGHTFCRSCIRKWLESGNNTCP 38

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

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

 Score = 35.9 bits (83), Expect = 5e-04
 Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 13/59 (22%)

Query: 69  DEAPDAQCVICLAPFQ--------PGEEVKELL--CHHKFHSECLEPWLRE---RQHCP 114
           D   D  C IC   F         PG++   +   C H FH  C+  WL     +  CP
Sbjct: 17  DTPSDDVCGICRVSFDGTCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCP 75

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

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

 Score = 34.8 bits (80), Expect = 6e-04
 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)

Query: 76  CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           C ICL   +  + V    C H F  EC+  +L+++  CP
Sbjct: 5   CPICLDLLR--DPVVLTPCGHVFCRECILRYLKKKSKCP 41

Length = 45

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	114
KOG4628|consensus	348		99.81
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.73
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.52
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.47
PHA02929	238	N1R/p28-like protein; Provisional	99.45
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.44
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.33
KOG0802|consensus	543		99.2
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.18
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.14
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.13
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.12
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.08
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.0
KOG0317|consensus	293		98.98
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.96
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.95
PF14634	44	zf-RING_5: zinc-RING finger domain	98.93
PHA02926	242	zinc finger-like protein; Provisional	98.91
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.87
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.87
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.8
KOG0320|consensus	187		98.8
KOG0823|consensus	230		98.75
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.67
KOG2930|consensus	114		98.67
KOG1734|consensus	328		98.62
KOG1493|consensus	84		98.47
KOG0828|consensus	636		98.32
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.28
KOG0804|consensus	493		98.28
KOG2177|consensus	386		98.17
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.17
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.14
KOG1645|consensus	463		98.14
KOG0827|consensus	465		98.14
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.09
KOG0287|consensus	442		98.09
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.07
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	98.03
KOG0801|consensus	205		98.01
KOG1039|consensus	344		97.91
KOG2164|consensus	513		97.89
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.87
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.8
KOG0825|consensus	1134		97.75
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	97.64
KOG1941|consensus	518		97.5
KOG1814|consensus	445		97.37
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.35
KOG4445|consensus	368		97.3
KOG0311|consensus	381		97.27
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.22
KOG0297|consensus	391		97.13
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	97.07
KOG0978|consensus	698		96.96
KOG4265|consensus	349		96.93
COG5152	259	Uncharacterized conserved protein, contains RING a	96.9
KOG0824|consensus	324		96.72
KOG4159|consensus	398		96.63
KOG2879|consensus	298		96.6
KOG1952|consensus	950		96.59
PHA03096	284	p28-like protein; Provisional	96.59
KOG0826|consensus	357		96.56
PHA02862	156	5L protein; Provisional	96.43
KOG2660|consensus	331		96.36
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.34
KOG2034|consensus	911		96.34
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	96.34
KOG3039|consensus	303		96.17
KOG1428|consensus	3738		96.07
KOG3970|consensus	299		96.04
KOG0309|consensus	1081		95.99
KOG1785|consensus	563		95.87
KOG4692|consensus	489		95.83
KOG1940|consensus	276		95.45
KOG0827|consensus	465		95.4
KOG1813|consensus	313		95.27
KOG1002|consensus	791		95.24
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.95
KOG3268|consensus	234		94.84
PF04641	260	Rtf2: Rtf2 RING-finger	94.24
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	94.23
KOG1812|consensus	384		94.11
KOG4185|consensus	296		93.74
KOG4172|consensus	62		93.48
KOG2114|consensus	933		92.52
KOG0298|consensus	1394		92.48
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	92.47
KOG1609|consensus	323		91.81
KOG2932|consensus	389		91.22
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	90.84
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	90.8
KOG4367|consensus	699		90.8
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	90.65
COG5222	427	Uncharacterized conserved protein, contains RING Z	90.54
KOG3800|consensus	300		90.53
KOG3161|consensus	861		90.39
KOG1815|consensus	444		90.19
KOG0802|consensus	543		89.88
KOG2066|consensus	846		88.85
PF06844	68	DUF1244: Protein of unknown function (DUF1244); In	87.96
KOG3053|consensus	293		87.26
KOG0269|consensus	839		87.15
KOG1001|consensus	674		87.03
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	86.8
KOG1812|consensus	384		86.07
KOG1829|consensus	580		85.24
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	85.03
KOG1729|consensus	288		84.98
KOG1571|consensus	355		84.29
KOG2817|consensus	394		84.21
PF07649	30	C1_3: C1-like domain; InterPro: IPR011424 This sho	82.03
PF07282	69	OrfB_Zn_ribbon: Putative transposase DNA-binding d	81.85
COG5236	493	Uncharacterized conserved protein, contains RING Z	81.49
KOG0825|consensus	1134		80.97
KOG4739|consensus	233		80.58
KOG4275|consensus	350		80.13

>KOG4628|consensus

Probab=99.81  E-value=1.2e-20  Score=136.10  Aligned_cols=65  Identities=32%  Similarity=0.887  Sum_probs=58.3

Q ss_pred             CCCCCHHHhcCCCceeeCCCCCC--CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCC-CC
Q psy16979         50 RAPFSTRRFGQIPSIAFPADEAP--DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CP  114 (114)
Q Consensus        50 ~~~~~~~~i~~l~~~~~~~~~~~--~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~-CP  114 (114)
                      ...+.++.++++|...+......  .+.|+||||+|++|++++.|||+|.||..||++||.+.++ ||
T Consensus       204 ~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CP  271 (348)
T KOG4628|consen  204 RNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCP  271 (348)
T ss_pred             hhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCC
Confidence            56788999999999999877653  2389999999999999999999999999999999988755 98

>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=99.73  E-value=1e-18  Score=92.15  Aligned_cols=41  Identities=44%  Similarity=1.118  Sum_probs=37.7

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++|+||+++|..++.++.|+|+|.||.+||.+|++.+.+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP   41 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCP   41 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-T
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCC
Confidence            47999999999999999999999999999999999999998

...

>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=99.52  E-value=9.1e-15  Score=84.87  Aligned_cols=42  Identities=33%  Similarity=0.857  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCC----------CCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQP----------GEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~----------~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++.|+||++.|.+          +-.+...+|+|.||..||.+||+.+++||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP   70 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCP   70 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-T
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCC
Confidence            5679999999942          22456668999999999999999999999

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 ....

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

Probab=99.47  E-value=1.8e-14  Score=101.90  Aligned_cols=42  Identities=33%  Similarity=0.991  Sum_probs=39.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP  114 (114)
                      .-+|+|||++|..+++++.|||+|.||..||++|+. .++.||
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CP  365 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCP  365 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCC
Confidence            678999999999999999999999999999999998 567787

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.45  E-value=5.5e-14  Score=97.68  Aligned_cols=65  Identities=28%  Similarity=0.628  Sum_probs=48.8

Q ss_pred             CCCCCHHHhcCCCceeeCCCC----CCCCcccccCCcCCCCCc----eEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979         50 RAPFSTRRFGQIPSIAFPADE----APDAQCVICLAPFQPGEE----VKEL-LCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        50 ~~~~~~~~i~~l~~~~~~~~~----~~~~~C~ICl~~~~~~~~----~~~l-pC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ..+.++..++.+|.....-..    ..+.+|+||++.+.+...    +.++ +|+|.||..||.+|++.+.+||
T Consensus       147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCP  220 (238)
T PHA02929        147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCP  220 (238)
T ss_pred             hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCC
Confidence            345578888888877544221    226899999999876531    2344 6999999999999999999999

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

Probab=99.44  E-value=3.9e-14  Score=102.63  Aligned_cols=61  Identities=31%  Similarity=0.676  Sum_probs=45.9

Q ss_pred             CHHHhcCCCceeeCCCCCCCCcccccCCc-CCCC---------CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         54 STRRFGQIPSIAFPADEAPDAQCVICLAP-FQPG---------EEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        54 ~~~~i~~l~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .++.-+-+|..+..+...++..|.||||+ |..+         .+-++|||||+||..|++.|++++++||
T Consensus       268 ~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCP  338 (491)
T COG5243         268 TKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCP  338 (491)
T ss_pred             hhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCC
Confidence            34444445544444444448899999999 5554         2358999999999999999999999998

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=99.33  E-value=1e-12  Score=67.38  Aligned_cols=37  Identities=38%  Similarity=0.894  Sum_probs=31.8

Q ss_pred             ccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      |+||++.+.+  .++.++|||.|+..||.+|++.+..||
T Consensus         1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP   37 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCP   37 (39)
T ss_dssp             ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-T
T ss_pred             CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCc
Confidence            8999999775  667889999999999999999988898

>KOG0802|consensus

Probab=99.20  E-value=4.9e-12  Score=97.40  Aligned_cols=42  Identities=43%  Similarity=1.076  Sum_probs=39.3

Q ss_pred             CCcccccCCcCCCCCc--eEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEE--VKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~--~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++.|+||+|++..+..  ..+|||+|+||..|+.+||+++++||
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP  334 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCP  334 (543)
T ss_pred             CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCC
Confidence            7899999999998765  79999999999999999999999998

>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=99.18  E-value=2.4e-11  Score=63.16  Aligned_cols=38  Identities=42%  Similarity=1.051  Sum_probs=31.7

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      .|+||++.+  .+.+..++|+|.||..|+..|++. +..||
T Consensus         1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp   39 (45)
T cd00162           1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCP   39 (45)
T ss_pred             CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCC
Confidence            499999998  344555669999999999999987 66787

>smart00184 RING Ring finger

Probab=99.14  E-value=5.2e-11  Score=59.85  Aligned_cols=36  Identities=36%  Similarity=0.929  Sum_probs=30.8

Q ss_pred             ccccCCcCCCCCceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979         76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP  114 (114)
                      |+||++.   ......++|+|.||..|+..|++ .+..||
T Consensus         1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP   37 (39)
T smart00184        1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCP   37 (39)
T ss_pred             CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCC
Confidence            8899988   34568889999999999999998 566687

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)

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

Probab=99.13  E-value=3.9e-11  Score=62.40  Aligned_cols=36  Identities=42%  Similarity=0.864  Sum_probs=27.8

Q ss_pred             ccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC----CCCC
Q psy16979         76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER----QHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~----~~CP  114 (114)
                      |+||++.|.+.   +.|+|||.|...||.+|.+..    ..||
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP   40 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCP   40 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---S
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCc
Confidence            89999999855   889999999999999999764    2476

>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=99.12  E-value=3.3e-11  Score=62.18  Aligned_cols=37  Identities=46%  Similarity=1.070  Sum_probs=31.3

Q ss_pred             ccccCCcCCCCCceEEeCCCCcccHHhHHHHHh--CCCCCC
Q psy16979         76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR--ERQHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~--~~~~CP  114 (114)
                      |+||++.+...  +..++|+|.|+..||.+|++  ....||
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP   39 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCP   39 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCC
Confidence            89999998754  36889999999999999999  345687

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 ....

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

Probab=99.08  E-value=7.8e-11  Score=61.44  Aligned_cols=38  Identities=34%  Similarity=0.761  Sum_probs=22.9

Q ss_pred             ccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCC----CCCC
Q psy16979         76 CVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRER----QHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~----~~CP  114 (114)
                      |+||+| |...+ .-+.|+|||+|..+||.++++.+    -.||
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 75544 56889999999999999999853    2587

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.00  E-value=4.5e-10  Score=75.68  Aligned_cols=33  Identities=33%  Similarity=0.718  Sum_probs=28.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR  108 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~  108 (114)
                      +..|+||++.+++.   ++++|+|.||..||..|+.
T Consensus        18 ~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~   50 (193)
T PLN03208         18 DFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTY   50 (193)
T ss_pred             ccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHH
Confidence            67899999998644   6678999999999999986

>KOG0317|consensus

Probab=98.98  E-value=5.2e-10  Score=78.91  Aligned_cols=39  Identities=28%  Similarity=0.731  Sum_probs=35.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|++|||.....   ..+||||+|+..||..|...+..||
T Consensus       239 ~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCP  277 (293)
T KOG0317|consen  239 TRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECP  277 (293)
T ss_pred             CCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCC
Confidence            57899999997655   6789999999999999999999998

>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=98.96  E-value=5.7e-10  Score=60.03  Aligned_cols=39  Identities=38%  Similarity=0.859  Sum_probs=33.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|.||++...   .+..+||+|. |+..|+.+|++.+..||
T Consensus         2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP   41 (50)
T PF13920_consen    2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCP   41 (50)
T ss_dssp             HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBT
T ss_pred             cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCC
Confidence            468999999865   3688899999 99999999999988898

...

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

Probab=98.95  E-value=6.9e-10  Score=65.48  Aligned_cols=42  Identities=40%  Similarity=0.998  Sum_probs=32.8

Q ss_pred             CCcccccCCcCC--------CCC--ceEEeCCCCcccHHhHHHHHhC---CCCCC
Q psy16979         73 DAQCVICLAPFQ--------PGE--EVKELLCHHKFHSECLEPWLRE---RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~--------~~~--~~~~lpC~H~FH~~Ci~~Wl~~---~~~CP  114 (114)
                      ++.|.||...|.        +|+  .+..-.|+|.||..||.+||..   +..||
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CP   75 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCP   75 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCC
Confidence            678999999987        233  3333359999999999999986   35688

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.93  E-value=9.7e-10  Score=57.63  Aligned_cols=40  Identities=25%  Similarity=0.663  Sum_probs=34.4

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .|+||++.|.+......++|+|+|+..||..+......||
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP   40 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCP   40 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCc
Confidence            4999999996666788889999999999999985566787

>PHA02926 zinc finger-like protein; Provisional

Probab=98.91  E-value=8.8e-10  Score=75.44  Aligned_cols=42  Identities=31%  Similarity=0.774  Sum_probs=32.0

Q ss_pred             CCcccccCCcCCCC----C-ceEEe-CCCCcccHHhHHHHHhCC------CCCC
Q psy16979         73 DAQCVICLAPFQPG----E-EVKEL-LCHHKFHSECLEPWLRER------QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~----~-~~~~l-pC~H~FH~~Ci~~Wl~~~------~~CP  114 (114)
                      +.+|+||||..-+.    + .-..| +|+|.||..||..|.+.+      ++||
T Consensus       170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCP  223 (242)
T PHA02926        170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCP  223 (242)
T ss_pred             CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCC
Confidence            78999999986322    1 23455 599999999999999753      4598

>smart00504 Ubox Modified RING finger domain

Probab=98.87  E-value=2.9e-09  Score=59.57  Aligned_cols=38  Identities=21%  Similarity=0.370  Sum_probs=33.8

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ..|+||++.+.+.   +.++|||+|.+.||.+|++.+.+||
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP   39 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDP   39 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCC
Confidence            3699999998864   6679999999999999999888898

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

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

Probab=98.87  E-value=1.9e-09  Score=62.38  Aligned_cols=39  Identities=36%  Similarity=0.905  Sum_probs=28.0

Q ss_pred             ccccCCcCCCCCce-EEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         76 CVICLAPFQPGEEV-KELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~-~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      |+-|......+++. .... |+|.||..||.+||..+..||
T Consensus        34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CP   74 (88)
T COG5194          34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCP   74 (88)
T ss_pred             CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCC
Confidence            33333333455543 3333 999999999999999999998

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

Probab=98.80  E-value=5.1e-09  Score=56.13  Aligned_cols=39  Identities=31%  Similarity=0.694  Sum_probs=29.9

Q ss_pred             cccccCCcCCCCCceEEeCCC-----CcccHHhHHHHHhCC--CCCC
Q psy16979         75 QCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      .|.||++. ..++....+||.     |.+|..|+.+|+..+  .+||
T Consensus         1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~   46 (49)
T smart00744        1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCE   46 (49)
T ss_pred             CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCC
Confidence            48999993 344455678975     899999999999654  4686

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

>KOG0320|consensus

Probab=98.80  E-value=2.4e-09  Score=70.91  Aligned_cols=41  Identities=29%  Similarity=0.675  Sum_probs=35.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      -..|+|||+.+.+... .-..|||+|++.||+.-++....||
T Consensus       131 ~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP  171 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCP  171 (187)
T ss_pred             ccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCC
Confidence            5679999999875533 4467999999999999999999998

>KOG0823|consensus

Probab=98.75  E-value=5.4e-09  Score=71.81  Aligned_cols=39  Identities=38%  Similarity=0.755  Sum_probs=32.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC---CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ---HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~---~CP  114 (114)
                      ..+|.|||+.-++.   ++..|||.|+..||.+||..+.   .||
T Consensus        47 ~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cP   88 (230)
T KOG0823|consen   47 FFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECP   88 (230)
T ss_pred             ceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCC
Confidence            78999999986544   6678999999999999998743   466

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.67  E-value=2e-08  Score=74.57  Aligned_cols=39  Identities=31%  Similarity=0.660  Sum_probs=34.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|...   +.++|+|.||..||..|+.....||
T Consensus        26 ~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP   64 (397)
T TIGR00599        26 SLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCP   64 (397)
T ss_pred             ccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCC
Confidence            67899999998644   4689999999999999999888898

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

>KOG2930|consensus

Probab=98.67  E-value=1.1e-08  Score=62.04  Aligned_cols=42  Identities=33%  Similarity=0.795  Sum_probs=32.2

Q ss_pred             CCcccccCCcCC-------------CCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQ-------------PGEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~-------------~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      -+.|+||..-+-             .++-++... |+|.||..||.+||+.++.||
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCP  101 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCP  101 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCC
Confidence            567999876431             222344444 999999999999999999999

>KOG1734|consensus

Probab=98.62  E-value=2.3e-08  Score=70.24  Aligned_cols=42  Identities=31%  Similarity=0.815  Sum_probs=36.3

Q ss_pred             CCcccccCCcCCCCC-------ceEEeCCCCcccHHhHHHHH--hCCCCCC
Q psy16979         73 DAQCVICLAPFQPGE-------EVKELLCHHKFHSECLEPWL--RERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-------~~~~lpC~H~FH~~Ci~~Wl--~~~~~CP  114 (114)
                      +..|+||-..+....       +..+|.|+|+||..||+-|-  .++++||
T Consensus       224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCP  274 (328)
T KOG1734|consen  224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCP  274 (328)
T ss_pred             cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCc
Confidence            779999999887655       67899999999999999997  4578898

>KOG1493|consensus

Probab=98.47  E-value=3e-08  Score=56.99  Aligned_cols=42  Identities=38%  Similarity=0.957  Sum_probs=31.5

Q ss_pred             CCcccccCCcCCC--------CCce-EEeC-CCCcccHHhHHHHHhCCC---CCC
Q psy16979         73 DAQCVICLAPFQP--------GEEV-KELL-CHHKFHSECLEPWLRERQ---HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~--------~~~~-~~lp-C~H~FH~~Ci~~Wl~~~~---~CP  114 (114)
                      +++|.||.-.|..        |+.. .++- |.|.||..||.+|+..+.   .||
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CP   74 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCP   74 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCC
Confidence            6689999999863        4422 2333 999999999999997643   477

>KOG0828|consensus

Probab=98.32  E-value=1.7e-07  Score=70.62  Aligned_cols=42  Identities=38%  Similarity=0.972  Sum_probs=32.3

Q ss_pred             CCcccccCCcCCC---CCc-----------eEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979         73 DAQCVICLAPFQP---GEE-----------VKELLCHHKFHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~---~~~-----------~~~lpC~H~FH~~Ci~~Wl~-~~~~CP  114 (114)
                      ...|+|||.++..   +..           ....||.|+||+.|+..|.. .+-.||
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CP  627 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICP  627 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCC
Confidence            5789999998753   111           34559999999999999998 455676

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

Probab=98.28  E-value=5.4e-07  Score=52.09  Aligned_cols=39  Identities=21%  Similarity=0.361  Sum_probs=31.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      ...|+|+.+-+.+.   +++|+||.|.+.||..||+. +.+||
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P   43 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDP   43 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-T
T ss_pred             ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCC
Confidence            45799999999855   77899999999999999998 77887

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 ....

>KOG0804|consensus

Probab=98.28  E-value=3.7e-07  Score=68.12  Aligned_cols=40  Identities=33%  Similarity=0.925  Sum_probs=32.6

Q ss_pred             CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      -++|+||||.+.... .++...|.|.||..|+.+|-  ..+||
T Consensus       175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scp  215 (493)
T KOG0804|consen  175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCP  215 (493)
T ss_pred             CCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcCh
Confidence            578999999997665 45666799999999999994  34565

>KOG2177|consensus

Probab=98.17  E-value=6.1e-07  Score=63.02  Aligned_cols=39  Identities=33%  Similarity=0.685  Sum_probs=33.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|...   +.|||+|.|+..||..++.....||
T Consensus        13 ~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp   51 (386)
T KOG2177|consen   13 ELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCP   51 (386)
T ss_pred             cccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCc
Confidence            67899999999877   8899999999999999987334465

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

Probab=98.17  E-value=7.1e-07  Score=51.24  Aligned_cols=37  Identities=30%  Similarity=0.573  Sum_probs=16.9

Q ss_pred             CCcccccCCcCCCCCc--eEEe---CCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEE--VKEL---LCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~--~~~l---pC~H~FH~~Ci~~Wl~~  109 (114)
                      +..|.||++.+.+++.  ....   .|++.||..||.+||..
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~   43 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLS   43 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHH
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHH
Confidence            3579999998763332  2333   39999999999999974

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.14  E-value=2.2e-06  Score=61.76  Aligned_cols=42  Identities=19%  Similarity=0.483  Sum_probs=30.5

Q ss_pred             CCcccccCCcCCCCCc--eEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEE--VKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~--~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..||||+.+--....  ..+-+|||.||..||+..|.. ...||
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP   47 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCP   47 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCC
Confidence            4689999997333333  233379999999999996654 45798

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).

>KOG1645|consensus

Probab=98.14  E-value=1.4e-06  Score=64.41  Aligned_cols=42  Identities=38%  Similarity=1.017  Sum_probs=33.0

Q ss_pred             CCcccccCCcCCC-CC-ceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979         73 DAQCVICLAPFQP-GE-EVKELLCHHKFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~-~~-~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      ..+|+||++.|.. |+ .+..|.|+|.|..+||.+||-+  ...||
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp   49 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCP   49 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCc
Confidence            5689999999985 44 4566679999999999999953  23476

>KOG0827|consensus

Probab=98.14  E-value=1.1e-06  Score=64.59  Aligned_cols=40  Identities=38%  Similarity=0.944  Sum_probs=30.3

Q ss_pred             CcccccCCcCCCC-CceEEeC-CCCcccHHhHHHHHhC---CCCCC
Q psy16979         74 AQCVICLAPFQPG-EEVKELL-CHHKFHSECLEPWLRE---RQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~-~~~~~lp-C~H~FH~~Ci~~Wl~~---~~~CP  114 (114)
                      ..|.|| .++.+. ..+.-.. |||+||..|+..||+.   ++.||
T Consensus         5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cp   49 (465)
T KOG0827|consen    5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCP   49 (465)
T ss_pred             ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCC
Confidence            479999 555444 3555555 9999999999999987   24687

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

Probab=98.09  E-value=4.6e-07  Score=72.92  Aligned_cols=42  Identities=33%  Similarity=0.891  Sum_probs=32.1

Q ss_pred             CCcccccCCcCCCCC---ceEEeC-CCCcccHHhHHHHHhC--CCCCC
Q psy16979         73 DAQCVICLAPFQPGE---EVKELL-CHHKFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~---~~~~lp-C~H~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      -++|+||+..+..-+   +-.+.| |+|.||..|+.+|++.  +++||
T Consensus      1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CP 1516 (1525)
T COG5219        1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCP 1516 (1525)
T ss_pred             cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCC
Confidence            678999998765211   224444 9999999999999987  45798

>KOG0287|consensus

Probab=98.09  E-value=1.2e-06  Score=63.61  Aligned_cols=39  Identities=31%  Similarity=0.674  Sum_probs=35.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      --.|.||.|-|...   ..+||+|.|+.-||+..|..+..||
T Consensus        23 lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP   61 (442)
T KOG0287|consen   23 LLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCP   61 (442)
T ss_pred             HHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCC
Confidence            35799999999755   7789999999999999999999998

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

Probab=98.07  E-value=2.4e-06  Score=59.96  Aligned_cols=39  Identities=31%  Similarity=0.740  Sum_probs=33.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHH-HHhCCCC-CC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEP-WLRERQH-CP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~-Wl~~~~~-CP  114 (114)
                      +..|+||++..+..   ..+||||+|+..||.. |=+++.- ||
T Consensus       215 d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~Cp  255 (271)
T COG5574         215 DYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCP  255 (271)
T ss_pred             ccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCc
Confidence            67899999997644   7789999999999999 9877655 87

>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=98.03  E-value=1.8e-06  Score=55.08  Aligned_cols=34  Identities=21%  Similarity=0.559  Sum_probs=30.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCC------CcccHHhHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH------HKFHSECLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~------H~FH~~Ci~~W  106 (114)
                      ..+|.||++.+..++.++.++|+      |.||.+|+.+|
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw   65 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW   65 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence            45899999999986678888887      89999999999

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.

>KOG0801|consensus

Probab=98.01  E-value=1.3e-06  Score=57.28  Aligned_cols=28  Identities=32%  Similarity=0.854  Sum_probs=26.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHS  100 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~  100 (114)
                      ..+|.||||+++.|+.+.+|||-.+||+
T Consensus       177 kGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  177 KGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             CCcEEEEhhhccCCCceeccceEEEeec
Confidence            6789999999999999999999999996

>KOG1039|consensus

Probab=97.91  E-value=4.5e-06  Score=61.17  Aligned_cols=42  Identities=26%  Similarity=0.795  Sum_probs=32.2

Q ss_pred             CCcccccCCcCCCCC----ceEEeC-CCCcccHHhHHHHH--hC-----CCCCC
Q psy16979         73 DAQCVICLAPFQPGE----EVKELL-CHHKFHSECLEPWL--RE-----RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~----~~~~lp-C~H~FH~~Ci~~Wl--~~-----~~~CP  114 (114)
                      +.+|.||++...+..    .-..|| |.|.|+..||+.|-  ++     .+.||
T Consensus       161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP  214 (344)
T KOG1039|consen  161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCP  214 (344)
T ss_pred             cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCC
Confidence            789999999976543    124446 99999999999998  33     35687

>KOG2164|consensus

Probab=97.89  E-value=9.5e-06  Score=61.57  Aligned_cols=35  Identities=31%  Similarity=0.597  Sum_probs=27.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER  110 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~  110 (114)
                      +..|+|||+.....   .++.|||+||..||...+...
T Consensus       186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s  220 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYS  220 (513)
T ss_pred             CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhh
Confidence            56899999985533   334499999999999987653

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

Probab=97.87  E-value=8.1e-06  Score=58.29  Aligned_cols=39  Identities=31%  Similarity=0.604  Sum_probs=34.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      -..|-||-+-|...   ...+|||.|+.-||+..|..+..||
T Consensus        25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP   63 (391)
T COG5432          25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCP   63 (391)
T ss_pred             HHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCc
Confidence            46799999998754   6678999999999999999999998

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

Probab=97.80  E-value=2.4e-05  Score=43.08  Aligned_cols=40  Identities=33%  Similarity=0.806  Sum_probs=28.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      ...|+|.+..|+  +.++...|+|+|-++.|..||+++  ..||
T Consensus        11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CP   52 (57)
T PF11789_consen   11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCP   52 (57)
T ss_dssp             -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-S
T ss_pred             ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCC
Confidence            678999999987  567777899999999999999543  3487

>KOG0825|consensus

Probab=97.75  E-value=4.4e-06  Score=66.29  Aligned_cols=42  Identities=36%  Similarity=0.667  Sum_probs=36.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||+..+.++.....-+|+|.||..||..|-+..++||
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCP  164 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCP  164 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCc
Confidence            456888888877776667778999999999999999999998

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

Probab=97.64  E-value=2.1e-05  Score=48.13  Aligned_cols=31  Identities=23%  Similarity=0.639  Sum_probs=26.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~  104 (114)
                      +..|+||-..+.. ......||+|+||..|++
T Consensus        78 ~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   78 STKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            5679999999876 467888999999999975

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 [].

>KOG1941|consensus

Probab=97.50  E-value=3.7e-05  Score=56.95  Aligned_cols=42  Identities=29%  Similarity=0.703  Sum_probs=36.0

Q ss_pred             CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      +--|..|-+.+...+ ....|||.|+||..|+...|+.+  ++||
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP  409 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCP  409 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCc
Confidence            567999999998655 67889999999999999999764  5798

>KOG1814|consensus

Probab=97.37  E-value=9.3e-05  Score=55.06  Aligned_cols=37  Identities=27%  Similarity=0.507  Sum_probs=32.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ...|.||+++.........|||+|+|++.|+...+..
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~  220 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTI  220 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHH
Confidence            5789999999876678899999999999999999874

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

Probab=97.35  E-value=0.00012  Score=38.77  Aligned_cols=38  Identities=37%  Similarity=0.781  Sum_probs=25.3

Q ss_pred             ccccCCcCCCCCceEEeCCC--C---cccHHhHHHHHhC--CCCCC
Q psy16979         76 CVICLAPFQPGEEVKELLCH--H---KFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~~~lpC~--H---~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      |-||+++-..++ ..+.||+  =   ..|.+|+..|+..  +.+|+
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~   45 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCE   45 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-T
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCC
Confidence            779999977665 4556765  3   7899999999974  34464

>KOG4445|consensus

Probab=97.30  E-value=0.00014  Score=52.27  Aligned_cols=36  Identities=36%  Similarity=0.759  Sum_probs=33.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR  108 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~  108 (114)
                      ...|.|||--|..++...+++|-|.||..|+.+.|.
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~  150 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLT  150 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence            668999999999999999999999999999998875

>KOG0311|consensus

Probab=97.27  E-value=2.6e-05  Score=56.92  Aligned_cols=39  Identities=31%  Similarity=0.710  Sum_probs=32.2

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+|||+-++..   +..+ |.|.|+.+||..-|+. +++||
T Consensus        43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecp   83 (381)
T KOG0311|consen   43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECP   83 (381)
T ss_pred             hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCc
Confidence            67899999998643   4455 9999999999999987 56788

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

Probab=97.22  E-value=7.1e-05  Score=41.92  Aligned_cols=37  Identities=30%  Similarity=0.669  Sum_probs=18.6

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      -.|++|.+-+...  +..-.|.|+|++.||..-+..  .||
T Consensus         8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~--~CP   44 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS--ECP   44 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTTT--B-S
T ss_pred             cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC--CCC
Confidence            4699999997643  445569999999999885443  376

>KOG0297|consensus

Probab=97.13  E-value=0.00023  Score=53.26  Aligned_cols=40  Identities=30%  Similarity=0.718  Sum_probs=34.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||...+.+.-  ....|+|.|+..|+..|+..+..||
T Consensus        21 ~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp   60 (391)
T KOG0297|consen   21 NLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCP   60 (391)
T ss_pred             cccCccccccccCCC--CCCCCCCcccccccchhhccCcCCc
Confidence            678999999987553  3368999999999999999988887

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=97.07  E-value=0.00074  Score=36.59  Aligned_cols=33  Identities=24%  Similarity=0.733  Sum_probs=29.1

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEP  105 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~  105 (114)
                      ...|.+|-+.|.+++.+++.| |+-.+|++|...
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            457999999999888888898 999999999643

>KOG0978|consensus

Probab=96.96  E-value=0.0002  Score=56.71  Aligned_cols=38  Identities=24%  Similarity=0.725  Sum_probs=30.5

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      -.|+.|-..++   .++...|+|+||..||.+-+.. ++.||
T Consensus       644 LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP  682 (698)
T KOG0978|consen  644 LKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCP  682 (698)
T ss_pred             eeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCC
Confidence            46999996654   3355569999999999999964 67798

>KOG4265|consensus

Probab=96.93  E-value=0.0008  Score=49.31  Aligned_cols=39  Identities=31%  Similarity=0.709  Sum_probs=31.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCC-cccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHH-KFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H-~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ..+|.|||.+-.   .+.+|||.| -.+..|.+.---+++.||
T Consensus       290 gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CP  329 (349)
T KOG4265|consen  290 GKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCP  329 (349)
T ss_pred             CCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCC
Confidence            678999998854   458999999 589999888555677888

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

Probab=96.90  E-value=0.0005  Score=46.80  Aligned_cols=38  Identities=24%  Similarity=0.464  Sum_probs=31.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHC  113 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~C  113 (114)
                      ...|.||.++|+..   ++..|||.|+..|...=.+....|
T Consensus       196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C  233 (259)
T COG5152         196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDEC  233 (259)
T ss_pred             ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcc
Confidence            56899999999865   677899999999988766665554

>KOG0824|consensus

Probab=96.72  E-value=0.0008  Score=48.37  Aligned_cols=39  Identities=26%  Similarity=0.650  Sum_probs=29.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      ..+|+||+.+-.-.   ..|+|+|.|+.-||+-=.+. ..+||
T Consensus         7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~Ca   46 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCA   46 (324)
T ss_pred             CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCc
Confidence            56899999885433   78999999999999875544 34464

>KOG4159|consensus

Probab=96.63  E-value=0.0011  Score=49.66  Aligned_cols=39  Identities=31%  Similarity=0.749  Sum_probs=33.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|.||+..+...   +.+||||.|+..||.+-+.+...||
T Consensus        84 ef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp  122 (398)
T KOG4159|consen   84 EFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECP  122 (398)
T ss_pred             hhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCc
Confidence            78999999887654   6669999999999999887777787

>KOG2879|consensus

Probab=96.60  E-value=0.0026  Score=45.26  Aligned_cols=40  Identities=25%  Similarity=0.472  Sum_probs=31.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      +.+|++|-+.  +-......+|+|+|+.-||..=+.-  .-+||
T Consensus       239 ~~~C~~Cg~~--PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp  280 (298)
T KOG2879|consen  239 DTECPVCGEP--PTIPHVIGKCGHIYCYYCIATSRLWDASFTCP  280 (298)
T ss_pred             CceeeccCCC--CCCCeeeccccceeehhhhhhhhcchhhcccC
Confidence            7899999987  4445677789999999999986653  34676

>KOG1952|consensus

Probab=96.59  E-value=0.00097  Score=53.70  Aligned_cols=37  Identities=30%  Similarity=0.731  Sum_probs=29.4

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~  109 (114)
                      ..+|.||.+.+.....+=.. .|=|+||..||.+|-+.
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs  228 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARS  228 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHH
Confidence            57899999999876643222 37799999999999864

>PHA03096 p28-like protein; Provisional

Probab=96.59  E-value=0.0011  Score=47.79  Aligned_cols=36  Identities=28%  Similarity=0.595  Sum_probs=29.5

Q ss_pred             CcccccCCcCCCC----CceEEeC-CCCcccHHhHHHHHhC
Q psy16979         74 AQCVICLAPFQPG----EEVKELL-CHHKFHSECLEPWLRE  109 (114)
Q Consensus        74 ~~C~ICl~~~~~~----~~~~~lp-C~H~FH~~Ci~~Wl~~  109 (114)
                      ..|.||++.....    ..-..|+ |.|.|+..||..|-..
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~  219 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE  219 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence            5799999997643    2456777 9999999999999865

>KOG0826|consensus

Probab=96.56  E-value=0.0074  Score=44.02  Aligned_cols=40  Identities=23%  Similarity=0.442  Sum_probs=32.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||+.......  +.---|=+||..||.+.+..++.||
T Consensus       300 ~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~CP  339 (357)
T KOG0826|consen  300 REVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGHCP  339 (357)
T ss_pred             cccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCCCC
Confidence            678999998865442  2223688999999999999999998

>PHA02862 5L protein; Provisional

Probab=96.43  E-value=0.0026  Score=41.18  Aligned_cols=38  Identities=21%  Similarity=0.625  Sum_probs=27.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCC-----CcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      ++.|-||+++-+++    .-||+     ..-|.+|+.+|++.+  .+||
T Consensus         2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~Ce   46 (156)
T PHA02862          2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECN   46 (156)
T ss_pred             CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCcc
Confidence            46799999985332    34755     578999999999763  3575

>KOG2660|consensus

Probab=96.36  E-value=0.00075  Score=48.98  Aligned_cols=40  Identities=25%  Similarity=0.611  Sum_probs=32.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      -.+|.+|-.-|.+..  .+.-|-|.|+++||.+.|...++||
T Consensus        15 ~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP   54 (331)
T KOG2660|consen   15 HITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCP   54 (331)
T ss_pred             ceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCC
Confidence            568999998876542  2334999999999999999999998

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.34  E-value=0.004  Score=40.97  Aligned_cols=38  Identities=32%  Similarity=0.806  Sum_probs=27.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCC--C---cccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH--H---KFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~--H---~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      +..|-||.++-.  +.  .-||.  .   .-|.+|+..|+..+  .+||
T Consensus         8 ~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~Ce   52 (162)
T PHA02825          8 DKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCK   52 (162)
T ss_pred             CCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCccc
Confidence            678999998843  22  24755  4   56999999999764  3464

>KOG2034|consensus

Probab=96.34  E-value=0.0017  Score=52.54  Aligned_cols=34  Identities=26%  Similarity=0.540  Sum_probs=28.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl  107 (114)
                      ++.|.+|.-.+... .-.+.||+|.||++||.+--
T Consensus       817 ~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  817 QDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             ccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            68999999887544 66788999999999998753

>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=96.34  E-value=0.0018  Score=33.57  Aligned_cols=39  Identities=26%  Similarity=0.799  Sum_probs=22.8

Q ss_pred             ccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC--CCC
Q psy16979         76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ--HCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~--~CP  114 (114)
                      |.+|.+-...|.....-.|+=.+|..|+..+++.++  .||
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP   41 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCP   41 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-T
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCc
Confidence            778888888775444334999999999999998765  688

; PDB: 3NW0_A 2CT0_A.

>KOG3039|consensus

Probab=96.17  E-value=0.005  Score=43.33  Aligned_cols=42  Identities=19%  Similarity=0.289  Sum_probs=36.5

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||.+.+.....+..| ||||+|..+|+.+.++....||
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~p  263 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDP  263 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccccccc
Confidence            46799999999988888888 6999999999999887766665

>KOG1428|consensus

Probab=96.07  E-value=0.0041  Score=53.28  Aligned_cols=37  Identities=30%  Similarity=0.634  Sum_probs=32.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ++.|.||..+--......+|.|+|+||..|.+.-|++
T Consensus      3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~ 3522 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLEN 3522 (3738)
T ss_pred             CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHh
Confidence            7899999998777778899999999999999876654

>KOG3970|consensus

Probab=96.04  E-value=0.0041  Score=43.24  Aligned_cols=36  Identities=31%  Similarity=0.809  Sum_probs=31.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ...|..|--.+..|+. .+|-|-|.||.+|+..|-..
T Consensus        50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~   85 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAAN   85 (299)
T ss_pred             CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhh
Confidence            6679999999998865 66899999999999999754

>KOG0309|consensus

Probab=95.99  E-value=0.0037  Score=50.16  Aligned_cols=27  Identities=30%  Similarity=0.648  Sum_probs=23.5

Q ss_pred             ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         88 EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        88 ~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ......|+|+-|.+|...|++....||
T Consensus      1042 s~~Cg~C~Hv~H~sc~~eWf~~gd~Cp 1068 (1081)
T KOG0309|consen 1042 SNFCGTCGHVGHTSCMMEWFRTGDVCP 1068 (1081)
T ss_pred             chhhccccccccHHHHHHHHhcCCcCC
Confidence            345567999999999999999999998

>KOG1785|consensus

Probab=95.87  E-value=0.004  Score=46.67  Aligned_cols=39  Identities=33%  Similarity=0.727  Sum_probs=31.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      -+.|-||-|.   +..|++-||||..+..|+..|=..  .++||
T Consensus       369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CP  409 (563)
T KOG1785|consen  369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCP  409 (563)
T ss_pred             HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCC
Confidence            4579999876   235677799999999999999743  56787

>KOG4692|consensus

Probab=95.83  E-value=0.0065  Score=44.89  Aligned_cols=38  Identities=26%  Similarity=0.485  Sum_probs=30.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHC  113 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~C  113 (114)
                      +..|+||...=   -..+..||+|.=+..||.+.|-..+.|
T Consensus       422 d~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~C  459 (489)
T KOG4692|consen  422 DNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRC  459 (489)
T ss_pred             cccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCee
Confidence            78999998652   234666999999999999999876665

>KOG1940|consensus

Probab=95.45  E-value=0.0076  Score=43.16  Aligned_cols=42  Identities=31%  Similarity=0.608  Sum_probs=35.1

Q ss_pred             CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||.+.+..+. .+..++|+|.-|..|...-...+-+||
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP  200 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCP  200 (276)
T ss_pred             cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCC
Confidence            445999999988776 567889999999999988877777787

>KOG0827|consensus

Probab=95.40  E-value=0.00055  Score=50.80  Aligned_cols=42  Identities=21%  Similarity=0.650  Sum_probs=35.3

Q ss_pred             CCcccccCCcCCCC-CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPG-EEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~-~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||.+.++.. +++..+-|+|.+|.+||.+||.....||
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~  238 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLP  238 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhH
Confidence            56799999999876 6777888999999999999997655443

>KOG1813|consensus

Probab=95.27  E-value=0.0072  Score=43.48  Aligned_cols=38  Identities=24%  Similarity=0.449  Sum_probs=32.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHC  113 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~C  113 (114)
                      ...|-||...|...   ++..|+|.|+..|-..-+++...|
T Consensus       241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c  278 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKC  278 (313)
T ss_pred             Cccccccccccccc---hhhcCCceeehhhhccccccCCcc
Confidence            56799999999866   778899999999998888776655

>KOG1002|consensus

Probab=95.24  E-value=0.01  Score=46.04  Aligned_cols=39  Identities=31%  Similarity=0.818  Sum_probs=30.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-----CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-----RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-----~~~CP  114 (114)
                      ...|.+|-+.-++   .....|.|.|++-||.++...     +-+||
T Consensus       536 ~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP  579 (791)
T KOG1002|consen  536 EVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCP  579 (791)
T ss_pred             ceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCc
Confidence            6789999987543   366679999999999888754     33577

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

Probab=94.95  E-value=0.025  Score=29.94  Aligned_cols=39  Identities=21%  Similarity=0.527  Sum_probs=19.1

Q ss_pred             ccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979         76 CVICLAPFQPGE-EVKELLCHHKFHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        76 C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP  114 (114)
                      |++|.+++...+ ...--+|++..+..|...-++ ....||
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CP   41 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCP   41 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-T
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCC
Confidence            789999994333 334345889999999888775 366687

>KOG3268|consensus

Probab=94.84  E-value=0.015  Score=39.10  Aligned_cols=36  Identities=36%  Similarity=0.785  Sum_probs=24.1

Q ss_pred             CcccccCCcCCCCC----ceEEeCCCCcccHHhHHHHHhC
Q psy16979         74 AQCVICLAPFQPGE----EVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        74 ~~C~ICl~~~~~~~----~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ..|.||+.---+|.    ..--..|+..||.-|+..||+.
T Consensus       166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRg  205 (234)
T KOG3268|consen  166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRG  205 (234)
T ss_pred             hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHH
Confidence            45666664433332    2233469999999999999974

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.24  E-value=0.058  Score=38.33  Aligned_cols=41  Identities=20%  Similarity=0.417  Sum_probs=31.5

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|||...+|......+.| ||||+|-..+|..- +....||
T Consensus       113 ~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp  154 (260)
T PF04641_consen  113 RFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCP  154 (260)
T ss_pred             eeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-ccccccc
Confidence            67899999999655555444 89999999999885 3344576

>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=94.23  E-value=0.027  Score=39.66  Aligned_cols=42  Identities=19%  Similarity=0.543  Sum_probs=32.4

Q ss_pred             CCcccccCCcCCCCC--ceEEeC-CCCcccHHhHHHHHhCC-CCCC
Q psy16979         73 DAQCVICLAPFQPGE--EVKELL-CHHKFHSECLEPWLRER-QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~--~~~~lp-C~H~FH~~Ci~~Wl~~~-~~CP  114 (114)
                      +..||||..+.-..-  ++.+-| |=|..+.+|+++-|.+. ..||
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP   55 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCP   55 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCC
Confidence            568999998854443  344447 99999999999999874 5687

>KOG1812|consensus

Probab=94.11  E-value=0.018  Score=43.24  Aligned_cols=37  Identities=22%  Similarity=0.593  Sum_probs=28.7

Q ss_pred             CCcccccCCcCCCC-CceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPG-EEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~-~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ..+|.||..+.... .....+.|+|.|+.+|+.+.++.
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            67899999554444 44456679999999999988874

>KOG4185|consensus

Probab=93.74  E-value=0.053  Score=38.95  Aligned_cols=36  Identities=22%  Similarity=0.550  Sum_probs=29.4

Q ss_pred             CcccccCCcCCCCC---ceEEeCCCCcccHHhHHHHHhC
Q psy16979         74 AQCVICLAPFQPGE---EVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        74 ~~C~ICl~~~~~~~---~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ..|-||-++|..++   .-+.|.|||.|+..|+.+-+..
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~   42 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN   42 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcC
Confidence            57999999999764   2366779999999999886654

>KOG4172|consensus

Probab=93.48  E-value=0.028  Score=30.51  Aligned_cols=39  Identities=21%  Similarity=0.406  Sum_probs=27.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHh-CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~-~~~~CP  114 (114)
                      +++|.||+|.-.+.   +...|||. .+.+|-.+-++ .+..||
T Consensus         7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CP   47 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCP   47 (62)
T ss_pred             ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCc
Confidence            57899999874322   33459995 67788766555 577787

>KOG2114|consensus

Probab=92.52  E-value=0.078  Score=43.25  Aligned_cols=37  Identities=30%  Similarity=0.833  Sum_probs=27.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|..|--.+..  +.+-.-|+|.||..|+.   .....||
T Consensus       840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP  876 (933)
T KOG2114|consen  840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCP  876 (933)
T ss_pred             eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCC
Confidence            4589999888653  45667799999999987   2334576

>KOG0298|consensus

Probab=92.48  E-value=0.029  Score=47.41  Aligned_cols=40  Identities=30%  Similarity=0.578  Sum_probs=33.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|.||++.+...  ..+..|+|.++..|+..|+..+..||
T Consensus      1153 ~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~ 1192 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCP 1192 (1394)
T ss_pred             ccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCc
Confidence            45899999998733  25567999999999999999999887

>smart00249 PHD PHD zinc finger

Probab=92.47  E-value=0.096  Score=26.40  Aligned_cols=31  Identities=32%  Similarity=0.675  Sum_probs=22.0

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEP  105 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~  105 (114)
                      .|.+|......+..+.--.|...||..|+..
T Consensus         1 ~C~~C~~~~~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPDDGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcCCCCCEEECCCCCchhhhhhCCC
Confidence            3788988874444443345999999999754

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

>KOG1609|consensus

Probab=91.81  E-value=0.098  Score=37.60  Aligned_cols=38  Identities=24%  Similarity=0.526  Sum_probs=28.6

Q ss_pred             CCcccccCCcCCCCCc-eEEeCCC-----CcccHHhHHHHHhCC
Q psy16979         73 DAQCVICLAPFQPGEE-VKELLCH-----HKFHSECLEPWLRER  110 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~-~~~lpC~-----H~FH~~Ci~~Wl~~~  110 (114)
                      +..|-||.++...... ....||.     +..|+.|+..|+..+
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~  121 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIK  121 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccc
Confidence            4689999998765432 4556765     678999999999854

>KOG2932|consensus

Probab=91.22  E-value=0.091  Score=38.35  Aligned_cols=36  Identities=28%  Similarity=0.578  Sum_probs=22.4

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .|--|--.+.  -..|.+||+|+|+.+|...  ..-+.||
T Consensus        92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp  127 (389)
T KOG2932|consen   92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICP  127 (389)
T ss_pred             eecccCCcce--eeecccccchhhhhhhhhc--CccccCc
Confidence            4555543332  2336779999999999764  2234565

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=90.84  E-value=0.093  Score=28.51  Aligned_cols=36  Identities=28%  Similarity=0.575  Sum_probs=24.4

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ..|..|...   +.+-.++||+|.....|..-|  +-+-||
T Consensus         8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCP   43 (55)
T PF14447_consen    8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCP   43 (55)
T ss_pred             eeEEEcccc---ccccccccccceeeccccChh--hccCCC
Confidence            345555544   334578899999999997764  455676

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

Probab=90.80  E-value=0.14  Score=23.56  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=16.9

Q ss_pred             cccccCCcCCCCCceEEeC-CCCccc
Q psy16979         75 QCVICLAPFQPGEEVKELL-CHHKFH   99 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lp-C~H~FH   99 (114)
                      .|+-|..++...  .+.-| |||.|-
T Consensus         2 ~CP~C~~~V~~~--~~~Cp~CG~~F~   25 (26)
T PF10571_consen    2 TCPECGAEVPES--AKFCPHCGYDFE   25 (26)
T ss_pred             cCCCCcCCchhh--cCcCCCCCCCCc
Confidence            588888887544  46668 999983

Several members are annotated as putative helicases.

>KOG4367|consensus

Probab=90.80  E-value=0.15  Score=38.91  Aligned_cols=34  Identities=21%  Similarity=0.513  Sum_probs=28.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      +..|+||..-|++.   ++|||+|..+..|...-+.+
T Consensus         4 elkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    4 ELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence            45799999999866   89999999999998876543

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

Probab=90.65  E-value=0.15  Score=26.72  Aligned_cols=31  Identities=26%  Similarity=0.664  Sum_probs=21.8

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEP  105 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~  105 (114)
                      .|.||...-..++.+.--.|+..||..|+..
T Consensus         1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~   31 (51)
T PF00628_consen    1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGP   31 (51)
T ss_dssp             EBTTTTSSCTTSSEEEBSTTSCEEETTTSTS
T ss_pred             eCcCCCCcCCCCCeEEcCCCChhhCcccCCC
Confidence            3889999544444444335999999999864

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

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

Probab=90.54  E-value=0.25  Score=36.00  Aligned_cols=39  Identities=28%  Similarity=0.709  Sum_probs=28.7

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      ...|+.|..-+..  .+++ | |+|.|+..||..-|.. ...||
T Consensus       274 ~LkCplc~~Llrn--p~kT-~cC~~~fc~eci~~al~dsDf~Cp  314 (427)
T COG5222         274 SLKCPLCHCLLRN--PMKT-PCCGHTFCDECIGTALLDSDFKCP  314 (427)
T ss_pred             cccCcchhhhhhC--cccC-ccccchHHHHHHhhhhhhccccCC
Confidence            3569999877553  3344 6 9999999999988865 44576

>KOG3800|consensus

Probab=90.53  E-value=0.31  Score=35.16  Aligned_cols=40  Identities=18%  Similarity=0.449  Sum_probs=29.3

Q ss_pred             cccccCCcCCCCC--ceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979         75 QCVICLAPFQPGE--EVKELLCHHKFHSECLEPWLRERQ-HCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~--~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP  114 (114)
                      .|++|..+.-...  ...+-||+|..+.+|++.-|.... .||
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~Cp   44 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCP   44 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCC
Confidence            5999998744333  233337999999999999887754 577

>KOG3161|consensus

Probab=90.39  E-value=0.063  Score=42.67  Aligned_cols=39  Identities=31%  Similarity=0.629  Sum_probs=29.2

Q ss_pred             CcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         74 AQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ..|.||+..|.... .-+-|.|+|..+..|+..-  .+.+||
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp   51 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP   51 (861)
T ss_pred             hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC
Confidence            46999999987665 3355669999999999874  344555

>KOG1815|consensus

Probab=90.19  E-value=0.18  Score=38.59  Aligned_cols=35  Identities=34%  Similarity=0.747  Sum_probs=30.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ...|-||.+.+..  .+..+.|+|.|+..|+...++.
T Consensus        70 ~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~  104 (444)
T KOG1815|consen   70 DVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT  104 (444)
T ss_pred             cccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence            6789999999876  6677889999999999998875

>KOG0802|consensus

Probab=89.88  E-value=0.098  Score=40.94  Aligned_cols=35  Identities=31%  Similarity=0.864  Sum_probs=30.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .+.|.||+++.    ..+..+|.   |..|+.+|+..+..||
T Consensus       479 ~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~p  513 (543)
T KOG0802|consen  479 NDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCP  513 (543)
T ss_pred             cCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccC
Confidence            78899999998    44667788   9999999999998887

>KOG2066|consensus

Probab=88.85  E-value=0.17  Score=40.99  Aligned_cols=38  Identities=32%  Similarity=0.693  Sum_probs=30.1

Q ss_pred             CCcccccCCcCCC-C---CceEEeCCCCcccHHhHHHHHhCC
Q psy16979         73 DAQCVICLAPFQP-G---EEVKELLCHHKFHSECLEPWLRER  110 (114)
Q Consensus        73 ~~~C~ICl~~~~~-~---~~~~~lpC~H~FH~~Ci~~Wl~~~  110 (114)
                      +..|.-|.+.... +   +.+.++.|+|.||..|+..-..++
T Consensus       784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~  825 (846)
T KOG2066|consen  784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN  825 (846)
T ss_pred             hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence            5679999988663 2   467899999999999997766554

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

Probab=87.96  E-value=0.33  Score=27.31  Aligned_cols=12  Identities=42%  Similarity=1.090  Sum_probs=8.9

Q ss_pred             cccHHhHHHHHh
Q psy16979         97 KFHSECLEPWLR  108 (114)
Q Consensus        97 ~FH~~Ci~~Wl~  108 (114)
                      .|++.||.+|+.
T Consensus        11 gFCRNCLskWy~   22 (68)
T PF06844_consen   11 GFCRNCLSKWYR   22 (68)
T ss_dssp             S--HHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            499999999986

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

>KOG3053|consensus

Probab=87.26  E-value=0.31  Score=34.70  Aligned_cols=37  Identities=27%  Similarity=0.581  Sum_probs=26.9

Q ss_pred             CCcccccCCcCCCCCce-EEeCCC-----CcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEV-KELLCH-----HKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~-~~lpC~-----H~FH~~Ci~~Wl~~  109 (114)
                      +..|-||+..=++.... =+-||.     |-.|..||..|+..
T Consensus        20 eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDE   62 (293)
T KOG3053|consen   20 ERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDE   62 (293)
T ss_pred             ceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhH
Confidence            67899999985544321 233654     88999999999965

>KOG0269|consensus

Probab=87.15  E-value=0.52  Score=38.26  Aligned_cols=40  Identities=25%  Similarity=0.581  Sum_probs=28.8

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|.+|-..+. |.. .-.+ |+|.-|.+|+.+|+....-||
T Consensus       779 ~~~CtVC~~vi~-G~~-~~c~~C~H~gH~sh~~sw~~~~s~ca  819 (839)
T KOG0269|consen  779 SAKCTVCDLVIR-GVD-VWCQVCGHGGHDSHLKSWFFKASPCA  819 (839)
T ss_pred             hcCceeecceee-eeE-eecccccccccHHHHHHHHhcCCCCc
Confidence            347888876653 211 2223 999999999999999877665

>KOG1001|consensus

Probab=87.03  E-value=0.46  Score=38.33  Aligned_cols=32  Identities=28%  Similarity=0.547  Sum_probs=26.9

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ..|.||++    .+.....+|+|.|+..|+..-+..
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~  486 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQ  486 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhcccc
Confidence            68999999    456678899999999999887654

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=86.80  E-value=0.39  Score=23.80  Aligned_cols=25  Identities=24%  Similarity=0.563  Sum_probs=17.1

Q ss_pred             cccccCCcCCCCCc-------eEEeC-CCCccc
Q psy16979         75 QCVICLAPFQPGEE-------VKELL-CHHKFH   99 (114)
Q Consensus        75 ~C~ICl~~~~~~~~-------~~~lp-C~H~FH   99 (114)
                      .|+-|-..|...+.       ..+.| |+|+|.
T Consensus         4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~   36 (37)
T PF13719_consen    4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR   36 (37)
T ss_pred             ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence            58888888875442       34445 999986

>KOG1812|consensus

Probab=86.07  E-value=0.37  Score=36.25  Aligned_cols=41  Identities=24%  Similarity=0.457  Sum_probs=30.1

Q ss_pred             CCcccccCCcCCCCCce--EEeCCCCcccHHhHHHHHhCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEV--KELLCHHKFHSECLEPWLRERQHC  113 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~--~~lpC~H~FH~~Ci~~Wl~~~~~C  113 (114)
                      -..|++|.-.++.....  .+..|+|.|+..|...|...+..|
T Consensus       306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~  348 (384)
T KOG1812|consen  306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGEC  348 (384)
T ss_pred             cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccc
Confidence            45799998887765533  333499999999999997765543

>KOG1829|consensus

Probab=85.24  E-value=0.34  Score=38.25  Aligned_cols=39  Identities=26%  Similarity=0.636  Sum_probs=23.8

Q ss_pred             CCcccccCCc-----CCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAP-----FQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~-----~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|.||-..     |+.....+...|+++||..|+..   .+..||
T Consensus       511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CP  554 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCP  554 (580)
T ss_pred             eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCC
Confidence            6778888433     33222234445999999999543   233377

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=85.03  E-value=0.83  Score=31.31  Aligned_cols=36  Identities=31%  Similarity=0.742  Sum_probs=25.2

Q ss_pred             CCcccccCCc-----CCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAP-----FQPGEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~-----~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|-||-++     |.. +.+.+.+ |+-+||+.|..+     ..||
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~Cp  193 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCP  193 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCC
Confidence            5788899864     223 2455555 999999999652     5687

>KOG1729|consensus

Probab=84.98  E-value=0.11  Score=37.54  Aligned_cols=38  Identities=24%  Similarity=0.506  Sum_probs=31.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER  110 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~  110 (114)
                      ...|.+|+++|..+.....+-|.-+||..|+..|++..
T Consensus       214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (288)
T KOG1729|consen  214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG  251 (288)
T ss_pred             ceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence            34899999999876666666666699999999999763

>KOG1571|consensus

Probab=84.29  E-value=1.2  Score=33.18  Aligned_cols=36  Identities=25%  Similarity=0.524  Sum_probs=25.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .+.|.||+++...   ..-+||||.=+  |..-- +...+||
T Consensus       305 p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CP  340 (355)
T KOG1571|consen  305 PDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCP  340 (355)
T ss_pred             CCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCc
Confidence            6789999999664   68889999855  54332 2233477

>KOG2817|consensus

Probab=84.21  E-value=1.1  Score=33.68  Aligned_cols=39  Identities=13%  Similarity=0.198  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ  111 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~  111 (114)
                      ...|||=.+.-.+.+.-..|.|||+.-++=|.+-.+...
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~  372 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGS  372 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCC
Confidence            578999999998889999999999999999998666533

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

Probab=82.03  E-value=1.1  Score=20.88  Aligned_cols=29  Identities=28%  Similarity=0.580  Sum_probs=11.1

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhH
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECL  103 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci  103 (114)
                      .|.+|.+....+....-..|.-.+|..|+
T Consensus         2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca   30 (30)
T PF07649_consen    2 RCDACGKPIDGGWFYRCSECDFDLHEECA   30 (30)
T ss_dssp             --TTTS----S--EEE-TTT-----HHHH
T ss_pred             cCCcCCCcCCCCceEECccCCCccChhcC
Confidence            58889988766334455569999999986

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

>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins

Probab=81.85  E-value=3.4  Score=22.95  Aligned_cols=40  Identities=10%  Similarity=0.159  Sum_probs=27.8

Q ss_pred             ceeeCCCCCCCCcccccCCcCCC--CCceEEeC-CCCcccHHhH
Q psy16979         63 SIAFPADEAPDAQCVICLAPFQP--GEEVKELL-CHHKFHSECL  103 (114)
Q Consensus        63 ~~~~~~~~~~~~~C~ICl~~~~~--~~~~~~lp-C~H~FH~~Ci  103 (114)
                      ...+.+... ...|+.|-...+.  .......| ||+.+|++-.
T Consensus        19 v~~v~~~~T-Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n   61 (69)
T PF07282_consen   19 VVEVDEAYT-SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN   61 (69)
T ss_pred             EEEECCCCC-ccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence            334443332 5689999999887  44566667 9999998843

More information about these proteins can be found at Protein of the Month: Transposase [].

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

Probab=81.49  E-value=2.6  Score=31.52  Aligned_cols=39  Identities=23%  Similarity=0.548  Sum_probs=28.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHH--HhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPW--LRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~W--l~~~~~CP  114 (114)
                      +..|-||-+.+.   .+.++||+|..+--|-.+-  |-.+..||
T Consensus        61 n~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~  101 (493)
T COG5236          61 NMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCP  101 (493)
T ss_pred             cceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCC
Confidence            677999998764   5588999999999997652  23345564

>KOG0825|consensus

Probab=80.97  E-value=1.2  Score=36.64  Aligned_cols=37  Identities=11%  Similarity=0.169  Sum_probs=28.9

Q ss_pred             CCcccccCCcCCCCC-ceEEeC---CCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGE-EVKELL---CHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-~~~~lp---C~H~FH~~Ci~~Wl~~  109 (114)
                      ...|.||.-++...+ ..-.+|   |.|.|+..||..|+.+
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~Dq  136 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQ  136 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHH
Confidence            577888888887632 334455   9999999999999964

>KOG4739|consensus

Probab=80.58  E-value=1.1  Score=31.47  Aligned_cols=30  Identities=23%  Similarity=0.505  Sum_probs=22.0

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEP  105 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~  105 (114)
                      .|--|.--=. ++....+.|.|+|+..|..-
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~   34 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKA   34 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhccc
Confidence            4666655433 66778888999999999754

>KOG4275|consensus

Probab=80.13  E-value=0.69  Score=33.63  Aligned_cols=28  Identities=25%  Similarity=0.529  Sum_probs=20.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECL  103 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci  103 (114)
                      ...|.||++.-.   ....|+|||. =+.+|-
T Consensus       300 ~~LC~ICmDaP~---DCvfLeCGHmVtCt~CG  328 (350)
T KOG4275|consen  300 RRLCAICMDAPR---DCVFLECGHMVTCTKCG  328 (350)
T ss_pred             HHHHHHHhcCCc---ceEEeecCcEEeehhhc
Confidence            467999998743   4588999994 466664

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	114
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-06
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-05
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		6e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-04
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-04
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		3e-04

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 54  STRRFGQIPSIAFPADEAPDAQ--CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ 111
           S+   GQ+PS  F  +     Q  CV+C+  F+  + ++ L C+H+FH++C++ WL+  +
Sbjct: 2   SSGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANR 61
Query: 112 HCP 114
            CP
Sbjct: 62  TCP 64

>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 = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 24/40 (60%)
Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +C +C   +  GE V++L C+H FH  C+ PWL +   CP
Sbjct: 17  ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCP 56

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 17/40 (42%), Positives = 25/40 (62%)
Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +C ICL+  + GE+V+ L C H FH  C++ WL   + CP
Sbjct: 16  KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCP 55

>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 = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 52  PFSTRRFGQIPSIAFPADEAPDAQ---CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR 108
           P S      +P I    D     Q   C IC + +  G+   EL CHH FH  C+  WL+
Sbjct: 16  PASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ 75
Query: 109 ERQHCP 114
           +   CP
Sbjct: 76  KSGTCP 81

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 74  AQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP 114
            +C +CLA  + GEE + L  C H FH+EC++ WL     CP
Sbjct: 6   VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCP 47

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 23/39 (58%)
Query: 76  CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           C +CL  F+P +E+    C H FH +CL  WL  R+ CP
Sbjct: 18  CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCP 56

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	114
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	4e-16
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	7e-16
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-15
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	1e-15
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-15
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-13
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-11
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-10
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	6e-10
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	9e-10
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-09
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-08
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	1e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-06
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-05
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	3e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-05
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	5e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-04
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-04
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-04
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	4e-04
3nw0_A	238	Non-structural maintenance of chromosomes element	4e-04
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	7e-04

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

 Score = 66.2 bits (162), Expect = 4e-16
 Identities = 18/57 (31%), Positives = 34/57 (59%), Gaps = 2/57 (3%)

Query: 60  QIPSIAFPADEAP--DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           Q+PS  F  +        CV+C+  F+  + ++ L C+H+FH++C++ WL+  + CP
Sbjct: 8   QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCP 64

>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 = 65.5 bits (160), Expect = 7e-16
 Identities = 18/47 (38%), Positives = 28/47 (59%)

Query: 68  ADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
            +E  + +C ICL+  + GE+V+ L C H FH  C++ WL   + CP
Sbjct: 9   TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCP 55

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

 Score = 65.4 bits (160), Expect = 1e-15
 Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 3/57 (5%)

Query: 61  IPSIAFPADEAP---DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +P I    D      +  C IC + +  G+   EL CHH FH  C+  WL++   CP
Sbjct: 25  LPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCP 81

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

 Score = 64.8 bits (158), Expect = 1e-15
 Identities = 17/46 (36%), Positives = 24/46 (52%)

Query: 69  DEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +      C +CL  F+P +E+    C H FH +CL  WL  R+ CP
Sbjct: 11  ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCP 56

>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 = 65.1 bits (159), Expect = 1e-15
 Identities = 16/42 (38%), Positives = 24/42 (57%)

Query: 73  DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
             +C +C   +  GE V++L C+H FH  C+ PWL +   CP
Sbjct: 15  GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCP 56

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

 Score = 59.1 bits (144), Expect = 1e-13
 Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)

Query: 73  DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP 114
             +C +CLA  + GEE + L  C H FH+EC++ WL     CP
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCP 47

>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 = 53.4 bits (129), Expect = 2e-11
 Identities = 14/43 (32%), Positives = 16/43 (37%), Gaps = 1/43 (2%)

Query: 73  DAQCVICLAPFQPGEE-VKELLCHHKFHSECLEPWLRERQHCP 114
            + C ICL            L C H  H  C E  L+E   CP
Sbjct: 5   SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCP 47

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

 Score = 50.7 bits (121), Expect = 4e-10
 Identities = 16/60 (26%), Positives = 22/60 (36%), Gaps = 4/60 (6%)

Query: 59  GQIPSIAFPADEAPDAQCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           G   S       +    C IC+  +    Q G  +    C H F S+CL   L+    CP
Sbjct: 1   GSSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 60

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

 Score = 50.7 bits (121), Expect = 6e-10
 Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 1/43 (2%)

Query: 73  DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP 114
              C+ C A  +  + V     C+H FH+ C+  W+++   CP
Sbjct: 26  MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCP 68

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

 Score = 49.7 bits (119), Expect = 9e-10
 Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 4/42 (9%)

Query: 73  DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           + +C IC+     G     L C H F  +C++ W    ++CP
Sbjct: 15  EEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCP 52

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

 Score = 49.7 bits (119), Expect = 1e-09
 Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

Query: 71  APDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
               +C ICL           L C H F   C+  W+R+   CP
Sbjct: 3   TVAERCPICLEDP--SNYSMALPCLHAFCYVCITRWIRQNPTCP 44

>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 = 47.1 bits (112), Expect = 1e-08
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 68  ADEAPDAQCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
              +    C IC+  +    Q G  +    C H F S+CL   L+    CP
Sbjct: 5   LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 55

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

 Score = 45.1 bits (107), Expect = 6e-08
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 4/44 (9%)

Query: 75  QCVICLAPF----QPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
            C IC+  +    Q G  +    C H F S+CL   L+    CP
Sbjct: 5   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 48

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

 Score = 42.1 bits (99), Expect = 1e-06
 Identities = 12/46 (26%), Positives = 14/46 (30%), Gaps = 3/46 (6%)

Query: 69  DEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +E    +C IC   FQ         C H F   C     R    C 
Sbjct: 11  EEEIPFRCFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCY 53

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

 Score = 43.3 bits (101), Expect = 3e-06
 Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 7/63 (11%)

Query: 51  APFSTRRFGQIPSIAFPADEAPDAQCVICLAPFQPGEEVKELL-----CHHKFHSECLEP 105
             F    +   P +    +E  + +C IC A    G EV  +      C  K H+ CLE 
Sbjct: 288 CYFPMPDWSDGPKLDEEDNE--ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEE 345

Query: 106 WLR 108
           W +
Sbjct: 346 WFK 348

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

 Score = 40.1 bits (94), Expect = 6e-06
 Identities = 10/43 (23%), Positives = 12/43 (27%), Gaps = 2/43 (4%)

Query: 72  PDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           P   C IC       +      C H F   C+         CP
Sbjct: 14  PYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCP 54

>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 = 40.6 bits (94), Expect = 1e-05
 Identities = 15/53 (28%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 63  SIAFPADEAPDAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP 114
           +I          +C    A     E       C+H FH  C+  WL+ RQ CP
Sbjct: 41  AICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 93

>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 = 39.4 bits (91), Expect = 2e-05
 Identities = 19/94 (20%), Positives = 31/94 (32%), Gaps = 17/94 (18%)

Query: 38  DALSLDSELSPPRAPFSTRRFG--QIPSIAFPADEAPDAQCVICLAPFQPGEEVKE---- 91
           + L          +    +RF   +  ++A  A +     C IC           +    
Sbjct: 11  ENLYFQGGGRGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQA 70

Query: 92  -----------LLCHHKFHSECLEPWLRERQHCP 114
                       +C+H FH  C+  WL+ RQ CP
Sbjct: 71  SATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 104

>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 = 39.4 bits (91), Expect = 3e-05
 Identities = 12/59 (20%), Positives = 16/59 (27%), Gaps = 15/59 (25%)

Query: 71  APDAQCVICLAPF---------------QPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           AP+  C+IC+                   P    +   C H FH  CL           
Sbjct: 23  APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDG 81

>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 = 39.0 bits (91), Expect = 3e-05
 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 2/43 (4%)

Query: 72  PDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           P   CV+C   F   +    + C H F   C+  +L   ++CP
Sbjct: 14  PHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCP 54

>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 = 37.6 bits (87), Expect = 5e-05
 Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 4/42 (9%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ--HCP 114
            C IC +    G+  +   C  + H  C+  + +      CP
Sbjct: 17  ICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCP 56

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

 Score = 36.7 bits (85), Expect = 1e-04
 Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 3/47 (6%)

Query: 68  ADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           A      +C ICL           L C H F   C++      + C 
Sbjct: 10  APSLTVPECAICLQTCV---HPVSLPCKHVFCYLCVKGASWLGKRCA 53

>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 = 37.2 bits (86), Expect = 1e-04
 Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 3/41 (7%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP 114
           +C IC+   +  +      C       C+  WL E R  CP
Sbjct: 24  RCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQRAQCP 62

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

 Score = 37.7 bits (87), Expect = 1e-04
 Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 73  DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           + QC+IC   F    E   L C H F S C+  W++ +  CP
Sbjct: 64  ELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECP 102

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

 Score = 37.8 bits (87), Expect = 1e-04
 Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 4/51 (7%)

Query: 68  ADEAPDAQCVICLAPFQPGEEVKE----LLCHHKFHSECLEPWLRERQHCP 114
           A  +    C IC+  +    +         C H F S+CL   L+    CP
Sbjct: 2   AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 52

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

 Score = 36.0 bits (83), Expect = 4e-04
 Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 4/50 (8%)

Query: 66  FPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP 114
           FPA       C IC        +  E  C H F   C+   L+    +CP
Sbjct: 16  FPAHFVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCP 62

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

 Score = 37.0 bits (85), Expect = 4e-04
 Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 4/42 (9%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH--CP 114
            C IC +    G+  +   C  + H  C+  + +      CP
Sbjct: 182 ICNICHSLLIQGQSCET--CGIRMHLPCVAKYFQSNAEPRCP 221

>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 = 36.7 bits (84), Expect = 7e-04
 Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 4/47 (8%)

Query: 69  DEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP 114
             +    C IC    +   +VK   C H   + CL  W     Q CP
Sbjct: 328 MGSTFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCP 371

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	114
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.82
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.75
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.67
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.64
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.64
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.62
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.62
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.59
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.58
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.57
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.51
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.5
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.49
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.48
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.47
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.46
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.45
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.45
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.43
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.42
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.41
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.39
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.37
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.36
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.35
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.33
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.32
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.32
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.3
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.27
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.27
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.27
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.26
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.25
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.25
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.24
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.21
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.21
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.2
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.2
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.16
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.14
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.12
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.1
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.09
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.08
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.07
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.03
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.01
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.98
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.98
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.96
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.92
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.9
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.89
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.87
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.85
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.84
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.83
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.78
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.76
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.76
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.65
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.62
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.51
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.48
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.41
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.34
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.22
3nw0_A	238	Non-structural maintenance of chromosomes element	98.12
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.01
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.91
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.34
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	93.8
1we9_A	64	PHD finger family protein; structural genomics, PH	92.92
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	92.33
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	92.08
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	92.01
2yt5_A	66	Metal-response element-binding transcription facto	91.48
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	91.34
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	90.75
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	90.67
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	89.7
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	89.42
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	88.91
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	88.76
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	88.68
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	88.47
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	87.18
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	86.25
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	86.2
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	85.65
2o35_A	105	Hypothetical protein DUF1244; helix bundle, struct	84.8
3fyb_A	104	Protein of unknown function (DUF1244); hydrocar de	84.71
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	84.3
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	84.28
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	83.99
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	83.96
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	83.48
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	83.23
1wem_A	76	Death associated transcription factor 1; structura	83.07
1zbd_B	134	Rabphilin-3A; G protein, effector, RABCDR, synapti	83.07
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	82.94
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	82.93
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	82.56
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	82.18

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

Probab=99.82  E-value=2.6e-20  Score=111.60  Aligned_cols=67  Identities=31%  Similarity=0.749  Sum_probs=60.0

Q ss_pred             CCCCCCCHHHhcCCCceeeCCCCCC---CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         48 PPRAPFSTRRFGQIPSIAFPADEAP---DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        48 ~~~~~~~~~~i~~l~~~~~~~~~~~---~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...++++++.+++||...+......   +..|+||+++|..++.++.|||+|.||..||..||+.+.+||
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP   81 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCP   81 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCT
T ss_pred             cCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCc
Confidence            3578999999999999988765432   678999999999999999999999999999999999999998

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

Probab=99.75  E-value=2.4e-19  Score=103.59  Aligned_cols=60  Identities=32%  Similarity=0.898  Sum_probs=51.4

Q ss_pred             HHHhcCCCceeeCCCCC--CCCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         55 TRRFGQIPSIAFPADEA--PDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        55 ~~~i~~l~~~~~~~~~~--~~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...+++||...+.....  ++..|+||+++|..++.++.|||+|.||..||.+||+.+.+||
T Consensus         3 ~~~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP   64 (75)
T 1x4j_A            3 SGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCP   64 (75)
T ss_dssp             CCCCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCT
T ss_pred             HhhHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCc
Confidence            34567888888765432  2678999999999999999999999999999999999999998

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

Probab=99.67  E-value=3.6e-17  Score=88.92  Aligned_cols=42  Identities=43%  Similarity=1.068  Sum_probs=39.7

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..++.+..+| |+|.||..||.+|++.+.+||
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP   47 (55)
T 1iym_A            5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCP   47 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCS
T ss_pred             CCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCc
Confidence            678999999999999889998 999999999999999999998

>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=99.64  E-value=1.4e-16  Score=90.38  Aligned_cols=42  Identities=40%  Similarity=1.081  Sum_probs=39.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..++.++.+||+|.||..||.+|++.+.+||
T Consensus        14 ~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP   55 (69)
T 2kiz_A           14 EEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCP   55 (69)
T ss_dssp             CCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCT
T ss_pred             CCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCc
Confidence            678999999999888899999999999999999999988998

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

Probab=99.64  E-value=1.5e-16  Score=91.37  Aligned_cols=42  Identities=40%  Similarity=1.013  Sum_probs=39.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..+..++.|||+|.||..||.+|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP   56 (74)
T 2ep4_A           15 HELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCP   56 (74)
T ss_dssp             SCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCT
T ss_pred             CCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCC
Confidence            678999999999998999999999999999999999988998

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

Probab=99.62  E-value=3.5e-16  Score=91.62  Aligned_cols=42  Identities=29%  Similarity=0.764  Sum_probs=35.2

Q ss_pred             CCcccccCCcCCC-----------CCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQP-----------GEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~-----------~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++.|+||+++|..           ++.++.++ |+|.||..||.+||+.+++||
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP   68 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCP   68 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCT
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCC
Confidence            5678888888854           44566665 999999999999999999998

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

Probab=99.62  E-value=3.1e-16  Score=90.91  Aligned_cols=42  Identities=38%  Similarity=1.075  Sum_probs=39.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..+..++.|||+|.||..||.+|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP   56 (78)
T 2ect_A           15 GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCP   56 (78)
T ss_dssp             SCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCT
T ss_pred             CCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCc
Confidence            678999999999988889999999999999999999999998

>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=99.59  E-value=9e-16  Score=83.24  Aligned_cols=42  Identities=33%  Similarity=0.741  Sum_probs=37.5

Q ss_pred             CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..++ .++.+||+|.||..||.+|++.+.+||
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP   47 (55)
T 2ecm_A            5 SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCP   47 (55)
T ss_dssp             CCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCT
T ss_pred             CCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCC
Confidence            678999999997654 578889999999999999999989998

>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=99.58  E-value=8.6e-16  Score=94.98  Aligned_cols=42  Identities=26%  Similarity=0.653  Sum_probs=35.0

Q ss_pred             CCcccccCCcCCCCC---------------ceEEeCCCCcccHHhHHHHH-----hCCCCCC
Q psy16979         73 DAQCVICLAPFQPGE---------------EVKELLCHHKFHSECLEPWL-----RERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~---------------~~~~lpC~H~FH~~Ci~~Wl-----~~~~~CP  114 (114)
                      ++.|+||++.|..+.               .++.++|+|.||..||..||     +.+.+||
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP   86 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP   86 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCT
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCC
Confidence            578999999997643               34577899999999999999     4567898

>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=99.57  E-value=1.9e-15  Score=92.76  Aligned_cols=42  Identities=36%  Similarity=0.767  Sum_probs=37.2

Q ss_pred             CCcccccCCcCCCC---------------CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPG---------------EEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~---------------~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++.|+||++.|...               ..++.++|+|.||..||.+||+.+.+||
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP   93 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP   93 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCS
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCc
Confidence            67899999999854               1367789999999999999999999998

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

Probab=99.51  E-value=1.1e-14  Score=82.20  Aligned_cols=42  Identities=29%  Similarity=0.668  Sum_probs=37.0

Q ss_pred             CCcccccCCcCCCC----CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPG----EEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~----~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|...    ..+..++|+|.||..||..|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP   60 (69)
T 2ea6_A           15 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP   60 (69)
T ss_dssp             CCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCT
T ss_pred             CCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCC
Confidence            67899999998753    4558889999999999999999988998

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

Probab=99.50  E-value=4.8e-15  Score=84.22  Aligned_cols=42  Identities=31%  Similarity=0.756  Sum_probs=37.3

Q ss_pred             CCcccccCCcCCC----CCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQP----GEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~----~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..    +..++.++|+|.||..||.+|++.+.+||
T Consensus        10 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP   55 (71)
T 3ng2_A           10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP   55 (71)
T ss_dssp             CCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCT
T ss_pred             CCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCC
Confidence            6789999999875    35668889999999999999999999998

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

Probab=99.49  E-value=6.5e-14  Score=77.91  Aligned_cols=39  Identities=28%  Similarity=0.596  Sum_probs=33.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh---CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR---ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~---~~~~CP  114 (114)
                      +..|+||++.|.+.   +.+||+|.||..||.+|++   .+..||
T Consensus        20 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP   61 (63)
T 2ysj_A           20 EVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCP   61 (63)
T ss_dssp             CCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCS
T ss_pred             CCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCc
Confidence            67899999998753   6679999999999999998   456798

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

Probab=99.48  E-value=1.8e-14  Score=84.22  Aligned_cols=41  Identities=27%  Similarity=0.696  Sum_probs=35.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCC-----CcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      +..|.||+++|..++.+ ++||+     |.||..||++||+.+  .+||
T Consensus        15 ~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~Cp   62 (80)
T 2d8s_A           15 QDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCE   62 (80)
T ss_dssp             SCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCS
T ss_pred             CCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCC
Confidence            67899999999887765 58997     999999999999875  4787

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

Probab=99.47  E-value=9.5e-15  Score=81.28  Aligned_cols=42  Identities=29%  Similarity=0.645  Sum_probs=36.9

Q ss_pred             CCcccccCCcCCCC----CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPG----EEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~----~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+...    ..+..++|+|.||..||.+|++.+.+||
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP   48 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP   48 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCT
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCC
Confidence            56899999998753    4568889999999999999999988998

>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=99.46  E-value=5.1e-15  Score=92.18  Aligned_cols=42  Identities=38%  Similarity=0.820  Sum_probs=0.7

Q ss_pred             CCcccccCCcCCCC-------------C--ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPG-------------E--EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~-------------~--~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++.|+||+++|...             +  .+..++|+|.||..||.+||+.+++||
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP  104 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP  104 (117)
T ss_dssp             C--------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCC
Confidence            67999999999752             2  334458999999999999999999998

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

Probab=99.45  E-value=2.7e-14  Score=81.02  Aligned_cols=38  Identities=29%  Similarity=0.877  Sum_probs=35.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.+..    +.+||+|.||..||.+|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP   52 (70)
T 2ecn_A           15 EEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCP   52 (70)
T ss_dssp             CCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCCCSSCH
T ss_pred             CCCCeeCCcCccC----cccCCCCcccHHHHHHHHHCcCcCC
Confidence            6789999999875    7789999999999999999988998

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

Probab=99.45  E-value=3e-14  Score=80.37  Aligned_cols=40  Identities=33%  Similarity=0.787  Sum_probs=35.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+..  .++.+||+|.||..||.+|++.+.+||
T Consensus         5 ~~~C~IC~~~~~~--~~~~~~C~H~fc~~Ci~~~~~~~~~CP   44 (68)
T 1chc_A            5 AERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCP   44 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTT
T ss_pred             CCCCeeCCccccC--CcEecCCCCeeHHHHHHHHHhCcCcCc
Confidence            5689999999863  458889999999999999999989998

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

Probab=99.43  E-value=1.8e-13  Score=80.61  Aligned_cols=42  Identities=33%  Similarity=0.699  Sum_probs=37.1

Q ss_pred             CCcccccCCcCCCCCc-eEEeCCCCcccHHhHHHHHhCC---CCCC
Q psy16979         73 DAQCVICLAPFQPGEE-VKELLCHHKFHSECLEPWLRER---QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~-~~~lpC~H~FH~~Ci~~Wl~~~---~~CP  114 (114)
                      ...|+||++.|..++. .+.++|+|.||..||..|++.+   ..||
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP   60 (88)
T 2ct2_A           15 VLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCP   60 (88)
T ss_dssp             CCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCT
T ss_pred             CCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCC
Confidence            6789999999988764 6788999999999999999875   6788

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

Probab=99.42  E-value=5.8e-14  Score=79.96  Aligned_cols=39  Identities=26%  Similarity=0.498  Sum_probs=34.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+..   .+.+||+|.||..||..|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~CP   53 (71)
T 2d8t_A           15 VPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWLGKRCA   53 (71)
T ss_dssp             CCBCSSSSSBCSS---EEEETTTEEEEHHHHHHCTTCSSBCS
T ss_pred             CCCCccCCcccCC---CEEccCCCHHHHHHHHHHHHCCCcCc
Confidence            6789999999864   37789999999999999999988898

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

Probab=99.41  E-value=1.7e-13  Score=74.82  Aligned_cols=39  Identities=28%  Similarity=0.801  Sum_probs=33.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh---CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR---ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~---~~~~CP  114 (114)
                      ...|+||++.+...   +.++|+|.||..||.+|++   .+.+||
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP   56 (58)
T 2ecj_A           15 EASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCP   56 (58)
T ss_dssp             CCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCS
T ss_pred             CCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCC
Confidence            67899999999765   5589999999999999954   566798

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

Probab=99.39  E-value=2.2e-13  Score=77.75  Aligned_cols=40  Identities=23%  Similarity=0.492  Sum_probs=34.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.+.+  .+..++|+|.||..||..|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP   54 (72)
T 2djb_A           15 YILCSICKGYLID--ATTITECLHTFCKSCIVRHFYYSNRCP   54 (72)
T ss_dssp             GGSCTTTSSCCSS--CEECSSSCCEECHHHHHHHHHHCSSCT
T ss_pred             CCCCCCCChHHHC--cCEECCCCCHHHHHHHHHHHHcCCcCC
Confidence            6789999999875  344449999999999999999888898

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

Probab=99.37  E-value=6.6e-13  Score=75.69  Aligned_cols=39  Identities=28%  Similarity=0.595  Sum_probs=33.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh---CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR---ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~---~~~~CP  114 (114)
                      ...|+||++.+..   .+.++|+|.||..||..|++   .+..||
T Consensus        20 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP   61 (73)
T 2ysl_A           20 EVICPICLDILQK---PVTIDCGHNFCLKCITQIGETSCGFFKCP   61 (73)
T ss_dssp             CCBCTTTCSBCSS---EEECTTCCEEEHHHHHHHCSSSCSCCCCS
T ss_pred             CCEeccCCcccCC---eEEcCCCChhhHHHHHHHHHcCCCCCCCC
Confidence            6789999999874   36679999999999999997   355788

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

Probab=99.36  E-value=2.6e-13  Score=86.55  Aligned_cols=39  Identities=36%  Similarity=0.940  Sum_probs=34.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|..   .+.+||||.||..||..|++.+.+||
T Consensus        53 ~~~C~iC~~~~~~---~~~~~CgH~fc~~Ci~~~~~~~~~CP   91 (138)
T 4ayc_A           53 ELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECP   91 (138)
T ss_dssp             HSBCTTTCSBCSS---EEEETTSCEEEHHHHHHHTTTCSBCT
T ss_pred             cCCCcccCcccCC---ceECCCCCCccHHHHHHHHHcCCcCC
Confidence            4579999999864   36789999999999999999999998

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

Probab=99.35  E-value=5.4e-13  Score=77.68  Aligned_cols=39  Identities=28%  Similarity=0.574  Sum_probs=34.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|..   .+++||+|.||..||..|++...+||
T Consensus        15 ~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~CP   53 (81)
T 2csy_A           15 PFRCFICRQAFQN---PVVTKCRHYFCESCALEHFRATPRCY   53 (81)
T ss_dssp             CSBCSSSCSBCCS---EEECTTSCEEEHHHHHHHHHHCSBCS
T ss_pred             CCCCcCCCchhcC---eeEccCCCHhHHHHHHHHHHCCCcCC
Confidence            5689999999864   35689999999999999999888898

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

Probab=99.35  E-value=2.9e-13  Score=85.04  Aligned_cols=42  Identities=29%  Similarity=0.668  Sum_probs=37.4

Q ss_pred             CCcccccCCcCCCC----CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPG----EEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~----~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|.+.    ..++.++|||.||..||.+||+.+.+||
T Consensus         7 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP   52 (133)
T 4ap4_A            7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP   52 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCT
T ss_pred             CCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCC
Confidence            67899999998753    5568899999999999999999999998

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

Probab=99.33  E-value=7.6e-13  Score=74.21  Aligned_cols=39  Identities=23%  Similarity=0.579  Sum_probs=33.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP  114 (114)
                      ...|+||++.+...   ..++|+|.||..||.+|++ .+.+||
T Consensus        15 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP   54 (66)
T 2ecy_A           15 KYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCT   54 (66)
T ss_dssp             CEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCT
T ss_pred             CCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCC
Confidence            67899999998755   3479999999999999995 466798

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

Probab=99.32  E-value=8.9e-13  Score=75.61  Aligned_cols=39  Identities=26%  Similarity=0.664  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      +..|+||++.|...   +.+| |+|.||..||..|++.+  .+||
T Consensus        15 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP   56 (74)
T 2yur_A           15 ELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCP   56 (74)
T ss_dssp             GGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCS
T ss_pred             CCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCC
Confidence            67899999999754   6689 99999999999999865  5788

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

Probab=99.32  E-value=6.6e-13  Score=76.29  Aligned_cols=40  Identities=23%  Similarity=0.673  Sum_probs=34.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      .+.|+||++.+..++...  .|+|.||..||.+||+.+  .+||
T Consensus        15 i~~C~IC~~~i~~g~~C~--~C~h~fH~~Ci~kWl~~~~~~~CP   56 (74)
T 2ct0_A           15 VKICNICHSLLIQGQSCE--TCGIRMHLPCVAKYFQSNAEPRCP   56 (74)
T ss_dssp             SCBCSSSCCBCSSSEECS--SSCCEECHHHHHHHSTTCSSCCCT
T ss_pred             CCcCcchhhHcccCCccC--CCCchhhHHHHHHHHHhcCCCCCC
Confidence            578999999998774332  799999999999999987  7898

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

Probab=99.30  E-value=2.1e-12  Score=74.59  Aligned_cols=39  Identities=18%  Similarity=0.477  Sum_probs=34.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++.|.+.   +.++|||.||+.||..|++. +.+||
T Consensus         8 ~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP   47 (78)
T 1t1h_A            8 YFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCP   47 (78)
T ss_dssp             SSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCT
T ss_pred             cCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCC
Confidence            67899999998753   66799999999999999987 77898

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

Probab=99.27  E-value=4.3e-12  Score=73.98  Aligned_cols=39  Identities=26%  Similarity=0.681  Sum_probs=34.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC------CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE------RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~------~~~CP  114 (114)
                      +..|+||++.|...   ..+||+|.||..||..|++.      ...||
T Consensus        19 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP   63 (85)
T 2ecw_A           19 EVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCP   63 (85)
T ss_dssp             TTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCT
T ss_pred             CCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCC
Confidence            67899999998754   57899999999999999987      56787

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

Probab=99.27  E-value=2.3e-12  Score=77.66  Aligned_cols=40  Identities=28%  Similarity=0.667  Sum_probs=34.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|..  .+..++|||.||..||..|++.+.+||
T Consensus        22 ~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP   61 (99)
T 2y43_A           22 LLRCGICFEYFNI--AMIIPQCSHNYCSLCIRKFLSYKTQCP   61 (99)
T ss_dssp             HTBCTTTCSBCSS--EEECTTTCCEEEHHHHHHHHTTCCBCT
T ss_pred             CCCcccCChhhCC--cCEECCCCCHhhHHHHHHHHHCCCCCC
Confidence            5689999999874  333348999999999999999988998

>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=99.27  E-value=1.6e-12  Score=78.68  Aligned_cols=40  Identities=25%  Similarity=0.660  Sum_probs=34.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC-CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~~CP  114 (114)
                      +..|+||++.|..  .+..++|||.||..||..|++.+ .+||
T Consensus        22 ~~~C~IC~~~~~~--p~~~~~CgH~FC~~Ci~~~~~~~~~~CP   62 (100)
T 3lrq_A           22 VFRCFICMEKLRD--ARLCPHCSKLCCFSCIRRWLTEQRAQCP   62 (100)
T ss_dssp             HTBCTTTCSBCSS--EEECTTTCCEEEHHHHHHHHHHTCSBCT
T ss_pred             CCCCccCCccccC--ccccCCCCChhhHHHHHHHHHHCcCCCC
Confidence            5689999999874  34448999999999999999987 6898

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

Probab=99.26  E-value=1.7e-12  Score=81.46  Aligned_cols=42  Identities=31%  Similarity=0.756  Sum_probs=37.1

Q ss_pred             CCcccccCCcCCC----CCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQP----GEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~----~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|..    +...+.++|+|.||..||.+||+.+.+||
T Consensus        72 ~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP  117 (133)
T 4ap4_A           72 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP  117 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCT
T ss_pred             CCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCC
Confidence            6789999999875    34557889999999999999999999998

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

Probab=99.25  E-value=5.7e-12  Score=73.43  Aligned_cols=39  Identities=31%  Similarity=0.715  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC------CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE------RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~------~~~CP  114 (114)
                      ...|+||++.+...   +.+||+|.||..||..|++.      ...||
T Consensus        19 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP   63 (85)
T 2ecv_A           19 EVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCP   63 (85)
T ss_dssp             CCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCT
T ss_pred             CCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCC
Confidence            67899999998753   56799999999999999987      67788

>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=99.25  E-value=4e-12  Score=77.79  Aligned_cols=40  Identities=28%  Similarity=0.681  Sum_probs=34.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.|.+  .+..++|||.||..||..|++.+.+||
T Consensus        15 ~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~CP   54 (108)
T 2ckl_A           15 HLMCVLCGGYFID--ATTIIECLHSFCKTCIVRYLETSKYCP   54 (108)
T ss_dssp             GTBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHTSCSBCT
T ss_pred             cCCCccCChHHhC--cCEeCCCCChhhHHHHHHHHHhCCcCc
Confidence            5689999999874  344449999999999999999988898

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

Probab=99.24  E-value=1.2e-12  Score=75.63  Aligned_cols=39  Identities=28%  Similarity=0.672  Sum_probs=33.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-------CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-------RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-------~~~CP  114 (114)
                      +..|+||++.|...   +.+||+|.||..||..|++.       ...||
T Consensus        12 ~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP   57 (79)
T 2egp_A           12 EVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCP   57 (79)
T ss_dssp             CCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCS
T ss_pred             CCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCC
Confidence            67899999998754   45899999999999999987       56787

>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=99.21  E-value=6.5e-12  Score=78.59  Aligned_cols=39  Identities=26%  Similarity=0.646  Sum_probs=33.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP  114 (114)
                      ...|+||++.|...   +.+||||.||..||..|++.+. +||
T Consensus        52 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP   91 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCP   91 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCT
T ss_pred             CCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCC
Confidence            56899999999743   6679999999999999998654 798

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

Probab=99.21  E-value=7.6e-12  Score=69.83  Aligned_cols=42  Identities=19%  Similarity=0.543  Sum_probs=33.5

Q ss_pred             CCcccccCC-cCCCCCc-eEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLA-PFQPGEE-VKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~-~~~~~~~-~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++ .+..... ...++|||.||..||.+|+.. +..||
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP   47 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCP   47 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCT
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCC
Confidence            568999999 6765543 356799999999999999865 45688

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

Probab=99.20  E-value=1.1e-11  Score=73.64  Aligned_cols=39  Identities=26%  Similarity=0.664  Sum_probs=33.5

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      +..|+||++.|.+.   +.+| |||.|+..||..|+..+  ..||
T Consensus        13 ~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP   54 (92)
T 3ztg_A           13 ELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCP   54 (92)
T ss_dssp             TTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCT
T ss_pred             CCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCc
Confidence            67899999999754   6789 99999999999999753  5788

>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=99.20  E-value=1.1e-11  Score=81.11  Aligned_cols=40  Identities=30%  Similarity=0.769  Sum_probs=34.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      ...|+||++.|..  .+..+||+|.||..||..|++. +..||
T Consensus        54 ~~~C~IC~~~~~~--p~~~~~CgH~fC~~Ci~~~~~~~~~~CP   94 (165)
T 2ckl_B           54 ELMCPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECP   94 (165)
T ss_dssp             HHBCTTTSSBCSS--EEEETTTCCEEEHHHHHHHHHTTCCBCT
T ss_pred             CCCCcccChHhhC--cCEeCCCCChhHHHHHHHHHHhCcCCCC
Confidence            4589999999874  4444599999999999999997 67798

>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=99.16  E-value=1.4e-11  Score=75.50  Aligned_cols=39  Identities=28%  Similarity=0.663  Sum_probs=33.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC---CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ---HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~---~CP  114 (114)
                      ...|+||++.+...   ..+||||.||..||..|+..+.   +||
T Consensus        21 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP   62 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCP   62 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCT
T ss_pred             CCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCc
Confidence            45799999998754   4579999999999999998754   798

>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=99.14  E-value=1.7e-11  Score=76.13  Aligned_cols=39  Identities=28%  Similarity=0.763  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP  114 (114)
                      ...|+||++.+...   +.++|+|.||..||..|++.+. +||
T Consensus        18 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP   57 (118)
T 3hct_A           18 KYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCP   57 (118)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCT
T ss_pred             CCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCC
Confidence            67899999998744   6689999999999999998765 788

>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=99.12  E-value=3.2e-11  Score=77.95  Aligned_cols=39  Identities=23%  Similarity=0.562  Sum_probs=33.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP  114 (114)
                      ...|+||++.|...   +.+||+|.||..||..|++... +||
T Consensus        78 ~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP  117 (150)
T 1z6u_A           78 SFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCP  117 (150)
T ss_dssp             HTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCT
T ss_pred             CCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCC
Confidence            46899999998743   5689999999999999998765 798

>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=99.10  E-value=3.1e-11  Score=74.61  Aligned_cols=39  Identities=28%  Similarity=0.569  Sum_probs=33.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++.+.+.   +.++|||.||..||..|++. +.+||
T Consensus        23 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP   62 (116)
T 1rmd_A           23 SISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCP   62 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCT
T ss_pred             CCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCC
Confidence            56899999998643   55899999999999999987 67898

>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=99.09  E-value=1.5e-11  Score=75.99  Aligned_cols=39  Identities=26%  Similarity=0.673  Sum_probs=33.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++.|...   +.++|||.||..||..|++. +.+||
T Consensus        15 ~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP   54 (115)
T 3l11_A           15 ECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCP   54 (115)
T ss_dssp             HHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCT
T ss_pred             CCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCC
Confidence            56899999998743   67799999999999999977 56788

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

Probab=99.08  E-value=4.7e-11  Score=70.23  Aligned_cols=39  Identities=8%  Similarity=-0.039  Sum_probs=35.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++-|.+.   ++++|||.|.+.||..||..+.+||
T Consensus        14 ~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP   52 (85)
T 2kr4_A           14 EFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLNSPTDP   52 (85)
T ss_dssp             TTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHCSBCT
T ss_pred             heECcccCchhcCC---eECCCCCEECHHHHHHHHhcCCCCC
Confidence            67899999999865   7789999999999999999888898

>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=99.07  E-value=2e-11  Score=78.18  Aligned_cols=39  Identities=23%  Similarity=0.522  Sum_probs=33.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP  114 (114)
                      ...|+||++.+.+.   +.++|||.||..||..|++... +||
T Consensus        31 ~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP   70 (141)
T 3knv_A           31 KYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCA   70 (141)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECH
T ss_pred             CcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCC
Confidence            67899999998755   5689999999999999998654 787

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

Probab=99.03  E-value=1.8e-10  Score=66.73  Aligned_cols=42  Identities=17%  Similarity=0.481  Sum_probs=32.3

Q ss_pred             CCcccccCCcCCCCCc-eEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEE-VKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~-~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++.+...+. +..++|||.|+..||..|++. ...||
T Consensus        11 ~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP   54 (78)
T 1e4u_A           11 PVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCP   54 (78)
T ss_dssp             CCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCT
T ss_pred             CCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCC
Confidence            6789999999865442 222459999999999999854 45687

>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=99.01  E-value=1.4e-10  Score=70.23  Aligned_cols=39  Identities=8%  Similarity=-0.043  Sum_probs=35.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++-|.+.   +++||||.|.+.||..||..+.+||
T Consensus        29 ~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~~~~cP   67 (100)
T 2kre_A           29 EFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLNSPTDP   67 (100)
T ss_dssp             TTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTSCSBCS
T ss_pred             hhCCcCccCcccCC---eECCCCCEEchHHHHHHHHcCCCCC
Confidence            67899999999855   7789999999999999999888898

>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=98.98  E-value=3.5e-10  Score=68.19  Aligned_cols=39  Identities=13%  Similarity=-0.034  Sum_probs=35.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCC-CcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH-HKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~-H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++-|.+.   ++++|| |.|.+.||..||..+.+||
T Consensus        22 ~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~~~~cP   61 (98)
T 1wgm_A           22 EFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDP   61 (98)
T ss_dssp             TTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCT
T ss_pred             hcCCcCccccccCC---eECCCCCeEECHHHHHHHHHhCCCCC
Confidence            67899999999855   678999 9999999999999888898

>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=98.98  E-value=3e-10  Score=83.10  Aligned_cols=39  Identities=36%  Similarity=0.682  Sum_probs=34.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP  114 (114)
                      ...|+||++.+..   .+.+||||.||..||..|+. .+.+||
T Consensus       332 ~~~C~ICle~~~~---pv~lpCGH~FC~~Ci~~wl~~~~~~CP  371 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCP  371 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEETTCCEECHHHHHHHHHHTCSBCT
T ss_pred             CCCCCccCcCCCC---eEEeCCCChhhHHHHHHHHhcCCCCCC
Confidence            4689999999853   57899999999999999998 678898

>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=98.96  E-value=2.1e-10  Score=68.63  Aligned_cols=39  Identities=18%  Similarity=0.451  Sum_probs=33.0

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCC------CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRER------QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~------~~CP  114 (114)
                      ...|+||++.|.+.   +++| |||.|.+.||..||..+      .+||
T Consensus         7 ~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP   52 (94)
T 2yu4_A            7 GFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCP   52 (94)
T ss_dssp             CCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCC
T ss_pred             EeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCC
Confidence            67899999999854   6676 99999999999999764      4788

>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=98.92  E-value=1.7e-10  Score=71.40  Aligned_cols=37  Identities=27%  Similarity=0.576  Sum_probs=31.6

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|...   +.+ +|||.||..||..|++  ..||
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~--~~CP   59 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG--TGCP   59 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT--TBCS
T ss_pred             CCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc--CCCc
Confidence            56899999998744   556 9999999999999998  6687

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

Probab=98.90  E-value=3e-10  Score=81.80  Aligned_cols=37  Identities=38%  Similarity=0.784  Sum_probs=29.9

Q ss_pred             CCcccccCCcCCCCCce-----EEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEV-----KELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~-----~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ..+|+||++.+.++..+     .-.+|+|.||..||.+||+.
T Consensus       308 ~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs  349 (381)
T 3k1l_B          308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKT  349 (381)
T ss_dssp             CCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHH
T ss_pred             CccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHh
Confidence            67899999999873322     12359999999999999975

>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=98.89  E-value=6.9e-10  Score=66.17  Aligned_cols=37  Identities=19%  Similarity=0.532  Sum_probs=30.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ..+|+||++++...+.+...+|+|.|+.+||..+++.
T Consensus         5 ~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~   41 (94)
T 1wim_A            5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVEL   41 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHH
T ss_pred             CcCCcccCcccccccceEcCCCCCcccHHHHHHHHHH
Confidence            5689999999876655555579999999999999974

>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=98.87  E-value=9.4e-10  Score=61.28  Aligned_cols=39  Identities=23%  Similarity=0.416  Sum_probs=32.9

Q ss_pred             CCcccccCCcCCCCCceEEe--CCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL--LCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l--pC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|.||++...+.   ..+  ||||. |+..|+..|.+.+..||
T Consensus         8 ~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP   49 (64)
T 2vje_A            8 IEPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKRNKPCP   49 (64)
T ss_dssp             GSCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHTTCCCT
T ss_pred             cCCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHcCCcCC
Confidence            56899999986533   444  99999 89999999999888898

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

Probab=98.85  E-value=5e-10  Score=60.76  Aligned_cols=36  Identities=36%  Similarity=0.598  Sum_probs=30.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|...   +.|||+|.||..||..|   ...||
T Consensus         6 ~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~---~~~CP   41 (56)
T 1bor_A            6 FLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCP   41 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCS
T ss_pred             CCCceEeCCccCCe---EEcCCCCcccHHHHccC---CCCCC
Confidence            66899999999854   67899999999999885   55676

>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=98.84  E-value=1.2e-09  Score=71.58  Aligned_cols=39  Identities=28%  Similarity=0.763  Sum_probs=33.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ-HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP  114 (114)
                      ...|+||++.+.+.   +.++|||.|+..||.+|++.+. +||
T Consensus        18 ~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP   57 (170)
T 3hcs_A           18 KYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCP   57 (170)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCT
T ss_pred             CCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCC
Confidence            67899999998754   5589999999999999998644 787

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

Probab=98.83  E-value=1.8e-09  Score=59.43  Aligned_cols=39  Identities=31%  Similarity=0.668  Sum_probs=30.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCC--C---cccHHhHHHHHhC--CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH--H---KFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~--H---~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      ...|.||+++.  ++.+ .+||.  |   .||..||.+|+..  +.+||
T Consensus         6 ~~~CrIC~~~~--~~~l-~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~   51 (60)
T 1vyx_A            6 VPVCWICNEEL--GNER-FRACGCTGELENVHRSCLSTWLTISRNTACQ   51 (60)
T ss_dssp             CCEETTTTEEC--SCCC-CCSCCCSSGGGSCCHHHHHHHHHHHTCSBCT
T ss_pred             CCEeEEeecCC--CCce-ecCcCCCCchhhhHHHHHHHHHHhCCCCccC
Confidence            67899999983  3343 58965  4   9999999999975  56787

>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=98.78  E-value=2.9e-09  Score=74.04  Aligned_cols=39  Identities=10%  Similarity=0.014  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC-CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~~CP  114 (114)
                      ...|+||++.|.+.   +++||||.|++.||..||..+ .+||
T Consensus       208 ~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP  247 (281)
T 2c2l_A          208 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNP  247 (281)
T ss_dssp             TTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCT
T ss_pred             ccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCc
Confidence            67899999999855   678999999999999999864 4598

>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=98.76  E-value=3.2e-09  Score=58.89  Aligned_cols=41  Identities=17%  Similarity=0.318  Sum_probs=32.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|.||++...+. .+..+||||. |+..|+..|.+.+..||
T Consensus         7 ~~~C~IC~~~~~~~-~~~~~pCgH~~~C~~C~~~~~~~~~~CP   48 (63)
T 2vje_B            7 LKPCSLCEKRPRDG-NIIHGRTGHLVTCFHCARRLKKAGASCP   48 (63)
T ss_dssp             GSBCTTTSSSBSCE-EEEETTEEEEEECHHHHHHHHHTTCBCT
T ss_pred             CCCCcccCCcCCCe-EEEecCCCCHhHHHHHHHHHHHhCCcCC
Confidence            57899999985432 1222399998 99999999998888898

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

Probab=98.76  E-value=1.7e-09  Score=61.81  Aligned_cols=35  Identities=26%  Similarity=0.614  Sum_probs=29.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+.+   ...+||+|. |+..|+..|    ..||
T Consensus        24 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~----~~CP   59 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEAV----DKCP   59 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEETTCCBCCCHHHHTTC----SBCT
T ss_pred             CCCCCCCCCCCCC---EEEcCCCChhHHHHhhhcC----ccCC
Confidence            5689999998753   477899999 999999998    5676

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

Probab=98.65  E-value=1.1e-08  Score=67.73  Aligned_cols=39  Identities=10%  Similarity=0.003  Sum_probs=33.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC-CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~~CP  114 (114)
                      ...|+||++-|.+.   +++||||.|.+.||..||..+ .+||
T Consensus       106 ~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP  145 (179)
T 2f42_A          106 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDP  145 (179)
T ss_dssp             GGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCT
T ss_pred             hhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCC
Confidence            67899999999854   667999999999999999864 4698

>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=98.62  E-value=9.9e-09  Score=56.63  Aligned_cols=38  Identities=16%  Similarity=0.185  Sum_probs=33.3

Q ss_pred             CcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979         74 AQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ..|+||++.+.+.   +.+ ++||.|.+.||.+||+.+.+||
T Consensus         4 ~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~~~~cP   42 (61)
T 2bay_A            4 MLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDP   42 (61)
T ss_dssp             CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCT
T ss_pred             EEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHhCCCCc
Confidence            5799999999843   556 8999999999999999888898

>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=98.51  E-value=5e-08  Score=67.96  Aligned_cols=40  Identities=23%  Similarity=0.657  Sum_probs=33.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC--CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER--QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~--~~CP  114 (114)
                      +..|+||++.|.  +.|+...|||.|++.||..|++.+  .+||
T Consensus       181 el~CPIcl~~f~--DPVts~~CGHsFcR~cI~~~~~~~~~~~CP  222 (267)
T 3htk_C          181 ELTCPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCP  222 (267)
T ss_dssp             CSBCTTTSSBCS--SEEEESSSCCEEEHHHHHHHSTTCSCEECS
T ss_pred             eeECcCccCccc--CCeeeCCCCCcccHHHHHHHHHhCCCCCCC
Confidence            678999999986  456656899999999999999864  3598

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

Probab=98.48  E-value=4.8e-08  Score=55.78  Aligned_cols=35  Identities=26%  Similarity=0.619  Sum_probs=28.0

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+..   .+.+||+|. |+..|+..    ...||
T Consensus        25 ~~~C~IC~~~~~~---~~~~pCgH~~~C~~C~~~----~~~CP   60 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVPCGHLVTCKQCAEA----VDKCP   60 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSSSCCCCBCHHHHHH----CSBCT
T ss_pred             CCCCCcCCCCCCC---EEEecCCCHHHHHHHhhC----CCCCc
Confidence            4579999999753   467899999 99999964    35676

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

Probab=98.41  E-value=2.2e-07  Score=52.20  Aligned_cols=35  Identities=29%  Similarity=0.654  Sum_probs=28.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|.||++...   .++.+||+|. |+..|+..    ...||
T Consensus        15 ~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~----~~~CP   50 (68)
T 2ea5_A           15 SKDCVVCQNGTV---NWVLLPCRHTCLCDGCVKY----FQQCP   50 (68)
T ss_dssp             SSCCSSSSSSCC---CCEETTTTBCCSCTTHHHH----CSSCT
T ss_pred             CCCCCCcCcCCC---CEEEECCCChhhhHHHHhc----CCCCC
Confidence            678999999864   3588899999 99999984    45676

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.34  E-value=9.7e-08  Score=55.17  Aligned_cols=35  Identities=23%  Similarity=0.525  Sum_probs=28.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+.   ..+.+||||. |+..|+..|    ..||
T Consensus        18 ~~~C~IC~~~~~---~~v~~pCgH~~~C~~C~~~~----~~CP   53 (79)
T 2yho_A           18 AMLCMVCCEEEI---NSTFCPCGHTVCCESCAAQL----QSCP   53 (79)
T ss_dssp             HTBCTTTSSSBC---CEEEETTCBCCBCHHHHTTC----SBCT
T ss_pred             CCEeEEeCcccC---cEEEECCCCHHHHHHHHHhc----CcCC
Confidence            457999999865   3578899999 999999877    2676

>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=98.22  E-value=2.3e-07  Score=67.17  Aligned_cols=35  Identities=26%  Similarity=0.655  Sum_probs=29.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++.+.   ..+.+||||. ||..|+..|    ..||
T Consensus       295 ~~~C~IC~~~~~---~~v~lpCgH~~fC~~C~~~~----~~CP  330 (345)
T 3t6p_A          295 ERTCKVCMDKEV---SVVFIPCGHLVVCQECAPSL----RKCP  330 (345)
T ss_dssp             TCBCTTTSSSBC---CEEEETTCCEEECTTTGGGC----SBCT
T ss_pred             CCCCCccCCcCC---ceEEcCCCChhHhHHHHhcC----CcCC
Confidence            568999999986   3477899999 999999988    5677

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

Probab=98.12  E-value=9.2e-07  Score=60.97  Aligned_cols=39  Identities=23%  Similarity=0.652  Sum_probs=33.0

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCCC--CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQ--HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~--~CP  114 (114)
                      -..|.||.+-...|   .+.+ |+|.||..|+..|++.+.  .||
T Consensus       180 i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP  221 (238)
T 3nw0_A          180 VKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCP  221 (238)
T ss_dssp             CCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCT
T ss_pred             CCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCC
Confidence            57899999999977   3444 999999999999998754  798

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

Probab=98.01  E-value=5.1e-06  Score=49.66  Aligned_cols=38  Identities=24%  Similarity=0.533  Sum_probs=30.5

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      .|.+|--.+.  ...+.+||+|+|+.+|+..|.++ .++||
T Consensus         3 fC~~C~~Pi~--iygRmIPCkHvFCydCa~~~~~~~~k~Cp   41 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIPCKHVFCYDCAILHEKKGDKMCP   41 (101)
T ss_dssp             BCTTTCSBCS--EEEEEETTCCEEEHHHHHHHHHTTCCBCT
T ss_pred             ecCccCCCeE--EEeeeccccccHHHHHHHHHHhccCCCCc
Confidence            4777776654  45688899999999999999865 57787

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

Probab=96.91  E-value=0.00048  Score=40.84  Aligned_cols=34  Identities=18%  Similarity=0.373  Sum_probs=26.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~W  106 (114)
                      +..|.||++.+.......-++|+|.|+..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            4679999987654434445899999999999983

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

Probab=94.34  E-value=0.024  Score=31.20  Aligned_cols=34  Identities=24%  Similarity=0.426  Sum_probs=24.7

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ...|.||.+.   ++.+.-=.|...||..|+++.|..
T Consensus        12 ~~~C~vC~~~---~~ll~Cd~C~~~~H~~Cl~P~l~~   45 (66)
T 2lri_C           12 GARCGVCGDG---TDVLRCTHCAAAFHWRCHFPAGTS   45 (66)
T ss_dssp             TCCCTTTSCC---TTCEECSSSCCEECHHHHCTTTCC
T ss_pred             CCCcCCCCCC---CeEEECCCCCCceecccCCCccCc
Confidence            5679999853   333332249999999999988765

>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=93.80  E-value=0.039  Score=31.79  Aligned_cols=30  Identities=27%  Similarity=0.679  Sum_probs=21.9

Q ss_pred             CCcccccCCcCCCCCceEEeC---CCCcccHHhHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELL---CHHKFHSECLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp---C~H~FH~~Ci~~W  106 (114)
                      ++.|.||-. |..+   ..+|   |+-+||..|+.+=
T Consensus        15 D~~C~VC~~-~t~~---~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           15 DEMCDVCEV-WTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             SCCCTTTCC-CCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CcccCcccc-cccc---ceeccccccccccHhhcccc
Confidence            789999963 2333   3445   7799999999884

>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=92.92  E-value=0.085  Score=28.45  Aligned_cols=33  Identities=27%  Similarity=0.526  Sum_probs=24.6

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEP  105 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~  105 (114)
                      ...|+||...+.++...+.- .|..-||..|+.-
T Consensus         6 ~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl   39 (64)
T 1we9_A            6 SGQCGACGESYAADEFWICCDLCEMWFHGKCVKI   39 (64)
T ss_dssp             CCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTC
T ss_pred             CCCCCCCCCccCCCCCEEEccCCCCCCCccccCc
Confidence            56799999998655433333 5999999999853

>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=92.33  E-value=0.15  Score=27.81  Aligned_cols=32  Identities=22%  Similarity=0.436  Sum_probs=25.0

Q ss_pred             CCcccccCCcCCCCCceEEe--CCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL--LCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l--pC~H~FH~~Ci~  104 (114)
                      ...|.+|...+.++...+..  .|.--||..|+.
T Consensus         8 ~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            8 VYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             -CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             cCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            56899999998877654444  599999999974

>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=92.08  E-value=0.11  Score=42.19  Aligned_cols=39  Identities=8%  Similarity=0.019  Sum_probs=34.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCC-CcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH-HKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~-H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+|-++-+.+.   +++|-| +.|-+..|.+||..+.+||
T Consensus       891 ~F~cPIs~~lM~DP---VilpsG~~TydR~~I~~wl~~~~tdP  930 (968)
T 3m62_A          891 EFLDPLMYTIMKDP---VILPASKMNIDRSTIKAHLLSDSTDP  930 (968)
T ss_dssp             GGBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTTCCBCT
T ss_pred             HhCCcchhhHHhCC---eEcCCCCEEECHHHHHHHHhcCCCCC
Confidence            67799999999866   779987 6899999999999999998

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

Probab=92.01  E-value=0.13  Score=28.56  Aligned_cols=34  Identities=21%  Similarity=0.308  Sum_probs=23.8

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl  107 (114)
                      ...|.||..... ++..+.. .|.-.||..|+..-+
T Consensus        18 ~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~   52 (75)
T 2k16_A           18 IWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMA   52 (75)
T ss_dssp             EECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSS
T ss_pred             CcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCc
Confidence            556999988754 3333333 499999999986533

>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=91.48  E-value=0.098  Score=28.35  Aligned_cols=33  Identities=24%  Similarity=0.622  Sum_probs=23.7

Q ss_pred             CCcccccCCcCCC-CCceEEe-CCCCcccHHhHHH
Q psy16979         73 DAQCVICLAPFQP-GEEVKEL-LCHHKFHSECLEP  105 (114)
Q Consensus        73 ~~~C~ICl~~~~~-~~~~~~l-pC~H~FH~~Ci~~  105 (114)
                      +..|.||...... +..+..- .|.-.||..|+.+
T Consensus         6 ~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p   40 (66)
T 2yt5_A            6 SGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTP   40 (66)
T ss_dssp             CCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSS
T ss_pred             CCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCC
Confidence            6789999987543 2233333 4999999999875

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=91.34  E-value=0.18  Score=25.85  Aligned_cols=31  Identities=26%  Similarity=0.555  Sum_probs=21.8

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEP  105 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~  105 (114)
                      .|.||...-..++.+.--.|...||..|+.+
T Consensus         2 ~C~vC~~~~~~~~ll~Cd~C~~~~H~~Cl~p   32 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRP   32 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCT
T ss_pred             CCCCCCCCCCCCCEEECCCCChhhCcccCCC
Confidence            5899987643343333335999999999965

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=90.75  E-value=0.15  Score=30.53  Aligned_cols=32  Identities=22%  Similarity=0.457  Sum_probs=24.5

Q ss_pred             CCcccccCCcCCCCCceEEe--CCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL--LCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l--pC~H~FH~~Ci~  104 (114)
                      ...|.||...+.++...+..  .|.--||..|+.
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVg   36 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTG   36 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCC
Confidence            35799999998766544444  489999999974

>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=90.67  E-value=0.15  Score=33.55  Aligned_cols=31  Identities=19%  Similarity=0.489  Sum_probs=24.8

Q ss_pred             CcccccCCcCCCCCc---eEEe-CCCCcccHHhHH
Q psy16979         74 AQCVICLAPFQPGEE---VKEL-LCHHKFHSECLE  104 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~---~~~l-pC~H~FH~~Ci~  104 (114)
                      ..|+||...|.+++.   .+.. -|..-||..|+.
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvg   37 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCEN   37 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSS
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccc
Confidence            469999999988762   4444 499999999974

>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=89.70  E-value=0.24  Score=29.60  Aligned_cols=36  Identities=22%  Similarity=0.498  Sum_probs=25.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR  108 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~  108 (114)
                      ++.|.||.+.=+..+.+.--.|...||..|+...+.
T Consensus         7 ~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            7 GANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccc
Confidence            788999987633232344345999999999987654

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.42  E-value=0.17  Score=26.54  Aligned_cols=33  Identities=27%  Similarity=0.704  Sum_probs=23.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR  108 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~  108 (114)
                      +..|.||.+.   ++.+.--.|...||..|+.+=|.
T Consensus         9 ~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~   41 (56)
T 2yql_A            9 EDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLK   41 (56)
T ss_dssp             CCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCC
T ss_pred             CCCCccCCCC---CeEEEcCCCCcceECccCCCCcC
Confidence            6789999974   43333335999999999976443

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=88.91  E-value=0.73  Score=25.47  Aligned_cols=33  Identities=30%  Similarity=0.580  Sum_probs=23.3

Q ss_pred             CCcccccCCcC-CCCCceEEe-CCCCcccHHhHHH
Q psy16979         73 DAQCVICLAPF-QPGEEVKEL-LCHHKFHSECLEP  105 (114)
Q Consensus        73 ~~~C~ICl~~~-~~~~~~~~l-pC~H~FH~~Ci~~  105 (114)
                      +..|.||.+.- ..++.+..- .|.-.||..|+..
T Consensus        16 ~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~   50 (71)
T 2ku3_A           16 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGV   50 (71)
T ss_dssp             SCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTC
T ss_pred             CCCCCCCCCCCCCCCCCEEECCCCCCccccccCCC
Confidence            67899998764 223333333 4999999999864

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=88.76  E-value=0.27  Score=26.69  Aligned_cols=32  Identities=34%  Similarity=0.691  Sum_probs=22.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl  107 (114)
                      +..|.||.+.   ++.+.-=.|.-.||..|+.+=|
T Consensus         8 ~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~ppl   39 (66)
T 1xwh_A            8 EDECAVCRDG---GELICCDGCPRAFHLACLSPPL   39 (66)
T ss_dssp             CCSBSSSSCC---SSCEECSSCCCEECTTTSSSCC
T ss_pred             CCCCccCCCC---CCEEEcCCCChhhcccccCCCc
Confidence            6789999964   3333333499999999987543

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

Probab=88.68  E-value=0.51  Score=25.18  Aligned_cols=33  Identities=27%  Similarity=0.628  Sum_probs=23.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR  108 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~  108 (114)
                      +..|.||...   ++.+.--.|...||..|+.+=+.
T Consensus        11 ~~~C~vC~~~---g~ll~CD~C~~~fH~~Cl~p~l~   43 (61)
T 2l5u_A           11 QDYCEVCQQG---GEIILCDTCPRAYHMVCLDPDME   43 (61)
T ss_dssp             CSSCTTTSCC---SSEEECSSSSCEEEHHHHCTTCC
T ss_pred             CCCCccCCCC---CcEEECCCCChhhhhhccCCCCC
Confidence            6789999863   33333224999999999987543

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=88.47  E-value=0.29  Score=26.00  Aligned_cols=32  Identities=28%  Similarity=0.698  Sum_probs=22.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl  107 (114)
                      +..|.||...   ++.+.-=.|.-.||..|+.+=|
T Consensus         5 ~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl   36 (60)
T 2puy_A            5 EDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPL   36 (60)
T ss_dssp             CSSCTTTCCC---SSCEECSSSSCEECGGGSSSCC
T ss_pred             CCCCcCCCCC---CcEEEcCCCCcCEECCcCCCCc
Confidence            6789999974   4333333599999999997544

>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=87.18  E-value=0.24  Score=26.54  Aligned_cols=32  Identities=31%  Similarity=0.580  Sum_probs=22.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl  107 (114)
                      +..|.||.+.   ++.+.-=.|...||..|+.+=|
T Consensus         9 ~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl   40 (61)
T 1mm2_A            9 MEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPL   40 (61)
T ss_dssp             CSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCC
T ss_pred             CCcCCCCCCC---CCEEEcCCCCHHHcccccCCCc
Confidence            6789999852   3333222488999999998544

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=86.25  E-value=0.82  Score=26.30  Aligned_cols=33  Identities=27%  Similarity=0.555  Sum_probs=22.8

Q ss_pred             CCcccccCCcCC-CCCceEEe-CCCCcccHHhHHH
Q psy16979         73 DAQCVICLAPFQ-PGEEVKEL-LCHHKFHSECLEP  105 (114)
Q Consensus        73 ~~~C~ICl~~~~-~~~~~~~l-pC~H~FH~~Ci~~  105 (114)
                      +..|.||...-. .++.+... .|.-.||..|+..
T Consensus        25 ~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p   59 (88)
T 2l43_A           25 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGV   59 (88)
T ss_dssp             CCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTC
T ss_pred             CCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCC
Confidence            678999997632 22233333 3889999999864

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=86.20  E-value=0.65  Score=27.81  Aligned_cols=32  Identities=28%  Similarity=0.550  Sum_probs=22.0

Q ss_pred             CCcccccCCcCC------CCCceEEeCCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQ------PGEEVKELLCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~------~~~~~~~lpC~H~FH~~Ci~  104 (114)
                      ...|.+|+..=.      .++.+.--.|+..||..||.
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            567999997631      22233333599999999995

>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=85.65  E-value=1  Score=27.95  Aligned_cols=30  Identities=27%  Similarity=0.594  Sum_probs=22.3

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~W  106 (114)
                      ++.|.||.+.    ..+..- .|...||.+||.+=
T Consensus        57 ~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~   87 (129)
T 3ql9_A           57 DEQCRWCAEG----GNLICCDFCHNAFCKKCILRN   87 (129)
T ss_dssp             BSSCTTTCCC----SEEEECSSSSCEEEHHHHHHH
T ss_pred             CCcCeecCCC----CeeEecCCCchhhhHHHhCCC
Confidence            7789999954    333333 38899999999974

>2o35_A Hypothetical protein DUF1244; helix bundle, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.12A {Sinorhizobium meliloti} SCOP: a.293.1.1

Probab=84.80  E-value=0.39  Score=28.44  Aligned_cols=12  Identities=42%  Similarity=1.082  Sum_probs=10.8

Q ss_pred             cccHHhHHHHHh
Q psy16979         97 KFHSECLEPWLR  108 (114)
Q Consensus        97 ~FH~~Ci~~Wl~  108 (114)
                      .||+.|+.+|+.
T Consensus        42 GFCRNCLskWy~   53 (105)
T 2o35_A           42 GFCRNCLSNWYR   53 (105)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            599999999986

>3fyb_A Protein of unknown function (DUF1244); hydrocar degrading, structural genomics, PSI-2; HET: PEG; 1.80A {Alcanivorax borkumensis SK2}

Probab=84.71  E-value=0.39  Score=28.37  Aligned_cols=12  Identities=42%  Similarity=1.063  Sum_probs=10.8

Q ss_pred             cccHHhHHHHHh
Q psy16979         97 KFHSECLEPWLR  108 (114)
Q Consensus        97 ~FH~~Ci~~Wl~  108 (114)
                      .||+.|+.+|+.
T Consensus        41 GFCRNCLskWy~   52 (104)
T 3fyb_A           41 DFCRNCLAKWLM   52 (104)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            599999999986

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

Probab=84.30  E-value=1.3  Score=27.91  Aligned_cols=31  Identities=29%  Similarity=0.618  Sum_probs=23.6

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl  107 (114)
                      ++.|.||.+.    ..+... .|...||..||.+=|
T Consensus        63 ~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l   94 (142)
T 2lbm_A           63 DEQCRWCAEG----GNLICCDFCHNAFCKKCILRNL   94 (142)
T ss_dssp             BCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHT
T ss_pred             CCeecccCCC----CcEEeCCCCCCeeeHhhcCCCC
Confidence            7889999953    333333 499999999999765

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.28  E-value=0.31  Score=28.23  Aligned_cols=33  Identities=33%  Similarity=0.686  Sum_probs=23.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR  108 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~  108 (114)
                      +..|.||...   |+.+.--.|.-.||..|+.+=|.
T Consensus        25 ~~~C~vC~~~---g~LL~CD~C~~~fH~~Cl~PpL~   57 (88)
T 1fp0_A           25 ATICRVCQKP---GDLVMCNQCEFCFHLDCHLPALQ   57 (88)
T ss_dssp             SSCCSSSCSS---SCCEECTTSSCEECTTSSSTTCC
T ss_pred             CCcCcCcCCC---CCEEECCCCCCceecccCCCCCC
Confidence            7789999964   33322224889999999976443

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=83.99  E-value=0.56  Score=26.96  Aligned_cols=35  Identities=29%  Similarity=0.730  Sum_probs=24.3

Q ss_pred             CCcccccCCcCCC-CCceEEe-CCCCcccHHhHHHHH
Q psy16979         73 DAQCVICLAPFQP-GEEVKEL-LCHHKFHSECLEPWL  107 (114)
Q Consensus        73 ~~~C~ICl~~~~~-~~~~~~l-pC~H~FH~~Ci~~Wl  107 (114)
                      +..|.||...-.. ++.+... .|...||..|+.+=|
T Consensus        16 ~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl   52 (88)
T 1wev_A           16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQV   52 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCC
T ss_pred             CCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcc
Confidence            5689999986433 2333433 499999999987543

>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=83.96  E-value=0.24  Score=32.29  Aligned_cols=33  Identities=30%  Similarity=0.633  Sum_probs=23.6

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~  109 (114)
                      ++.|.||.+.   |+ +... .|.-.||..|+.+-|..
T Consensus         4 ~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~   37 (184)
T 3o36_A            4 EDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTN   37 (184)
T ss_dssp             CSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSS
T ss_pred             CCccccCCCC---Ce-eeecCCCCcccCccccCCCCCC
Confidence            6789999843   44 3333 49999999999775543

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

Probab=83.48  E-value=1  Score=25.44  Aligned_cols=33  Identities=21%  Similarity=0.473  Sum_probs=24.1

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEP  105 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~  105 (114)
                      ...|.+|...|..-..---. .||.+|+..|...
T Consensus        19 ~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   52 (82)
T 2yw8_A           19 ATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSN   52 (82)
T ss_dssp             CCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCE
T ss_pred             CCcccCcCCcccCccccccCCCCCCEEChHHhCC
Confidence            56799999999865422222 4999999999653

>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=83.23  E-value=0.26  Score=32.75  Aligned_cols=33  Identities=27%  Similarity=0.593  Sum_probs=23.4

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~  109 (114)
                      ++.|.+|...   | .+... .|...||..|+.+-|..
T Consensus         7 ~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~   40 (207)
T 3u5n_A            7 EDWCAVCQNG---G-DLLCCEKCPKVFHLTCHVPTLLS   40 (207)
T ss_dssp             CSSBTTTCCC---E-EEEECSSSSCEECTTTSSSCCSS
T ss_pred             CCCCCCCCCC---C-ceEEcCCCCCccCCccCCCCCCC
Confidence            6789999843   3 33333 38899999999775543

>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=83.07  E-value=0.89  Score=25.20  Aligned_cols=31  Identities=26%  Similarity=0.542  Sum_probs=22.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~  104 (114)
                      ..-| ||...+..+..|.--.|..-||..|+.
T Consensus        16 ~~~C-~C~~~~~~~~MI~Cd~C~~WfH~~Cvg   46 (76)
T 1wem_A           16 ALYC-ICRQPHNNRFMICCDRCEEWFHGDCVG   46 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSSSCCEEEHHHHS
T ss_pred             CCEE-ECCCccCCCCEEEeCCCCCcEeCeEEc
Confidence            3456 899887644444444599999999984

>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: g.50.1.1

Probab=83.07  E-value=0.79  Score=28.54  Aligned_cols=31  Identities=16%  Similarity=0.432  Sum_probs=23.3

Q ss_pred             CCcccccCCcCC-CCCceEEe-CCCCcccHHhH
Q psy16979         73 DAQCVICLAPFQ-PGEEVKEL-LCHHKFHSECL  103 (114)
Q Consensus        73 ~~~C~ICl~~~~-~~~~~~~l-pC~H~FH~~Ci  103 (114)
                      +..|.+|...|. .+...+.. .|.|.++..|-
T Consensus        55 ~~~C~~C~~~~g~l~~~g~~C~~C~~~VC~~C~   87 (134)
T 1zbd_B           55 VNRCILCGEQLGMLGSASVVCEDCKKNVCTKCG   87 (134)
T ss_dssp             SSBCSSSCCBCSTTSCCEEECTTTCCEEETTSE
T ss_pred             CccccccCCCcccccCCCCCCCCCCcccccccC
Confidence            678999999994 33433444 49999999884

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=82.94  E-value=0.63  Score=27.98  Aligned_cols=33  Identities=30%  Similarity=0.468  Sum_probs=22.5

Q ss_pred             CcccccCCcCC----CC---CceEEeCCCCcccHHhHHHH
Q psy16979         74 AQCVICLAPFQ----PG---EEVKELLCHHKFHSECLEPW  106 (114)
Q Consensus        74 ~~C~ICl~~~~----~~---~~~~~lpC~H~FH~~Ci~~W  106 (114)
                      +.|.||+..-.    .|   +.+.--.|+..||..|+..+
T Consensus         2 ~~C~~C~~~~~~n~k~g~~~~Li~C~~C~~~~H~~Cl~~~   41 (114)
T 2kwj_A            2 SYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFT   41 (114)
T ss_dssp             CCCSSSCCBTTBCTTTCCCCCCEECSSSCCEECTTTTTCC
T ss_pred             CcCccCCCCccccccCCCCCCCeEeCCCCCccchhhCCCh
Confidence            56999997641    12   23333359999999998754

>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=82.93  E-value=0.71  Score=23.72  Aligned_cols=30  Identities=20%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             cccccCCcCCCCCceEE-e-CCCCcccHHhHH
Q psy16979         75 QCVICLAPFQPGEEVKE-L-LCHHKFHSECLE  104 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~-l-pC~H~FH~~Ci~  104 (114)
                      .|.||...+.++...+. - .|.--||..|+.
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvg   35 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVG   35 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTT
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccC
Confidence            48899998866554333 3 488899999975

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4

Probab=82.56  E-value=0.4  Score=22.01  Aligned_cols=28  Identities=25%  Similarity=0.552  Sum_probs=20.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSEC  102 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~C  102 (114)
                      .+.|+.|-..+-..+++.  -=+..||+.|
T Consensus         3 ~~~C~~C~k~Vy~~Ek~~--~~g~~~Hk~C   30 (31)
T 1zfo_A            3 NPNCARCGKIVYPTEKVN--CLDKFWHKAC   30 (31)
T ss_dssp             CCBCSSSCSBCCGGGCCC--SSSSCCCGGG
T ss_pred             CCcCCccCCEEecceeEE--ECCeEecccC
Confidence            357999998877665443  3468999988

>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=82.18  E-value=1.3  Score=24.72  Aligned_cols=31  Identities=26%  Similarity=0.732  Sum_probs=21.8

Q ss_pred             CCcccccCCcCCCCC-ceEEeCCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~  104 (114)
                      ..-| ||...+..+. .|.--.|..-||..|+.
T Consensus        12 ~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvg   43 (79)
T 1wep_A           12 PVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVG   43 (79)
T ss_dssp             CCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHT
T ss_pred             ccEE-EcCCccCCCCceEEcCCCCCcEEeeecC
Confidence            3446 9999886444 44433599999999985

---

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	114
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-12
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-08
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	5e-08
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	6e-06
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-05
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	7e-05
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	9e-05
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	5e-04
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	8e-04
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	0.002
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	0.004

>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 = 56.0 bits (135), Expect = 1e-12
 Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)

Query: 73  DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP 114
             +C +CLA  + GEE + L  C H FH+EC++ WL     CP
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCP 47

>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 = 45.7 bits (108), Expect = 1e-08
 Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 2/40 (5%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +C ICL           L C H F   C+  W+R+   CP
Sbjct: 7   RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCP 44

>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 = 44.7 bits (105), Expect = 5e-08
 Identities = 17/67 (25%), Positives = 24/67 (35%), Gaps = 15/67 (22%)

Query: 63  SIAFPADEAPDAQCVICLAPF---------------QPGEEVKELLCHHKFHSECLEPWL 107
           ++A  A +     C IC                        V   +C+H FH  C+  WL
Sbjct: 11  AVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWL 70

Query: 108 RERQHCP 114
           + RQ CP
Sbjct: 71  KTRQVCP 77

>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 = 39.2 bits (91), Expect = 6e-06
 Identities = 12/43 (27%), Positives = 15/43 (34%), Gaps = 4/43 (9%)

Query: 73  DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CP 114
              C IC       ++VK   C H   + CL  W       CP
Sbjct: 23  FQLCKICAEND---KDVKIEPCGHLMCTSCLTSWQESEGQGCP 62

>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 = 37.0 bits (85), Expect = 2e-05
 Identities = 5/41 (12%), Positives = 13/41 (31%), Gaps = 1/41 (2%)

Query: 75  QCVICLAPFQPGEEV-KELLCHHKFHSECLEPWLRERQHCP 114
           +C +C+ P +  +       C ++    C      +     
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLC 42

>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 = 35.9 bits (82), Expect = 7e-05
 Identities = 9/45 (20%), Positives = 14/45 (31%), Gaps = 3/45 (6%)

Query: 73  DAQCVICLAPFQPGEEVKELL--CHHKFHSECLEPWLRERQH-CP 114
           D  C  C         +K ++  C H     C++         CP
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCP 47

>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 = 36.0 bits (83), Expect = 9e-05
 Identities = 14/50 (28%), Positives = 17/50 (34%), Gaps = 4/50 (8%)

Query: 66  FPADEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CP 114
           FPA       C IC        +  E  C H F   C+   L+     CP
Sbjct: 16  FPAHFVKSISCQICEHIL---ADPVETSCKHLFCRICILRCLKVMGSYCP 62

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

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

 Score = 35.0 bits (79), Expect = 4e-04
 Identities = 8/43 (18%), Positives = 10/43 (23%)

Query: 70  EAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH 112
            A     +       P    +   C H FH  CL         
Sbjct: 37  VASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNK 79

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

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

 Score = 34.7 bits (79), Expect = 5e-04
 Identities = 7/40 (17%), Positives = 16/40 (40%)

Query: 71  APDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER 110
           +  + C +CL  +   +      C   F + CL+ ++   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELL 42

>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 = 32.9 bits (75), Expect = 8e-04
 Identities = 14/46 (30%), Positives = 17/46 (36%), Gaps = 6/46 (13%)

Query: 69  DEAPDAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114
           +E    +C  C A     +  K L C H   S CLE        CP
Sbjct: 2   EEFQFLRCQQCQAEA---KCPKLLPCLHTLCSGCLEAS---GMQCP 41

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

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

 Score = 32.1 bits (72), Expect = 0.002
 Identities = 9/50 (18%), Positives = 13/50 (26%), Gaps = 4/50 (8%)

Query: 69  DEAPDAQCVICLAPFQPGEEV--KELLCHHKFHSECLEPWLRERQH--CP 114
           ++     C IC                     H  CL  WL   ++  C 
Sbjct: 2   EDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQ 51

>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 = 32.3 bits (73), Expect = 0.004
 Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 6/43 (13%)

Query: 75  QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ---HCP 114
           +C ICL      +E     C H F   C+   L +++    CP
Sbjct: 23  ECPICLELI---KEPVSTKCDHIFCKFCMLKLLNQKKGPSQCP 62

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	114
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.78
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.6
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.59
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.55
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.55
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.49
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.45
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.3
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.25
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.25
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.19
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.18
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.07
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.04
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.04
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	99.01
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.8
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	95.83
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	95.57
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	92.77
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	90.69
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	90.67
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	89.1
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	88.98
d2o35a1	79	Hypothetical protein SMc04008 {Rhizobium meliloti	86.1
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	85.73
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	85.58
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	84.79
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	82.46
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	81.99
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	81.85
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	81.8
d2dasa1	49	Zinc finger MYM-type protein 5 {Human (Homo sapien	81.69
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	81.33
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	81.15

>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=99.78  E-value=6.6e-20  Score=98.93  Aligned_cols=42  Identities=43%  Similarity=1.068  Sum_probs=39.5

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +.+|+||+++|..++.++++| |+|.||.+||.+||+.+++||
T Consensus         5 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP   47 (55)
T d1iyma_           5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCP   47 (55)
T ss_dssp             SCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCS
T ss_pred             CCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCC
Confidence            567999999999999998886 999999999999999999998

>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=99.60  E-value=1.1e-16  Score=89.53  Aligned_cols=40  Identities=33%  Similarity=0.787  Sum_probs=35.9

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .+.|+||++.|..  .++.+||+|.||.+||.+||+.+++||
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~C~H~Fc~~Ci~~w~~~~~~CP   44 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALPCLHAFCYVCITRWIRQNPTCP   44 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETTTTEEESTTHHHHHHHHSCSTT
T ss_pred             CCCCccCCcCccC--CcEEeCCCCcCcHHHHHHHHHhCCcCC
Confidence            5679999999864  467789999999999999999999998

>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=99.59  E-value=4.5e-16  Score=91.15  Aligned_cols=42  Identities=36%  Similarity=0.767  Sum_probs=36.4

Q ss_pred             CCcccccCCcCCCCC---------------ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGE---------------EVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~---------------~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ++.|+||++.+....               .+..++|+|.||..||.+||+.+++||
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP   77 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP   77 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCS
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCC
Confidence            567999999886533               367789999999999999999999999

>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=99.55  E-value=6.3e-16  Score=94.37  Aligned_cols=42  Identities=26%  Similarity=0.629  Sum_probs=33.8

Q ss_pred             CCcccccCCcCCCC---------------CceEEeCCCCcccHHhHHHHHhCC-----CCCC
Q psy16979         73 DAQCVICLAPFQPG---------------EEVKELLCHHKFHSECLEPWLRER-----QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~---------------~~~~~lpC~H~FH~~Ci~~Wl~~~-----~~CP  114 (114)
                      ++.|+||++++...               ..+..++|+|.||..||..||+.+     .+||
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP   86 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP   86 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCT
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccc
Confidence            67899999998542               245677899999999999999753     3698

>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=99.55  E-value=4.2e-16  Score=82.81  Aligned_cols=40  Identities=18%  Similarity=0.511  Sum_probs=33.9

Q ss_pred             cccccCCcCCCCCc-eEEeCCCCcccHHhHHHHHhCC-CCCC
Q psy16979         75 QCVICLAPFQPGEE-VKELLCHHKFHSECLEPWLRER-QHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~-~~~lpC~H~FH~~Ci~~Wl~~~-~~CP  114 (114)
                      +|+||+++|..++. ++.++|+|.||.+||.+|++.+ .+||
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP   43 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCP   43 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCT
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCC
Confidence            69999999987764 4556899999999999999864 4698

>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=99.49  E-value=9.1e-15  Score=80.92  Aligned_cols=42  Identities=19%  Similarity=0.481  Sum_probs=33.9

Q ss_pred             CCcccccCCcCCCC--CceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPG--EEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~--~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++++..+  ..+..++|+|.||.+||.+||+. +++||
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP   47 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCP   47 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCT
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCC
Confidence            57899999986433  24566789999999999999966 55798

>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=99.45  E-value=4.4e-14  Score=80.93  Aligned_cols=39  Identities=33%  Similarity=0.653  Sum_probs=33.4

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      ...|+||++.+..   .+.+||||.||..||..||+. +++||
T Consensus        23 ~~~C~IC~~~~~~---~~~~~CgH~fC~~Ci~~wl~~~~~~CP   62 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCP   62 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSSSCCEECHHHHHHHHHTTCCSCT
T ss_pred             CCCCccCCCcCCC---eEEeCCCCeeeHHHHHHHHHHCcCcCC
Confidence            4579999998763   578999999999999999975 56798

>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=99.30  E-value=2.8e-13  Score=72.65  Aligned_cols=38  Identities=18%  Similarity=0.252  Sum_probs=32.3

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      .|+||++.+++  .+....|||+|+++||.+||+++.+||
T Consensus         2 ~C~Ic~~~~~~--Pv~~~~cGh~fc~~cI~~~l~~~~~CP   39 (56)
T d2baya1           2 LCAISGKVPRR--PVLSPKSRTIFEKSLLEQYVKDTGNDP   39 (56)
T ss_dssp             CCTTTCSCCSS--EEEETTTTEEEEHHHHHHHHHHHSBCT
T ss_pred             CCccCCchHHh--cCccCCCCCcccHHHHHHHHhhccCCC
Confidence            59999999874  343335999999999999999999998

>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=99.25  E-value=1.6e-12  Score=75.31  Aligned_cols=39  Identities=28%  Similarity=0.567  Sum_probs=33.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      ...|+||++.+.+   .++++|||.|+..||.+|++. +.+||
T Consensus        23 ~l~C~IC~~~~~~---pv~~~CgH~FC~~Ci~~~~~~~~~~CP   62 (86)
T d1rmda2          23 SISCQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCP   62 (86)
T ss_dssp             HTBCTTTCSBCSS---EEECTTSCEEEHHHHHHHHHHTCSBCT
T ss_pred             CcCCccCCcchhc---ceecCCCChhhHHHHHHHHhhCCCcCc
Confidence            4579999999864   377899999999999999975 56798

>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=99.25  E-value=1.4e-12  Score=77.97  Aligned_cols=39  Identities=28%  Similarity=0.663  Sum_probs=32.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC---CCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ---HCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~---~CP  114 (114)
                      ...|+||++.|.+.   +++||||.||..||..|++.+.   .||
T Consensus        21 ~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP   62 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCP   62 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCT
T ss_pred             CcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCc
Confidence            34799999998754   5689999999999999998753   698

>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=99.19  E-value=1e-12  Score=70.36  Aligned_cols=36  Identities=36%  Similarity=0.598  Sum_probs=30.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|.+.   +.|||+|.||..||.+|   +.+||
T Consensus         6 ~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~---~~~CP   41 (56)
T d1bora_           6 FLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS---GMQCP   41 (56)
T ss_dssp             CSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS---SSSCS
T ss_pred             CCCCcccCcccCCC---EEecCCCHHhHHHHHcC---CCcCc
Confidence            35899999999754   67899999999999876   55687

>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=99.18  E-value=5.3e-12  Score=68.37  Aligned_cols=42  Identities=21%  Similarity=0.359  Sum_probs=30.4

Q ss_pred             CCcccccCCcCCCCCce--EEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEV--KELLCHHKFHSECLEPWLRE--RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~--~~lpC~H~FH~~Ci~~Wl~~--~~~CP  114 (114)
                      ...|.||++++......  ....|+|.||..||.+|+..  +.+||
T Consensus         6 ~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP   51 (60)
T d1vyxa_           6 VPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQ   51 (60)
T ss_dssp             CCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCT
T ss_pred             CCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCc
Confidence            67899999998654211  11124599999999999954  55798

>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=99.07  E-value=4.1e-11  Score=67.96  Aligned_cols=39  Identities=18%  Similarity=0.463  Sum_probs=33.5

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC-CCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER-QHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~~CP  114 (114)
                      +..|+||++.|.+.   ++++|||.|++.||..|++.+ ..||
T Consensus         8 ~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP   47 (78)
T d1t1ha_           8 YFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCP   47 (78)
T ss_dssp             SSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCT
T ss_pred             cCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCC
Confidence            67899999999754   578999999999999999875 4587

>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=99.04  E-value=8.9e-11  Score=66.85  Aligned_cols=39  Identities=10%  Similarity=0.023  Sum_probs=33.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP  114 (114)
                      +..|+||++-|.+.   ++++|||.|++.||.+||.. +.+||
T Consensus         7 ~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP   46 (80)
T d2c2la2           7 YLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNP   46 (80)
T ss_dssp             TTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCT
T ss_pred             cccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCC
Confidence            67899999999754   57899999999999999975 55787

>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=99.04  E-value=1.6e-11  Score=72.49  Aligned_cols=38  Identities=26%  Similarity=0.509  Sum_probs=30.8

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|+||++.|...  +...+|||.||..||.+|+.  +.||
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~CgH~fC~~Ci~~~~~--~~CP   59 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGGCEHIFCSNCVSDCIG--TGCP   59 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCSSSCCBCTTTGGGGTT--TBCS
T ss_pred             cCCCccCCchhhcC--ceeCCCCCchhHHHHHHHHh--cccc
Confidence            45799999999744  44458999999999999985  3487

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

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

Probab=99.01  E-value=6.7e-11  Score=69.22  Aligned_cols=37  Identities=19%  Similarity=0.532  Sum_probs=32.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ...|+||++++...+.+..++|+|.||.+||..|++.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~   41 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVEL   41 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHH
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHH
Confidence            5789999999977666666789999999999999973

>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=98.80  E-value=2.2e-09  Score=63.22  Aligned_cols=39  Identities=13%  Similarity=-0.034  Sum_probs=34.3

Q ss_pred             CCcccccCCcCCCCCceEEeCCC-CcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCH-HKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~-H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      +..|+||++-|.+.   +++||+ |.|.+.||..||+.+.+||
T Consensus        22 ~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P   61 (98)
T d1wgma_          22 EFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDP   61 (98)
T ss_dssp             TTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCT
T ss_pred             HhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcc
Confidence            68899999999855   788855 6899999999999999998

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

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

Probab=95.83  E-value=0.0038  Score=34.47  Aligned_cols=30  Identities=27%  Similarity=0.690  Sum_probs=23.6

Q ss_pred             CCcccccCCcCCCCCceEEeC---CCCcccHHhHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKELL---CHHKFHSECLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp---C~H~FH~~Ci~~W  106 (114)
                      +..|.|| +.|...+   ++|   |+-+||..|+.+=
T Consensus        15 D~mC~vC-~v~t~~~---l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          15 DEMCDVC-EVWTAES---LFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             SCCCTTT-CCCCSSC---CSSCSSSSSCCCHHHHHHH
T ss_pred             Ccccccc-Ccccccc---eecceeecchhhHHHHHHh
Confidence            7899999 7776553   346   6799999999874

>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=95.57  E-value=0.0046  Score=32.36  Aligned_cols=32  Identities=28%  Similarity=0.569  Sum_probs=25.9

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHhHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLE  104 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~  104 (114)
                      ...|.||...+.+++..+.- .|+..||..|+.
T Consensus         6 ~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~   38 (64)
T d1we9a_           6 SGQCGACGESYAADEFWICCDLCEMWFHGKCVK   38 (64)
T ss_dssp             CCCCSSSCCCCCSSSCEEECSSSCCEEETTTTT
T ss_pred             CCcCcCcCCCCCCCCCEEEcCCCCccCCcccCC
Confidence            56899999988777655545 499999999985

>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=92.77  E-value=0.045  Score=26.94  Aligned_cols=35  Identities=29%  Similarity=0.513  Sum_probs=24.0

Q ss_pred             cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      .|.||...-..+..+.-=.|...||..|+.+-+..
T Consensus         2 ~C~vC~~~~~~~~~i~Cd~C~~~~H~~C~~p~~~~   36 (51)
T d1f62a_           2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYE   36 (51)
T ss_dssp             CCTTTCCSSCCSCCEECTTTCCEECHHHHCTTCCS
T ss_pred             CCcCcCCCCCCCCEEEcCCCCCCCCCCCCCCCCCc
Confidence            58999876544433332249999999999876543

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.69  E-value=0.2  Score=26.70  Aligned_cols=30  Identities=20%  Similarity=0.515  Sum_probs=21.9

Q ss_pred             CcccccCCcCCCCCceEEe--CCCCcccHHhHH
Q psy16979         74 AQCVICLAPFQPGEEVKEL--LCHHKFHSECLE  104 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~l--pC~H~FH~~Ci~  104 (114)
                      ..| ||......+..+..-  -|..-||..|+.
T Consensus        17 ~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvg   48 (78)
T d1wewa_          17 VRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVI   48 (78)
T ss_dssp             CCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHS
T ss_pred             cEe-ECCCccCCCcEEEEeCCCCCcCCCccccC
Confidence            457 999987766544333  399999999983

>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=90.67  E-value=0.031  Score=29.59  Aligned_cols=34  Identities=32%  Similarity=0.692  Sum_probs=22.2

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ...|.||.+   .++.+.-=.|...||..|+.+.+..
T Consensus         7 c~~C~~C~~---~~~ll~Cd~C~~~~H~~C~~p~l~~   40 (70)
T d1fp0a1           7 ATICRVCQK---PGDLVMCNQCEFCFHLDCHLPALQD   40 (70)
T ss_dssp             SSCCSSSCS---SSCCEECTTSSCEECTTSSSTTCCC
T ss_pred             CCCCCCCCC---cCEEEECCCCChhhccccCCCCcCc
Confidence            345666653   3443322249999999999987754

>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=89.10  E-value=0.095  Score=28.66  Aligned_cols=34  Identities=26%  Similarity=0.674  Sum_probs=23.4

Q ss_pred             CCcccccCCcCCCC-CceEEe-CCCCcccHHhHHHH
Q psy16979         73 DAQCVICLAPFQPG-EEVKEL-LCHHKFHSECLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~-~~~~~l-pC~H~FH~~Ci~~W  106 (114)
                      ...|.||....... ..++.- -|...||..|+.+.
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~   51 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQ   51 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSC
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCc
Confidence            45799998754432 334434 39999999998643

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.98  E-value=0.1  Score=23.11  Aligned_cols=28  Identities=21%  Similarity=0.465  Sum_probs=22.5

Q ss_pred             CcccccCCcCCCCCceEEeCCCCcccHHh
Q psy16979         74 AQCVICLAPFQPGEEVKELLCHHKFHSEC  102 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~C  102 (114)
                      ..|+-|...+...+.|++-. +++||..|
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~-~~VyHl~C   30 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQ-GNVYHLKC   30 (31)
T ss_dssp             EECTTTCCEECTTSEEEEET-TEEECGGG
T ss_pred             cccccccCcCChhHhheecc-cceeeecc
Confidence            36999999999888766543 68999988

>d2o35a1 a.293.1.1 (A:2-80) Hypothetical protein SMc04008 {Rhizobium meliloti [TaxId: 382]}

class: All alpha proteins
fold: SMc04008-like
superfamily: SMc04008-like
family: SMc04008-like
domain: Hypothetical protein SMc04008
species: Rhizobium meliloti [TaxId: 382]

Probab=86.10  E-value=0.15  Score=27.39  Aligned_cols=12  Identities=42%  Similarity=1.082  Sum_probs=10.7

Q ss_pred             cccHHhHHHHHh
Q psy16979         97 KFHSECLEPWLR  108 (114)
Q Consensus        97 ~FH~~Ci~~Wl~  108 (114)
                      .|++.||.+|..
T Consensus        39 GFCRNCLskWy~   50 (79)
T d2o35a1          39 GFCRNCLSNWYR   50 (79)
T ss_dssp             SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            599999999985

>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=85.73  E-value=0.68  Score=24.55  Aligned_cols=31  Identities=26%  Similarity=0.645  Sum_probs=22.8

Q ss_pred             CcccccCCcCCCCCceEEe-CCCCcccHHhHH
Q psy16979         74 AQCVICLAPFQPGEEVKEL-LCHHKFHSECLE  104 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~  104 (114)
                      ..+.||...+..+...+.- .|.--||..|+.
T Consensus        12 pv~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g   43 (79)
T d1wepa_          12 PVYCLCRQPYNVNHFMIECGLCQDWFHGSCVG   43 (79)
T ss_dssp             CCCSTTSCSCCSSSCEEEBTTTCCEEEHHHHT
T ss_pred             CeEeECCCccCCCCcEEECCCCCCcEeccccC
Confidence            4555999887666544444 499999999984

>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=85.58  E-value=0.15  Score=26.70  Aligned_cols=31  Identities=23%  Similarity=0.439  Sum_probs=22.1

Q ss_pred             CcccccCCcCCCCCceEEe-CCCCcccHHhHHH
Q psy16979         74 AQCVICLAPFQPGEEVKEL-LCHHKFHSECLEP  105 (114)
Q Consensus        74 ~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~  105 (114)
                      ..| ||......++..+.- .|...||..|+..
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~   48 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGI   48 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTC
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCC
Confidence            347 888777666544444 4999999999743

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.79  E-value=0.067  Score=26.58  Aligned_cols=32  Identities=22%  Similarity=0.423  Sum_probs=23.3

Q ss_pred             cccccCCcCCCCCceEEe-CCCCcccHHhHHHH
Q psy16979         75 QCVICLAPFQPGEEVKEL-LCHHKFHSECLEPW  106 (114)
Q Consensus        75 ~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~W  106 (114)
                      .|.+|...|..-..-..- -||.+|..+|....
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~   34 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQV   34 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCC
Confidence            689999999865533333 49999999996544

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Effector domain of rabphilin-3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.46  E-value=0.42  Score=27.75  Aligned_cols=31  Identities=16%  Similarity=0.431  Sum_probs=22.8

Q ss_pred             CCcccccCCcCCC-CCceEEe-CCCCcccHHhH
Q psy16979         73 DAQCVICLAPFQP-GEEVKEL-LCHHKFHSECL  103 (114)
Q Consensus        73 ~~~C~ICl~~~~~-~~~~~~l-pC~H~FH~~Ci  103 (114)
                      ...|.+|...|.. ....... .|++.||..|-
T Consensus        48 ~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~   80 (124)
T d1zbdb_          48 VNRCILCGEQLGMLGSASVVCEDCKKNVCTKCG   80 (124)
T ss_dssp             SSBCSSSCCBCSTTSCCEEECTTTCCEEETTSE
T ss_pred             CCcCcccCCcccCCCCCCCcCccCCcccccCCC
Confidence            5679999999874 3333333 59999999993

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

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

Probab=81.99  E-value=0.98  Score=23.75  Aligned_cols=36  Identities=19%  Similarity=0.356  Sum_probs=28.7

Q ss_pred             CCcccccCCcCCCCCceEEeC--CCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL--CHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp--C~H~FH~~Ci~~Wl~~  109 (114)
                      ...|.+|.|.+++. ..+..|  =+|.|+..|-+..+++
T Consensus         8 ~l~CtlC~erLEdt-HFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDT-HFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSST-TSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCC-ceEeCCCCcCCceeccccHHHHHh
Confidence            45799999998765 445556  4699999999999875

>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=81.85  E-value=0.14  Score=26.13  Aligned_cols=41  Identities=20%  Similarity=0.399  Sum_probs=26.8

Q ss_pred             CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979         73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP  114 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP  114 (114)
                      ...|--|...+.+. .+.+.| |++.|+.+|=.---+.-.+||
T Consensus        15 ~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dCD~fiHe~lh~Cp   56 (59)
T d1z60a1          15 ERFCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCP   56 (59)
T ss_dssp             CCEETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSS
T ss_pred             CCCccCCCCcCCCC-ceEECcCCCCccccccchhhhhhhcCCC
Confidence            45799999888644 445555 999999999432222233465

>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=81.80  E-value=1.2  Score=23.11  Aligned_cols=30  Identities=27%  Similarity=0.568  Sum_probs=20.6

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhH
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECL  103 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci  103 (114)
                      ...| ||......+..+.-=.|.-.||..|+
T Consensus        16 ~~~C-iC~~~~~~~~mi~Cd~C~~w~H~~Cv   45 (76)
T d1wema_          16 ALYC-ICRQPHNNRFMICCDRCEEWFHGDCV   45 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSSSCCEEEHHHH
T ss_pred             cCEE-ECCCccCCCeEEEECCCCCcCCcccc
Confidence            3457 89877654443333349999999998

>d2dasa1 g.39.1.17 (A:8-56) Zinc finger MYM-type protein 5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: TRASH domain
domain: Zinc finger MYM-type protein 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.69  E-value=1.7  Score=20.80  Aligned_cols=34  Identities=29%  Similarity=0.600  Sum_probs=27.4

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHH-hHHHH
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSE-CLEPW  106 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~-Ci~~W  106 (114)
                      ...|+-|...+..|+....- -+.|.|++. ||...
T Consensus        13 ~v~Ca~Ckk~lqKGQTAyqrkGs~~LFCSt~Cl~~~   48 (49)
T d2dasa1          13 KITCANCKKPLQKGQTAYQRKGSAHLFCSTTCLSSF   48 (49)
T ss_dssp             SCBCTTTCCBCCTTSCCEECTTCCCEESSHHHHHHH
T ss_pred             EeEecccchHHhccchHHhhCCCcceeEcchhhccc
Confidence            56899999999999965444 499999976 88753

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.33  E-value=0.25  Score=22.37  Aligned_cols=26  Identities=23%  Similarity=0.554  Sum_probs=19.7

Q ss_pred             CCcccccCCcCCCCCceEEe-CCCCcccHHh
Q psy16979         73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSEC  102 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~C  102 (114)
                      -+.|++|-+.+.+.    +| ..|-.||..|
T Consensus         8 lEkC~~C~~~I~dr----iLrA~Gk~yHP~C   34 (35)
T d2dloa1           8 LEKCATCSQPILDR----ILRAMGKAYHPGC   34 (35)
T ss_dssp             CCBCTTTCCBCCSC----CEEETTEEECTTT
T ss_pred             HHHHHHhchHHHHH----HHHHhCCCCCCCC
Confidence            46899999987643    33 3788899887

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

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

Probab=81.15  E-value=0.27  Score=24.87  Aligned_cols=34  Identities=32%  Similarity=0.572  Sum_probs=23.1

Q ss_pred             CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979         73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE  109 (114)
Q Consensus        73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~  109 (114)
                      ++.|.||.+   .++.+.-=.|.-.||..|+...++.
T Consensus         9 ~~~C~~C~~---~g~lv~Cd~C~~~~H~~C~~~~~~~   42 (61)
T d1mm2a_           9 MEFCRVCKD---GGELLCCDTCPSSYHIHCLNPPLPE   42 (61)
T ss_dssp             CSSCTTTCC---CSSCBCCSSSCCCBCSSSSSSCCSS
T ss_pred             cCCCcCCCC---CCeEEEeCCCCccCchhhcCCCcCc
Confidence            567999985   3433322249999999998765543