Email l.a.kelley@imperial.ac.uk Description C6Y4C5 Date Sun Jul 8 11:45:09 BST 2012 Unique Job ID f13ef4164a1ce267

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1lv3a_ Top template information Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:Hypothetical zinc finger protein YacG Confidence and coverage Confidence: 54.7% Coverage: 26% 22 residues ( 26% of your sequence) have been modelled with 54.7% confidence by the single highest scoring template. You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library. Please note: You must be registered and logged in to use Phyrealarm. 3D viewing Interactive 3D view in Jmol

Sequence analysis

Secondary structure and disorder prediction

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 1lv3 chain A Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 54.7% Identity: 41% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: Hypothetical zinc finger protein YacG Phyre2 PDB 2jw6 chain A domain 1 Region: 6 - 29 Aligned: 24 Modelled: 24 Confidence: 52.6% Identity: 38% Fold: HIT/MYND zinc finger-like Superfamily: HIT/MYND zinc finger-like Family: MYND zinc finger Phyre2 PDB 2odd chain A Region: 4 - 27 Aligned: 24 Modelled: 24 Confidence: 47.8% Identity: 33% PDB header:metal binding protein Chain: A: PDB Molecule:protein cbfa2t1; PDBTitle: solution structure of the mynd domain from aml1-eto2 complexed with smrt, a corepressor Phyre2 PDB 2d8v chain A domain 1 Region: 3 - 21 Aligned: 19 Modelled: 19 Confidence: 43.5% Identity: 53% Fold: B-box zinc-binding domain Superfamily: B-box zinc-binding domain Family: B-box zinc-binding domain Phyre2 PDB 2jw6 chain A Region: 6 - 30 Aligned: 25 Modelled: 25 Confidence: 42.6% Identity: 36% PDB header:transcription Chain: A: PDB Molecule:deformed epidermal autoregulatory factor 1 homolog; PDBTitle: solution structure of the deaf1 mynd domain Phyre2 PDB 2dj8 chain A domain 1 Region: 4 - 29 Aligned: 26 Modelled: 26 Confidence: 40.4% Identity: 31% Fold: HIT/MYND zinc finger-like Superfamily: HIT/MYND zinc finger-like Family: MYND zinc finger Phyre2 PDB 2yqq chain A Region: 1 - 23 Aligned: 23 Modelled: 23 Confidence: 39.9% Identity: 30% PDB header:protein binding Chain: A: PDB Molecule:zinc finger hit domain-containing protein 3; PDBTitle: solution structure of the zf-hit domain in zinc finger hit2 domain-containing protein 3 (trip-3) Phyre2 PDB 2dj8 chain A Region: 2 - 27 Aligned: 26 Modelled: 26 Confidence: 39.6% Identity: 31% PDB header:metal binding protein Chain: A: PDB Molecule:protein cbfa2t1; PDBTitle: solution structure of zf-mynd domain of protein cbfa2ti2 (protein mtg8) Phyre2 PDB 2dan chain A domain 1 Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 38.2% Identity: 32% Fold: HIT/MYND zinc finger-like Superfamily: HIT/MYND zinc finger-like Family: MYND zinc finger Phyre2 PDB 2d8q chain A domain 1 Region: 6 - 29 Aligned: 24 Modelled: 24 Confidence: 32.3% Identity: 29% Fold: HIT/MYND zinc finger-like Superfamily: HIT/MYND zinc finger-like Family: MYND zinc finger Phyre2 PDB 2dan chain A Region: 6 - 27 Aligned: 22 Modelled: 22 Confidence: 31.8% Identity: 32% PDB header:metal binding protein Chain: A: PDB Molecule:zinc finger mynd domain containing protein 10; PDBTitle: the solution structure of the mynd domain (leu384-cys430)2 of human zinc finger mynd domain containing protein 10 Phyre2 PDB 1u5k chain A domain 2 Region: 2 - 31 Aligned: 28 Modelled: 30 Confidence: 29.4% Identity: 21% Fold: ArfGap/RecO-like zinc finger Superfamily: ArfGap/RecO-like zinc finger Family: RecO C-terminal domain-like Phyre2 PDB 3o37 chain D Region: 2 - 24 Aligned: 21 Modelled: 23 Confidence: 27.4% Identity: 33% PDB header:transcription/protein binding Chain: D: PDB Molecule:transcription intermediary factor 1-alpha; PDBTitle: crystal structure of trim24 phd-bromo complexed with h3(1-10)k42 peptide Phyre2 PDB 3q8d chain B Region: 2 - 22 Aligned: 21 Modelled: 21 Confidence: 25.6% Identity: 29% PDB header:dna binding protein Chain: B: PDB Molecule:dna repair protein reco; PDBTitle: e. coli reco complex with ssb c-terminus Phyre2 PDB 1u5k chain A Region: 2 - 84 Aligned: 80 Modelled: 83 Confidence: 25.3% Identity: 13% PDB header:recombination,replication Chain: A: PDB Molecule:hypothetical protein; PDBTitle: recombinational repair protein reco Phyre2 PDB 1hcq chain A Region: 2 - 18 Aligned: 17 Modelled: 17 Confidence: 22.9% Identity: 29% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: Nuclear receptor Phyre2 PDB 1ibi chain A domain 2 Region: 6 - 19 Aligned: 14 Modelled: 14 Confidence: 18.2% Identity: 71% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 2nll chain A Region: 6 - 18 Aligned: 13 Modelled: 13 Confidence: 17.0% Identity: 46% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: Nuclear receptor Phyre2 PDB 1hra chain A Region: 6 - 18 Aligned: 13 Modelled: 13 Confidence: 14.0% Identity: 31% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: Nuclear receptor Phyre2 PDB 2a66 chain A Region: 5 - 18 Aligned: 14 Modelled: 14 Confidence: 13.0% Identity: 36% PDB header:transcription/dna Chain: A: PDB Molecule:orphan nuclear receptor nr5a2; PDBTitle: human liver receptor homologue dna-binding domain (hlrh-12 dbd) in complex with dsdna from the hcyp7a1 promoter Phyre2 1 d1lv3a_ 2 d2jw6a1 3 c2oddA_ 4 d2d8va1 5 c2jw6A_ 6 d2dj8a1 7 c2yqqA_ 8 c2dj8A_ 9 d2dana1 10 d2d8qa1 11 c2danA_ 12 d1u5ka2 13 c3o37D_ 14 c3q8dB_ 15 c1u5kA_ 16 d1hcqa_ 17 d1ibia2 18 d2nlla_ 19 d1hraa_ 20 c2a66A_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0