Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	M	H	S	G	T	F	N	P	Q	D	F	A	W	Q	G	L	T	L	T	P	A	A	A	I	H	I	R	E	L	V	A	K	Q	P	G	M	V	G	V	R	L	G	V	K	Q	T	G	C	A	G	F	G	Y	V	L	D	S	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	E	P	D	K	D	D	L	L	F	E	H	D	G	A	K	L	F	V	P	L	Q	A	M	P	F	I	D	G	T	E	V	D	F	V	R	E	G	L	N	Q	I	F	K	F	H	N	P	K	A	Q	N	E	C	G	C	G	E	S	F
Secondary structure
SS confidence
Disorder																																						?	?	?	?	?	?	?							?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.
Sequence		G	V
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence

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 2d2a chain A Region: 9 - 122 Aligned: 114 Modelled: 114 Confidence: 100.0% Identity: 100% PDB header:metal transport Chain: A: PDB Molecule:sufa protein; PDBTitle: crystal structure of escherichia coli sufa involved in2 biosynthesis of iron-sulfur clusters Phyre2 PDB 2apn chain A Region: 15 - 122 Aligned: 108 Modelled: 108 Confidence: 100.0% Identity: 29% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein hi1723; PDBTitle: hi1723 solution structure Phyre2 PDB 1x0g chain A Region: 18 - 122 Aligned: 98 Modelled: 105 Confidence: 100.0% Identity: 35% PDB header:metal binding protein Chain: A: PDB Molecule:isca; PDBTitle: crystal structure of isca with the [2fe-2s] cluster Phyre2 PDB 1s98 chain A Region: 18 - 112 Aligned: 95 Modelled: 95 Confidence: 100.0% Identity: 44% Fold: HesB-like domain Superfamily: HesB-like domain Family: HesB-like domain Phyre2 PDB 2k4z chain A Region: 2 - 112 Aligned: 110 Modelled: 111 Confidence: 100.0% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:dsrr; PDBTitle: solution nmr structure of allochromatium vinosum dsrr:2 northeast structural genomics consortium target op5 Phyre2 PDB 1nwb chain A Region: 11 - 108 Aligned: 98 Modelled: 98 Confidence: 99.9% Identity: 26% Fold: HesB-like domain Superfamily: HesB-like domain Family: HesB-like domain Phyre2 PDB 2p2e chain A domain 1 Region: 16 - 110 Aligned: 93 Modelled: 95 Confidence: 98.7% Identity: 14% Fold: HesB-like domain Superfamily: HesB-like domain Family: HesB-like domain Phyre2 PDB 2qgo chain A Region: 16 - 110 Aligned: 89 Modelled: 95 Confidence: 98.4% Identity: 9% PDB header:biosynthetic protein Chain: A: PDB Molecule:putative fe-s biosynthesis protein; PDBTitle: crystal structure of a putative fe-s biosynthesis protein from2 lactobacillus acidophilus Phyre2 PDB 3pm7 chain A Region: 7 - 35 Aligned: 29 Modelled: 28 Confidence: 33.8% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of ef_3132 protein from enterococcus faecalis at the2 resolution 2a, northeast structural genomics consortium target efr184 Phyre2 PDB 2frh chain A domain 1 Region: 9 - 34 Aligned: 26 Modelled: 26 Confidence: 23.0% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 PDB 1sp2 chain A Region: 113 - 121 Aligned: 9 Modelled: 9 Confidence: 21.1% Identity: 44% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1zfd chain A Region: 115 - 121 Aligned: 7 Modelled: 7 Confidence: 18.1% Identity: 43% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1a1i chain A domain 1 Region: 115 - 121 Aligned: 7 Modelled: 7 Confidence: 16.5% Identity: 29% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 2gli chain A domain 3 Region: 115 - 121 Aligned: 7 Modelled: 7 Confidence: 16.4% Identity: 43% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1aay chain A domain 1 Region: 115 - 121 Aligned: 7 Modelled: 7 Confidence: 15.6% Identity: 29% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1p4x chain A domain 1 Region: 9 - 33 Aligned: 25 Modelled: 25 Confidence: 15.6% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 PDB 1ubd chain C domain 3 Region: 115 - 121 Aligned: 7 Modelled: 7 Confidence: 15.2% Identity: 57% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1p4x chain A domain 2 Region: 9 - 34 Aligned: 26 Modelled: 26 Confidence: 15.2% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 PDB 3obh chain A Region: 7 - 33 Aligned: 27 Modelled: 27 Confidence: 14.9% Identity: 15% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: x-ray crystal structure of protein sp_0782 (7-79) from streptococcus2 pneumoniae. northeast structural genomics consortium target spr104 Phyre2 PDB 1a1h chain A domain 1 Region: 115 - 121 Aligned: 7 Modelled: 7 Confidence: 14.7% Identity: 29% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 1 c2d2aA_ 2 c2apnA_ 3 c1x0gA_ 4 d1s98a_ 5 c2k4zA_ 6 d1nwba_ 7 d2p2ea1 8 c2qgoA_ 9 c3pm7A_ 10 d2frha1 11 d1sp2a_ 12 d1zfda_ 13 d1a1ia1 14 d2glia3 15 d1aaya1 16 d1p4xa1 17 d1ubdc3 18 d1p4xa2 19 c3obhA_ 20 d1a1ha1 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

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c2d2aA_ 100.0 100 PDB header:metal transport Chain: A: PDB Molecule:sufa protein; PDBTitle: crystal structure of escherichia coli sufa involved in2 biosynthesis of iron-sulfur clusters 2 c2apnA_ 100.0 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein hi1723; PDBTitle: hi1723 solution structure 3 c1x0gA_ 100.0 35 PDB header:metal binding protein Chain: A: PDB Molecule:isca; PDBTitle: crystal structure of isca with the [2fe-2s] cluster 4 d1s98a_ 100.0 44 Fold:HesB-like domain Superfamily:HesB-like domain Family:HesB-like domain 5 c2k4zA_ 100.0 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:dsrr; PDBTitle: solution nmr structure of allochromatium vinosum dsrr:2 northeast structural genomics consortium target op5 6 d1nwba_ 99.9 26 Fold:HesB-like domain Superfamily:HesB-like domain Family:HesB-like domain 7 d2p2ea1 98.7 14 Fold:HesB-like domain Superfamily:HesB-like domain Family:HesB-like domain 8 c2qgoA_ 98.4 9 PDB header:biosynthetic protein Chain: A: PDB Molecule:putative fe-s biosynthesis protein; PDBTitle: crystal structure of a putative fe-s biosynthesis protein from2 lactobacillus acidophilus 9 c3pm7A_ 33.8 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of ef_3132 protein from enterococcus faecalis at the2 resolution 2a, northeast structural genomics consortium target efr184 10 d2frha1 23.0 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 11 d1sp2a_ 21.1 44 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 12 d1zfda_ 18.1 43 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 13 d1a1ia1 16.5 29 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 14 d2glia3 16.4 43 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 15 d1aaya1 15.6 29 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 16 d1p4xa1 15.6 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 17 d1ubdc3 15.2 57 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 18 d1p4xa2 15.2 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 19 c3obhA_ 14.9 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: x-ray crystal structure of protein sp_0782 (7-79) from streptococcus2 pneumoniae. northeast structural genomics consortium target spr104 20 d1a1ha1 14.7 29 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 21 d1f2ig1 not modelled 14.6 33 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 22 d1hsja1 not modelled 14.2 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 23 d1a1ga1 not modelled 14.2 29 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 24 c2kvfA_ not modelled 14.1 38 PDB header:transcription Chain: A: PDB Molecule:zinc finger and btb domain-containing protein 32; PDBTitle: structure of the three-cys2his2 domain of mouse testis zinc2 finger protein 25 c1p4xA_ not modelled 13.8 15 PDB header:transcription Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue; PDBTitle: crystal structure of sars protein from staphylococcus aureus 26 d1tf3a2 not modelled 13.8 43 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 27 d1u86a1 not modelled 11.7 44 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 28 d1vsra_ not modelled 10.7 17 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Very short patch repair (VSR) endonuclease 29 d1l7da2 not modelled 10.0 20 Fold:Flavodoxin-like Superfamily:Formate/glycerate dehydrogenase catalytic domain-like Family:L-alanine dehydrogenase-like 30 d1ncsa_ not modelled 10.0 43 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 31 d2dlka2 not modelled 9.7 57 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 32 c1bcrA_ not modelled 9.7 15 PDB header:hydrolase/hydrolase inhibitor Chain: A: PDB Molecule:serine carboxypeptidase ii; PDBTitle: complex of the wheat serine carboxypeptidase, cpdw-ii, with the2 microbial peptide aldehyde inhibitor, antipain, and arginine at room3 temperature 33 d2yt9a1 not modelled 9.6 43 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 34 d2h85a2 not modelled 9.5 29 Fold:EndoU-like Superfamily:EndoU-like Family:Nsp15 C-terminal domain-like 35 c3me5A_ not modelled 9.5 19 PDB header:transferase Chain: A: PDB Molecule:cytosine-specific methyltransferase; PDBTitle: crystal structure of putative dna cytosine methylase from shigella2 flexneri 2a str. 301 36 c2kdxA_ not modelled 9.3 26 PDB header:metal-binding protein Chain: A: PDB Molecule:hydrogenase/urease nickel incorporation protein PDBTitle: solution structure of hypa protein 37 c2ab3A_ not modelled 9.3 67 PDB header:rna binding protein Chain: A: PDB Molecule:znf29; PDBTitle: solution structures and characterization of hiv rre iib rna2 targeting zinc finger proteins 38 d1x6ea2 not modelled 9.0 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 39 c2yujA_ not modelled 9.0 25 PDB header:protein binding Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like; PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1 40 d1rp0a1 not modelled 8.8 17 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:Thi4-like 41 c1zc1A_ not modelled 8.5 23 PDB header:protein turnover Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1; PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites 42 c3a44D_ not modelled 8.3 17 PDB header:metal binding protein Chain: D: PDB Molecule:hydrogenase nickel incorporation protein hypa; PDBTitle: crystal structure of hypa in the dimeric form 43 c1va1A_ not modelled 8.2 57 PDB header:transcription Chain: A: PDB Molecule:transcription factor sp1; PDBTitle: solution structure of transcription factor sp1 dna binding2 domain (zinc finger 1) 44 d1jj7a_ not modelled 8.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:ABC transporter ATPase domain-like 45 c3c3jA_ not modelled 7.9 38 PDB header:isomerase Chain: A: PDB Molecule:putative tagatose-6-phosphate ketose/aldose isomerase; PDBTitle: crystal structure of tagatose-6-phosphate ketose/aldose isomerase from2 escherichia coli 46 c1znmA_ not modelled 7.8 38 PDB header:zinc finger Chain: A: PDB Molecule:yy1; PDBTitle: a zinc finger with an artificial beta-turn, original2 sequence taken from the third zinc finger domain of the3 human transcriptional repressor protein yy1 (ying and yang4 1, a delta transcription factor), nmr, 34 structures 47 d1wgea1 not modelled 7.7 40 Fold:Rubredoxin-like Superfamily:CSL zinc finger Family:CSL zinc finger 48 c3odpA_ not modelled 7.1 38 PDB header:isomerase Chain: A: PDB Molecule:putative tagatose-6-phosphate ketose/aldose isomerase; PDBTitle: crystal structure of a putative tagatose-6-phosphate ketose/aldose2 isomerase (nt01cx_0292) from clostridium novyi nt at 2.35 a3 resolution 49 c2qrlA_ not modelled 7.1 24 PDB header:oxidoreductase Chain: A: PDB Molecule:saccharopine dehydrogenase, nad+, l-lysine- PDBTitle: crystal structure of oxalylglycine-bound saccharopine2 dehydrogenase (l-lys forming) from saccharomyces cerevisiae 50 d1wmia1 not modelled 7.1 7 Fold:RelE-like Superfamily:RelE-like Family:RelE-like 51 c2nq2C_ not modelled 7.0 16 PDB header:metal transport Chain: C: PDB Molecule:hypothetical abc transporter atp-binding protein PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter. 52 c3g5oC_ not modelled 6.9 20 PDB header:toxin/antitoxin Chain: C: PDB Molecule:uncharacterized protein rv2866; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis 53 c1gxsC_ not modelled 6.7 18 PDB header:lyase Chain: C: PDB Molecule:p-(s)-hydroxymandelonitrile lyase chain a; PDBTitle: crystal structure of hydroxynitrile lyase from sorghum2 bicolor in complex with inhibitor benzoic acid: a novel3 cyanogenic enzyme 54 d2cota1 not modelled 6.6 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 55 c3nbbC_ not modelled 6.5 14 PDB header:oxidoreductase Chain: C: PDB Molecule:peroxisomal primary amine oxidase; PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha 56 c2entA_ not modelled 6.0 50 PDB header:transcription Chain: A: PDB Molecule:krueppel-like factor 15; PDBTitle: solution structure of the second c2h2-type zinc finger2 domain from human krueppel-like factor 15 57 c1ekmC_ not modelled 5.8 14 PDB header:oxidoreductase Chain: C: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure at 2.5 a resolution of zinc-substituted2 copper amine oxidase of hansenula polymorpha expressed in3 escherichia coli 58 d2bs2b2 not modelled 5.8 12 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins 59 d2fbia1 not modelled 5.7 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 60 d1ywsa1 not modelled 5.7 40 Fold:Rubredoxin-like Superfamily:CSL zinc finger Family:CSL zinc finger 61 d1qabe_ not modelled 5.6 24 Fold:Lipocalins Superfamily:Lipocalins Family:Retinol binding protein-like 62 d1kt7a_ not modelled 5.5 16 Fold:Lipocalins Superfamily:Lipocalins Family:Retinol binding protein-like 63 d1jgsa_ not modelled 5.5 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 64 d2cota2 not modelled 5.4 67 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 65 c2ayuA_ not modelled 5.4 10 PDB header:chaperone Chain: A: PDB Molecule:nucleosome assembly protein; PDBTitle: the structure of nucleosome assembly protein suggests a mechanism for2 histone binding and shuttling 66 d2ayua1 not modelled 5.4 10 Fold:NAP-like Superfamily:NAP-like Family:NAP-like 67 c3g3zA_ not modelled 5.3 24 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, marr family; PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis 68 d1a1ia3 not modelled 5.3 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 69 c3h5jA_ not modelled 5.2 60 PDB header:lyase Chain: A: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: leud_1-168 small subunit of isopropylmalate isomerase (rv2987c) from2 mycobacterium tuberculosis 70 c3o2eA_ not modelled 5.1 16 PDB header:unknown function Chain: A: PDB Molecule:bola-like protein; PDBTitle: crystal structure of a bol-like protein from babesia bovis 71 d1u85a1 not modelled 5.1 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2

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