Secondary structure and disorder prediction

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Sequence		M	A	K	G	I	R	E	K	I	K	L	V	S	S	A	G	T	G	H	F	Y	T	T	T	K	N	K	R	T	K	P	E	K	L	E	L	K	K	F	D	P	V	V	R	Q	H	V	I	Y	K	E	A	K	I	K
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 2zjr chain 1 domain 1 Region: 3 - 53 Aligned: 51 Modelled: 51 Confidence: 99.9% Identity: 57% Fold: Rubredoxin-like Superfamily: Zn-binding ribosomal proteins Family: Ribosomal protein L33p Phyre2 PDB 2gyc chain 1 domain 1 Region: 2 - 53 Aligned: 52 Modelled: 52 Confidence: 99.9% Identity: 100% Fold: Rubredoxin-like Superfamily: Zn-binding ribosomal proteins Family: Ribosomal protein L33p Phyre2 PDB 2b9n chain 6 Region: 3 - 53 Aligned: 51 Modelled: 51 Confidence: 99.9% Identity: 57% PDB header:ribosome Chain: 6: PDB Molecule:50s ribosomal protein l33; PDBTitle: 50s ribosomal subunit from a crystal structure of release factor rf2,2 trnas and mrna bound to the ribosome. this file contains the 50s3 subunit from a crystal structure of release factor rf1, trnas and4 mrna bound to the ribosome and is described in remark 400. Phyre2 PDB 2ftc chain P Region: 2 - 53 Aligned: 50 Modelled: 52 Confidence: 99.8% Identity: 44% PDB header:ribosome Chain: P: PDB Molecule:mitochondrial ribosomal protein l33 isoform a; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome Phyre2 PDB 3bbo chain 3 Region: 1 - 53 Aligned: 53 Modelled: 53 Confidence: 99.5% Identity: 42% PDB header:ribosome Chain: 3: PDB Molecule:ribosomal protein l33; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome Phyre2 PDB 3d5d chain 6 Region: 9 - 51 Aligned: 43 Modelled: 43 Confidence: 98.9% Identity: 40% PDB header:ribosome Chain: 6: PDB Molecule:50s ribosomal protein l33; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of the second 70s ribosome. the entire3 crystal structure contains two 70s ribosomes as described in remark4 400. Phyre2 PDB 3f1z chain F Region: 3 - 33 Aligned: 31 Modelled: 31 Confidence: 23.5% Identity: 29% PDB header:dna binding protein Chain: F: PDB Molecule:putative nucleic acid-binding lipoprotein; PDBTitle: crystal structure of putative nucleic acid-binding lipoprotein2 (yp_001337197.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 2.46 a resolution Phyre2 PDB 1a9x chain A domain 1 Region: 4 - 24 Aligned: 21 Modelled: 21 Confidence: 19.4% Identity: 24% Fold: Carbamoyl phosphate synthetase, large subunit connection domain Superfamily: Carbamoyl phosphate synthetase, large subunit connection domain Family: Carbamoyl phosphate synthetase, large subunit connection domain Phyre2 PDB 1yfb chain A domain 1 Region: 32 - 41 Aligned: 10 Modelled: 10 Confidence: 13.8% Identity: 60% Fold: Double-split beta-barrel Superfamily: AbrB/MazE/MraZ-like Family: AbrB N-terminal domain-like Phyre2 PDB 2fy9 chain A domain 1 Region: 32 - 41 Aligned: 10 Modelled: 10 Confidence: 9.4% Identity: 50% Fold: Double-split beta-barrel Superfamily: AbrB/MazE/MraZ-like Family: AbrB N-terminal domain-like Phyre2 PDB 1vqo chain 3 domain 1 Region: 35 - 55 Aligned: 21 Modelled: 21 Confidence: 9.3% Identity: 14% Fold: Rubredoxin-like Superfamily: Zn-binding ribosomal proteins Family: Ribosomal protein L44e Phyre2 PDB 1u0l chain A domain 1 Region: 10 - 49 Aligned: 40 Modelled: 40 Confidence: 8.9% Identity: 20% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Cold shock DNA-binding domain-like Phyre2 PDB 2zkr chain 4 Region: 35 - 55 Aligned: 21 Modelled: 21 Confidence: 8.2% Identity: 19% PDB header:ribosomal protein/rna Chain: 4: PDB Molecule:60s ribosomal protein l44e; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 2ro5 chain B Region: 33 - 42 Aligned: 10 Modelled: 10 Confidence: 7.5% Identity: 40% PDB header:transcription Chain: B: PDB Molecule:stage v sporulation protein t; PDBTitle: rdc-refined solution structure of the n-terminal dna2 recognition domain of the bacillus subtilis transition-3 state regulator spovt Phyre2 PDB 2w9j chain B Region: 14 - 27 Aligned: 14 Modelled: 14 Confidence: 7.4% Identity: 50% PDB header:signaling protein Chain: B: PDB Molecule:signal recognition particle subunit srp14; PDBTitle: the crystal structure of srp14 from the schizosaccharomyces2 pombe signal recognition particle Phyre2 PDB 4a19 chain C Region: 35 - 55 Aligned: 21 Modelled: 21 Confidence: 7.3% Identity: 19% PDB header:ribosome Chain: C: PDB Molecule:60s ribosomal protein l36a; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. Phyre2 PDB 1fs1 chain B domain 2 Region: 7 - 19 Aligned: 13 Modelled: 13 Confidence: 6.5% Identity: 46% Fold: POZ domain Superfamily: POZ domain Family: BTB/POZ domain Phyre2 1 d2zjr11 2 d2gyc11 3 c2b9n6_ 4 c2ftcP_ 5 c3bbo3_ 6 c3d5d6_ 7 c3f1zF_ 8 d1a9xa1 9 d1yfba1 10 d2fy9a1 11 d1vqo31 12 d1u0la1 13 c2zkr4_ 14 c2ro5B_ 15 c2w9jB_ 16 c4a19C_ 17 d1fs1b2

Detailed template information

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

1 d2zjr11 99.9 57 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L33p 2 d2gyc11 99.9 100 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L33p 3 c2b9n6_ 99.9 57 PDB header:ribosome Chain: 6: PDB Molecule:50s ribosomal protein l33; PDBTitle: 50s ribosomal subunit from a crystal structure of release factor rf2,2 trnas and mrna bound to the ribosome. this file contains the 50s3 subunit from a crystal structure of release factor rf1, trnas and4 mrna bound to the ribosome and is described in remark 400. 4 c2ftcP_ 99.8 44 PDB header:ribosome Chain: P: PDB Molecule:mitochondrial ribosomal protein l33 isoform a; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 5 c3bbo3_ 99.5 42 PDB header:ribosome Chain: 3: PDB Molecule:ribosomal protein l33; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 6 c3d5d6_ 98.9 40 PDB header:ribosome Chain: 6: PDB Molecule:50s ribosomal protein l33; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of the second 70s ribosome. the entire3 crystal structure contains two 70s ribosomes as described in remark4 400. 7 c3f1zF_ 23.5 29 PDB header:dna binding protein Chain: F: PDB Molecule:putative nucleic acid-binding lipoprotein; PDBTitle: crystal structure of putative nucleic acid-binding lipoprotein2 (yp_001337197.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 2.46 a resolution 8 d1a9xa1 19.4 24 Fold:Carbamoyl phosphate synthetase, large subunit connection domain Superfamily:Carbamoyl phosphate synthetase, large subunit connection domain Family:Carbamoyl phosphate synthetase, large subunit connection domain 9 d1yfba1 13.8 60 Fold:Double-split beta-barrel Superfamily:AbrB/MazE/MraZ-like Family:AbrB N-terminal domain-like 10 d2fy9a1 9.4 50 Fold:Double-split beta-barrel Superfamily:AbrB/MazE/MraZ-like Family:AbrB N-terminal domain-like 11 d1vqo31 9.3 14 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L44e 12 d1u0la1 8.9 20 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 13 c2zkr4_ 8.2 19 PDB header:ribosomal protein/rna Chain: 4: PDB Molecule:60s ribosomal protein l44e; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 14 c2ro5B_ 7.5 40 PDB header:transcription Chain: B: PDB Molecule:stage v sporulation protein t; PDBTitle: rdc-refined solution structure of the n-terminal dna2 recognition domain of the bacillus subtilis transition-3 state regulator spovt 15 c2w9jB_ 7.4 50 PDB header:signaling protein Chain: B: PDB Molecule:signal recognition particle subunit srp14; PDBTitle: the crystal structure of srp14 from the schizosaccharomyces2 pombe signal recognition particle 16 c4a19C_ 7.3 19 PDB header:ribosome Chain: C: PDB Molecule:60s ribosomal protein l36a; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. 17 d1fs1b2 6.5 46 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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