Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	T	I	V	S	V	R	R	N	G	H	V	V	I	A	G	D	G	Q	A	T	L	G	N	T	V	M	K	G	N	V	K	K	V	R	R	L	Y	N	D	K	V	I	A	G	F	A	G	G	T	A	D	A	F	T	L	F	E	L
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	E	R	K	L	E	M	H	Q	G	H	L	V	K	A	A	V	E	L	A	K	D	W	R	T	D	R	M	L	R	K	L	E	A	L	L	A	V	A	D	E	T	A	S	L	I	I	T	G	N	G	D	V	V	Q	P	E	N	D	L
Secondary structure
SS confidence
Disorder									?	?	?	?	?																	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.
Sequence		I	A	I	G	S	G	G	P	Y	A	Q	A	A	A	R	A	L	L	E	N	T	E	L	S	A	R	E	I	A	E	K	A	L	D	I	A	G	D	I	C	I	Y	T	N	H	F	H	T	I	E	E	L	S	Y	K	A
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 1e94 chain A Region: 2 - 175 Aligned: 174 Modelled: 174 Confidence: 100.0% Identity: 100% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1m4y chain A Region: 2 - 172 Aligned: 171 Modelled: 171 Confidence: 100.0% Identity: 67% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1g3k chain A Region: 2 - 172 Aligned: 171 Modelled: 171 Confidence: 100.0% Identity: 80% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 2z3b chain A domain 1 Region: 2 - 172 Aligned: 171 Modelled: 171 Confidence: 100.0% Identity: 54% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1ryp chain I Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 24% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1iru chain I Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 20% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 3nzw chain H Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 24% PDB header:hydrolase/hydrolase inhibitor Chain: H: PDB Molecule:proteasome component pup1; PDBTitle: crystal structure of the yeast 20s proteasome in complex with 2b Phyre2 PDB 1q5r chain H Region: 2 - 176 Aligned: 174 Modelled: 175 Confidence: 100.0% Identity: 26% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1iru chain K Region: 1 - 176 Aligned: 173 Modelled: 176 Confidence: 100.0% Identity: 15% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1iru chain H Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 19% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1ryp chain L Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 20% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1ryp chain 2 Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 16% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 2zcy chain M Region: 2 - 176 Aligned: 172 Modelled: 173 Confidence: 100.0% Identity: 16% PDB header:hydrolase Chain: M: PDB Molecule:proteasome component pre4; PDBTitle: yeast 20s proteasome:syringolin a-complex Phyre2 PDB 1iru chain L Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 19% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 2h6j chain I Region: 2 - 176 Aligned: 174 Modelled: 175 Confidence: 100.0% Identity: 26% PDB header:hydrolase Chain: I: PDB Molecule:proteasome beta-type subunit 1; PDBTitle: crystal structure of the beta f145a rhodococcus proteasome (casp2 target) Phyre2 PDB 1ryp chain K Region: 1 - 176 Aligned: 173 Modelled: 176 Confidence: 100.0% Identity: 17% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1q5q chain H Region: 2 - 176 Aligned: 174 Modelled: 175 Confidence: 100.0% Identity: 27% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 1ryp chain 1 Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 14% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 3nzx chain K Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 20% PDB header:hydrolase/hydrolase inhibitor Chain: K: PDB Molecule:proteasome component pre2; PDBTitle: crystal structure of the yeast 20s proteasome in complex with ligand2 2c Phyre2 PDB 1iru chain 2 Region: 2 - 176 Aligned: 172 Modelled: 175 Confidence: 100.0% Identity: 19% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 1 d1e94a_ 2 d1m4ya_ 3 d1g3ka_ 4 d2z3ba1 5 d1rypi_ 6 d1irui_ 7 c3nzwH_ 8 d1q5rh_ 9 d1iruk_ 10 d1iruh_ 11 d1rypl_ 12 d1ryp2_ 13 c2zcyM_ 14 d1irul_ 15 c2h6jI_ 16 d1rypk_ 17 d1q5qh_ 18 d1ryp1_ 19 c3nzxK_ 20 d1iru2_ 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

Detailed template information

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

1 d1e94a_ 100.0 100 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 2 d1m4ya_ 100.0 67 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 3 d1g3ka_ 100.0 80 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 4 d2z3ba1 100.0 54 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 5 d1rypi_ 100.0 24 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 6 d1irui_ 100.0 20 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 7 c3nzwH_ 100.0 24 PDB header:hydrolase/hydrolase inhibitor Chain: H: PDB Molecule:proteasome component pup1; PDBTitle: crystal structure of the yeast 20s proteasome in complex with 2b 8 d1q5rh_ 100.0 26 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 9 d1iruk_ 100.0 15 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 10 d1iruh_ 100.0 19 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 11 d1rypl_ 100.0 20 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 12 d1ryp2_ 100.0 16 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 13 c2zcyM_ 100.0 16 PDB header:hydrolase Chain: M: PDB Molecule:proteasome component pre4; PDBTitle: yeast 20s proteasome:syringolin a-complex 14 d1irul_ 100.0 19 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 15 c2h6jI_ 100.0 26 PDB header:hydrolase Chain: I: PDB Molecule:proteasome beta-type subunit 1; PDBTitle: crystal structure of the beta f145a rhodococcus proteasome (casp2 target) 16 d1rypk_ 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 17 d1q5qh_ 100.0 27 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 18 d1ryp1_ 100.0 14 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 19 c3nzxK_ 100.0 20 PDB header:hydrolase/hydrolase inhibitor Chain: K: PDB Molecule:proteasome component pre2; PDBTitle: crystal structure of the yeast 20s proteasome in complex with ligand2 2c 20 d1iru2_ 100.0 19 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 21 d1iruj_ not modelled 100.0 13 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 22 c2fhgC_ not modelled 100.0 29 PDB header:hydrolase Chain: C: PDB Molecule:proteasome, beta subunit; PDBTitle: crystal structure of mycobacterial tuberculosis proteasome 23 d1ryph_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 24 d1yarh1 not modelled 100.0 20 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 25 d1iru1_ not modelled 100.0 19 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 26 d1rypj_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 27 d1j2qh_ not modelled 100.0 20 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 28 d1rypc_ not modelled 100.0 19 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 29 c3h4pj_ not modelled 100.0 19 PDB header:hydrolase Chain: J: PDB Molecule:proteasome subunit alpha; PDBTitle: proteasome 20s core particle from methanocaldococcus2 jannaschii 30 d1rypa_ not modelled 100.0 12 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 31 d1rypb_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 32 d1irub_ not modelled 100.0 13 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 33 d1iruc_ not modelled 100.0 19 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 34 d1irua_ not modelled 100.0 14 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 35 d1rypd_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 36 c2jayA_ not modelled 100.0 27 PDB header:hydrolase Chain: A: PDB Molecule:proteasome; PDBTitle: proteasome beta subunit prcb from mycobacterium2 tuberculosis 37 d1j2pa_ not modelled 100.0 15 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 38 d1rype_ not modelled 100.0 20 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 39 d1yara1 not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 40 d1rypf_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 41 d1rypg_ not modelled 100.0 15 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 42 c3bdmF_ not modelled 100.0 15 PDB header:hydrolase Chain: F: PDB Molecule:proteasome component c1; PDBTitle: yeast 20s proteasome:glidobactin a-complex 43 d1irug_ not modelled 100.0 18 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 44 d1irue_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 45 c1q5rD_ not modelled 100.0 17 PDB header:hydrolase Chain: D: PDB Molecule:proteasome alpha-type subunit 1; PDBTitle: the rhodococcus 20s proteasome with unprocessed pro-peptides 46 d1q5qa_ not modelled 100.0 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 47 c3h4pB_ not modelled 100.0 24 PDB header:hydrolase Chain: B: PDB Molecule:proteasome subunit alpha; PDBTitle: proteasome 20s core particle from methanocaldococcus2 jannaschii 48 d1iruf_ not modelled 100.0 15 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 49 c1iruF_ not modelled 100.0 15 PDB header:hydrolase Chain: F: PDB Molecule:20s proteasome; PDBTitle: crystal structure of the mammalian 20s proteasome at 2.75 a2 resolution 50 d1irud_ not modelled 100.0 15 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 51 d2d9ia1 not modelled 39.6 8 Fold:IF3-like Superfamily:SMR domain-like Family:Smr domain 52 d2ahra1 not modelled 37.7 22 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:ProC C-terminal domain-like 53 c3sirD_ not modelled 29.6 9 PDB header:hydrolase Chain: D: PDB Molecule:caspase; PDBTitle: crystal structure of drice 54 d1yqga1 not modelled 29.3 25 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:ProC C-terminal domain-like 55 d1ex2a_ not modelled 17.9 15 Fold:Anticodon-binding domain-like Superfamily:ITPase-like Family:Maf-like 56 d1dkia_ not modelled 16.5 36 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Papain-like 57 d1r0va3 not modelled 14.6 24 Fold:MutS N-terminal domain-like Superfamily:tRNA-intron endonuclease N-terminal domain-like Family:tRNA-intron endonuclease N-terminal domain-like 58 d2i5ua1 not modelled 14.6 18 Fold:DnaD domain-like Superfamily:DnaD domain-like Family:DnaD domain 59 c2vkcA_ not modelled 13.3 8 PDB header:hydrolase Chain: A: PDB Molecule:nedd4-binding protein 2; PDBTitle: solution structure of the b3bp smr domain 60 c3bb7A_ not modelled 12.0 28 PDB header:hydrolase Chain: A: PDB Molecule:interpain a; PDBTitle: structure of prevotella intermedia prointerpain a fragment 39-3592 (mutant c154a) 61 c2p5xB_ not modelled 10.1 32 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:n-acetylserotonin o-methyltransferase-like protein; PDBTitle: crystal structure of maf domain of human n-acetylserotonin o-2 methyltransferase-like protein 62 c3qd7X_ not modelled 9.9 6 PDB header:hydrolase Chain: X: PDB Molecule:uncharacterized protein ydal; PDBTitle: crystal structure of ydal, a stand-alone small muts-related protein2 from escherichia coli 63 d2amha1 not modelled 9.3 12 Fold:Anticodon-binding domain-like Superfamily:ITPase-like Family:Maf-like 64 d1vi9a_ not modelled 8.7 22 Fold:Ribokinase-like Superfamily:Ribokinase-like Family:PfkB-like kinase 65 c2kwpA_ not modelled 8.2 14 PDB header:transcription Chain: A: PDB Molecule:transcription elongation protein nusa; PDBTitle: solution structure of the aminoterminal domain of e. coli nusa 66 d1wjfa_ not modelled 7.8 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:N-terminal Zn binding domain of HIV integrase Family:N-terminal Zn binding domain of HIV integrase 67 c3nmeA_ not modelled 7.7 18 PDB header:hydrolase Chain: A: PDB Molecule:sex4 glucan phosphatase; PDBTitle: structure of a plant phosphatase 68 d1pvja_ not modelled 7.4 22 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Papain-like 69 c3ikmD_ not modelled 7.1 29 PDB header:transferase Chain: D: PDB Molecule:dna polymerase subunit gamma-1; PDBTitle: crystal structure of human mitochondrial dna polymerase2 holoenzyme 70 d1k6ya1 not modelled 7.1 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:N-terminal Zn binding domain of HIV integrase Family:N-terminal Zn binding domain of HIV integrase 71 d1e0ea_ not modelled 6.3 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:N-terminal Zn binding domain of HIV integrase Family:N-terminal Zn binding domain of HIV integrase 72 c2jqoA_ not modelled 6.1 0 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yoba; PDBTitle: nmr solution structure of bacillus subtilis yoba 21-120:2 northeast structural genomics consortium target sr547 73 c2zqeA_ not modelled 6.0 22 PDB header:dna binding protein Chain: A: PDB Molecule:muts2 protein; PDBTitle: crystal structure of the smr domain of thermus thermophilus muts2

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