Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	N	L	F	V	G	L	D	I	Y	T	G	L	L	L	L	L	A	L	A	F	V	L	F	Y	E	A	I	N	G	F	H	D	T	A	N	A	V	A	A	V	I	Y	T	R	A	M	Q	P	Q	L	A	V	V	M	A	A	F	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																																								?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	F	F	G	V	L	L	G	G	L	S	V	A	Y	A	I	V	H	M	L	P	T	D	L	L	L	N	M	G	S	T	H	G	L	A	M	V	F	S	M	L	L	A	A	I	I	W	N	L	G	T	W	F	F	G	L	P	A	S	S
Secondary structure
SS confidence
Disorder																							?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	H	T	L	I	G	A	I	I	G	I	G	L	T	N	A	L	L	T	G	S	S	V	M	D	A	L	N	L	R	E	V	T	K	I	F	S	S	L	I	V	S	P	I	V	G	L	V	I	A	G	G	L	I	F	L	L	R	R	Y
Secondary structure
SS confidence
Disorder																				?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	S	G	T	K	K	R	D	R	I	H	R	I	P	E	D	R	K	K	K	K	G	K	R	K	P	P	F	W	T	R	I	A	L	I	V	S	A	A	G	V	A	F	S	H	G	A	N	D	G	Q	K	G	I	G	L	V	M	L	V
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?				?		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	V	G	I	A	P	A	G	F	V	V	N	M	N	A	S	G	Y	E	I	T	R	T	R	D	A	V	T	N	F	E	H	Y	L	Q	Q	H	P	E	L	P	Q	K	L	I	A	M	E	P	P	L	P	A	A	S	T	D	G	T	Q
Secondary structure
SS confidence
Disorder																	?	?			?		?		?	?	?	?										?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	T	E	F	H	C	H	P	A	N	T	F	D	A	I	A	R	V	K	T	M	L	P	G	N	M	E	S	Y	E	P	L	S	V	S	Q	R	S	Q	L	R	R	I	M	L	C	I	S	D	T	S	A	K	L	A	K	L	P	G	V
Secondary structure
SS confidence
Disorder				?		?	?	?	?	?	?	?	?	?	?	?							?		?				?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		S	K	E	D	Q	N	L	L	K	K	L	R	S	D	M	L	S	T	I	E	Y	A	P	V	W	I	I	M	A	V	A	L	A	L	G	I	G	T	M	I	G	W	R	R	V	A	M	T	I	G	E	K	I	G	K	R	G	M	T	Y
Secondary structure
SS confidence
Disorder														?	?	?	?	?	?	?																																		?		?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		A	Q	G	M	A	A	Q	M	T	A	A	V	S	I	G	L	A	S	Y	I	G	M	P	V	S	T	T	H	V	L	S	S	A	V	A	G	T	M	V	V	D	G	G	G	L	Q	R	K	T	V	T	S	I	L	M	A	W	V	F	T
Secondary structure
SS confidence
Disorder				?																	?					?													?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.
Sequence		L	P	A	A	I	F	L	S	G	G	L	Y	W	I	A	L	Q	L	I
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 2knc chain A Region: 377 - 393 Aligned: 17 Modelled: 17 Confidence: 30.9% Identity: 24% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 1j4n chain A Region: 13 - 196 Aligned: 175 Modelled: 184 Confidence: 29.9% Identity: 13% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 2ia2 chain D Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 28.8% Identity: 11% PDB header:transcription Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: the crystal structure of a putative transcriptional regulator rha061952 from rhodococcus sp. rha1 Phyre2 PDB 2bru chain C Region: 29 - 40 Aligned: 12 Modelled: 12 Confidence: 26.3% Identity: 42% PDB header:oxidoreductase Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta; PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase Phyre2 PDB 1h6i chain A Region: 13 - 177 Aligned: 163 Modelled: 165 Confidence: 24.7% Identity: 12% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 1d4o chain A Region: 29 - 40 Aligned: 12 Modelled: 12 Confidence: 24.3% Identity: 42% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Transhydrogenase domain III (dIII) Phyre2 PDB 1pt9 chain B Region: 29 - 40 Aligned: 12 Modelled: 12 Confidence: 24.1% Identity: 42% PDB header:oxidoreductase Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial; PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue Phyre2 PDB 1pno chain A Region: 29 - 40 Aligned: 12 Modelled: 12 Confidence: 23.9% Identity: 33% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Transhydrogenase domain III (dIII) Phyre2 PDB 2w2e chain A Region: 5 - 186 Aligned: 180 Modelled: 182 Confidence: 23.9% Identity: 17% PDB header:membrane protein Chain: A: PDB Molecule:aquaporin; PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin,2 aqy1, in a closed conformation at ph 3.5 Phyre2 PDB 2g7u chain B Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 23.2% Identity: 19% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1 Phyre2 PDB 3r4k chain D Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 20.4% Identity: 22% PDB header:dna binding protein Chain: D: PDB Molecule:transcriptional regulator, iclr family; PDBTitle: crystal structure of a putative iclr transcriptional regulator2 (tm1040_3717) from silicibacter sp. tm1040 at 2.46 a resolution Phyre2 PDB 1mkm chain A Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 17.9% Identity: 19% PDB header:transcription Chain: A: PDB Molecule:iclr transcriptional regulator; PDBTitle: crystal structure of the thermotoga maritima iclr Phyre2 PDB 2xro chain E Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 16.8% Identity: 26% PDB header:dna-binding protein/dna Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv; PDBTitle: crystal structure of ttgv in complex with its dna operator Phyre2 PDB 2k1a chain A Region: 378 - 393 Aligned: 16 Modelled: 16 Confidence: 15.2% Identity: 19% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 1vlp chain A domain 2 Region: 434 - 448 Aligned: 15 Modelled: 15 Confidence: 14.3% Identity: 27% Fold: TIM beta/alpha-barrel Superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like Family: Monomeric nicotinate phosphoribosyltransferase C-terminal domain Phyre2 PDB 1ybe chain A domain 1 Region: 434 - 448 Aligned: 15 Modelled: 15 Confidence: 14.1% Identity: 20% Fold: TIM beta/alpha-barrel Superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like Family: Monomeric nicotinate phosphoribosyltransferase C-terminal domain Phyre2 PDB 2o0y chain B Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 13.9% Identity: 19% PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp. Phyre2 PDB 1mkm chain A domain 1 Region: 436 - 462 Aligned: 27 Modelled: 27 Confidence: 13.7% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Transcriptional regulator IclR, N-terminal domain Phyre2 PDB 1s7b chain A Region: 54 - 157 Aligned: 87 Modelled: 91 Confidence: 12.3% Identity: 11% Fold: Multidrug resistance efflux transporter EmrE Superfamily: Multidrug resistance efflux transporter EmrE Family: Multidrug resistance efflux transporter EmrE Phyre2 PDB 2eia chain A domain 2 Region: 454 - 480 Aligned: 27 Modelled: 27 Confidence: 11.9% Identity: 11% Fold: Retrovirus capsid protein, N-terminal core domain Superfamily: Retrovirus capsid protein, N-terminal core domain Family: Retrovirus capsid protein, N-terminal core domain Phyre2 1 c2kncA_ 2 d1j4na_ 3 c2ia2D_ 4 c2bruC_ 5 d1h6ia_ 6 d1d4oa_ 7 c1pt9B_ 8 d1pnoa_ 9 c2w2eA_ 10 c2g7uB_ 11 c3r4kD_ 12 c1mkmA_ 13 c2xroE_ 14 c2k1aA_ 15 d1vlpa2 16 d1ybea1 17 c2o0yB_ 18 d1mkma1 19 d1s7ba_ 20 d2eiaa2 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 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99

Detailed template information

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

1 c2kncA_ 30.9 24 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 2 d1j4na_ 29.9 13 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 3 c2ia2D_ 28.8 11 PDB header:transcription Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: the crystal structure of a putative transcriptional regulator rha061952 from rhodococcus sp. rha1 4 c2bruC_ 26.3 42 PDB header:oxidoreductase Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta; PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase 5 d1h6ia_ 24.7 12 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 6 d1d4oa_ 24.3 42 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 7 c1pt9B_ 24.1 42 PDB header:oxidoreductase Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial; PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue 8 d1pnoa_ 23.9 33 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 9 c2w2eA_ 23.9 17 PDB header:membrane protein Chain: A: PDB Molecule:aquaporin; PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin,2 aqy1, in a closed conformation at ph 3.5 10 c2g7uB_ 23.2 19 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1 11 c3r4kD_ 20.4 22 PDB header:dna binding protein Chain: D: PDB Molecule:transcriptional regulator, iclr family; PDBTitle: crystal structure of a putative iclr transcriptional regulator2 (tm1040_3717) from silicibacter sp. tm1040 at 2.46 a resolution 12 c1mkmA_ 17.9 19 PDB header:transcription Chain: A: PDB Molecule:iclr transcriptional regulator; PDBTitle: crystal structure of the thermotoga maritima iclr 13 c2xroE_ 16.8 26 PDB header:dna-binding protein/dna Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv; PDBTitle: crystal structure of ttgv in complex with its dna operator 14 c2k1aA_ 15.2 19 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 15 d1vlpa2 14.3 27 Fold:TIM beta/alpha-barrel Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like Family:Monomeric nicotinate phosphoribosyltransferase C-terminal domain 16 d1ybea1 14.1 20 Fold:TIM beta/alpha-barrel Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like Family:Monomeric nicotinate phosphoribosyltransferase C-terminal domain 17 c2o0yB_ 13.9 19 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp. 18 d1mkma1 13.7 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain 19 d1s7ba_ 12.3 11 Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE 20 d2eiaa2 11.9 11 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 21 d1yira1 not modelled 11.7 20 Fold:TIM beta/alpha-barrel Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like Family:Monomeric nicotinate phosphoribosyltransferase C-terminal domain 22 c1vlpA_ not modelled 11.5 27 PDB header:transferase Chain: A: PDB Molecule:nicotinate phosphoribosyltransferase; PDBTitle: crystal structure of a putative nicotinate phosphoribosyltransferase2 (yor209c, npt1) from saccharomyces cerevisiae at 1.75 a resolution 23 d1bw6a_ not modelled 11.3 36 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 24 d2axtj1 not modelled 10.3 23 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein J, PsbJ Family:PsbJ-like 25 d1vqo21 not modelled 9.3 17 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Ribosomal protein L39e Family:Ribosomal protein L39e 26 c1l6nA_ not modelled 9.2 22 PDB header:viral protein Chain: A: PDB Molecule:gag polyprotein; PDBTitle: structure of the n-terminal 283-residue fragment of the hiv-2 1 gag polyprotein 27 c2qksA_ not modelled 9.2 14 PDB header:metal transport Chain: A: PDB Molecule:kir3.1-prokaryotic kir channel chimera; PDBTitle: crystal structure of a kir3.1-prokaryotic kir channel chimera 28 d1oeya_ not modelled 8.9 13 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 29 d1wh7a_ not modelled 8.5 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 30 c2wlvA_ not modelled 8.5 26 PDB header:virus protein Chain: A: PDB Molecule:gag polyprotein; PDBTitle: structure of the n-terminal capsid domain of hiv-2 31 d1m9fd_ not modelled 8.4 22 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 32 d2vv5a3 not modelled 8.4 20 Fold:Mechanosensitive channel protein MscS (YggB), transmembrane region Superfamily:Mechanosensitive channel protein MscS (YggB), transmembrane region Family:Mechanosensitive channel protein MscS (YggB), transmembrane region 33 d1ymga1 not modelled 8.4 13 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 34 c1ymgA_ not modelled 8.4 13 PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution 35 c2kdpA_ not modelled 8.2 19 PDB header:transcription Chain: A: PDB Molecule:histone deacetylase complex subunit sap30; PDBTitle: solution structure of the sap30 zinc finger motif 36 c2b2hA_ not modelled 7.9 14 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) 37 d2pxrc1 not modelled 7.7 22 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 38 d1jb0i_ not modelled 7.7 27 Fold:Single transmembrane helix Superfamily:Subunit VIII of photosystem I reaction centre, PsaI Family:Subunit VIII of photosystem I reaction centre, PsaI 39 c2im5C_ not modelled 7.6 47 PDB header:transferase Chain: C: PDB Molecule:nicotinate phosphoribosyltransferase; PDBTitle: crystal structure of nicotinate phosphoribosyltransferase2 from porphyromonas gingivalis 40 d2fhfa4 not modelled 7.5 67 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 41 d2coba1 not modelled 7.5 45 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Psq domain 42 c2d57A_ not modelled 7.3 21 PDB header:transport protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: double layered 2d crystal structure of aquaporin-4 (aqp4m23) at 3.2 a2 resolution by electron crystallography 43 d1uc8a1 not modelled 7.0 16 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:Lysine biosynthesis enzyme LysX, N-terminal domain 44 c1ifpA_ not modelled 6.8 14 PDB header:virus Chain: A: PDB Molecule:major coat protein assembly; PDBTitle: inovirus (filamentous bacteriophage) strain pf3 major coat2 protein assembly 45 d1de4c3 not modelled 6.8 13 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:FolH catalytic domain-like 46 c2ajmA_ not modelled 6.7 20 PDB header:membrane protein Chain: A: PDB Molecule:nonstructural protein 5a; PDBTitle: nmr structure of the in-plane membrane anchor domain [1-28]2 of the monotopic nonstructural protein 5a (ns5a) from the3 bovine viral diarrhea virus (bvdv) 47 d2ae9a1 not modelled 6.6 30 Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-like 48 c1ybeA_ not modelled 6.6 20 PDB header:transferase Chain: A: PDB Molecule:nicotinate phosphoribosyltransferase; PDBTitle: crystal structure of a nicotinate phosphoribosyltransferase 49 c3a0bx_ not modelled 6.6 9 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 50 c3a0hX_ not modelled 6.6 9 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 51 c3a0hx_ not modelled 6.6 9 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 52 c3a0bX_ not modelled 6.6 9 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 53 c1z6fA_ not modelled 6.5 23 PDB header:hydrolase Chain: A: PDB Molecule:penicillin-binding protein 5; PDBTitle: crystal structure of penicillin-binding protein 5 from e. coli in2 complex with a boronic acid inhibitor 54 c3d9sB_ not modelled 6.5 18 PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure 55 c2ootA_ not modelled 6.5 20 PDB header:hydrolase Chain: A: PDB Molecule:glutamate carboxypeptidase 2; PDBTitle: a high resolution structure of ligand-free human glutamate2 carboxypeptidase ii 56 d1hlva1 not modelled 6.4 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 57 d1sknp_ not modelled 6.4 28 Fold:A DNA-binding domain in eukaryotic transcription factors Superfamily:A DNA-binding domain in eukaryotic transcription factors Family:A DNA-binding domain in eukaryotic transcription factors 58 d1j8yf2 not modelled 6.4 16 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 59 d2idob1 not modelled 6.4 25 Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-like 60 c2xgyA_ not modelled 6.3 15 PDB header:viral protein/isomerase Chain: A: PDB Molecule:relik capsid n-terminal domain; PDBTitle: complex of rabbit endogenous lentivirus (relik)capsid with2 cyclophilin a 61 d1m9dc_ not modelled 6.3 26 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 62 d1fuia1 not modelled 6.2 44 Fold:Reductase/isomerase/elongation factor common domain Superfamily:FucI/AraA C-terminal domain-like Family:L-fucose isomerase, C-terminal domain 63 c1q90R_ not modelled 6.1 28 PDB header:photosynthesis Chain: R: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii 64 d1q90r_ not modelled 6.1 28 Fold:Single transmembrane helix Superfamily:ISP transmembrane anchor Family:ISP transmembrane anchor 65 c1s5lx_ not modelled 6.1 9 PDB header:photosynthesis Chain: X: PDB Molecule:photosystem ii psbx protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 66 d1c8za_ not modelled 6.0 14 Fold:Tubby C-terminal domain-like Superfamily:Tubby C-terminal domain-like Family:Transcriptional factor tubby, C-terminal domain 67 d1fi4a1 not modelled 6.0 24 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:GHMP Kinase, N-terminal domain 68 c2rq5A_ not modelled 5.9 18 PDB header:transcription Chain: A: PDB Molecule:protein jumonji; PDBTitle: solution structure of the at-rich interaction domain (arid)2 of jumonji/jarid2 69 c3b9yA_ not modelled 5.9 10 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 70 d1se7a_ not modelled 5.8 25 Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-like 71 d2f7fa1 not modelled 5.8 40 Fold:TIM beta/alpha-barrel Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like Family:NadC C-terminal domain-like 72 c1y32A_ not modelled 5.8 35 PDB header:unknown function Chain: A: PDB Molecule:humanin; PDBTitle: nmr structure of humanin in 30% tfe solution 73 d1obfo2 not modelled 5.8 67 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 74 c2f7fA_ not modelled 5.8 18 PDB header:transferase Chain: A: PDB Molecule:nicotinate phosphoribosyltransferase, putative; PDBTitle: crystal structure of enterococcus faecalis putative nicotinate2 phosphoribosyltransferase, new york structural genomics consortium 75 d2afwa1 not modelled 5.7 33 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:Glutaminyl-peptide cyclotransferase-like 76 d1wpga4 not modelled 5.7 20 Fold:Calcium ATPase, transmembrane domain M Superfamily:Calcium ATPase, transmembrane domain M Family:Calcium ATPase, transmembrane domain M 77 c3mfdB_ not modelled 5.6 19 PDB header:hydrolase Chain: B: PDB Molecule:d-alanyl-d-alanine carboxypeptidase dacb; PDBTitle: the structure of the beta-lactamase superfamily domain of d-alanyl-d-2 alanine carboxypeptidase from bacillus subtilis 78 c3os4A_ not modelled 5.6 20 PDB header:transferase Chain: A: PDB Molecule:nicotinate phosphoribosyltransferase; PDBTitle: the crystal structure of nicotinate phosphoribosyltransferase from2 yersinia pestis 79 d1qd1a1 not modelled 5.6 30 Fold:Ferredoxin-like Superfamily:Formiminotransferase domain of formiminotransferase-cyclodeaminase. Family:Formiminotransferase domain of formiminotransferase-cyclodeaminase. 80 d1ag7a_ not modelled 5.6 50 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:omega toxin-like Family:Conotoxin 81 c3gd8A_ not modelled 5.6 21 PDB header:membrane protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: crystal structure of human aquaporin 4 at 1.8 and its mechanism of2 conductance 82 d1iyxa2 not modelled 5.6 15 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 83 c2h3oA_ not modelled 5.5 18 PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices 84 c2dvyA_ not modelled 5.5 56 PDB header:hydrolase Chain: A: PDB Molecule:restriction endonuclease pabi; PDBTitle: crystal structure of restriction endonucleases pabi 85 d1bg6a1 not modelled 5.5 4 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:N-(1-D-carboxylethyl)-L-norvaline dehydrogenase 86 d2h5na1 not modelled 5.5 25 Fold:TerB-like Superfamily:TerB-like Family:PG1108-like 87 c1xooA_ not modelled 5.5 56 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of g1s mutant of influenza hemagglutinin2 fusion peptide in dpc micelles at ph 5 88 c2kvlA_ not modelled 5.4 14 PDB header:viral protein Chain: A: PDB Molecule:major outer capsid protein vp7; PDBTitle: nmr structure of the c-terminal domain of vp7 89 c1cx8F_ not modelled 5.4 13 PDB header:metal transport Chain: F: PDB Molecule:transferrin receptor protein; PDBTitle: crytal structure of the ectodomain of human transferrin receptor 90 c2bsjB_ not modelled 5.4 15 PDB header:chaperone Chain: B: PDB Molecule:chaperone protein syct; PDBTitle: native crystal structure of the type iii secretion2 chaperone syct from yersinia enterocolitica 91 d1pvda1 not modelled 5.4 21 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 92 c1fi4A_ not modelled 5.3 24 PDB header:lyase Chain: A: PDB Molecule:mevalonate 5-diphosphate decarboxylase; PDBTitle: the x-ray crystal structure of mevalonate 5-diphosphate decarboxylase2 at 2.3 angstrom resolution. 93 c1wazA_ not modelled 5.3 18 PDB header:transport protein Chain: A: PDB Molecule:merf; PDBTitle: nmr structure determination of the bacterial mercury2 transporter, merf, in micelles 94 d1c4ka1 not modelled 5.3 50 Fold:Flavodoxin-like Superfamily:CheY-like Family:Ornithine decarboxylase N-terminal "wing" domain 95 c3ipdB_ not modelled 5.3 5 PDB header:exocytosis Chain: B: PDB Molecule:syntaxin-1a; PDBTitle: helical extension of the neuronal snare complex into the2 membrane, spacegroup i 21 21 21 96 d2ptza2 not modelled 5.3 14 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 97 c3b8eB_ not modelled 5.3 5 PDB header:hydrolase/transport protein Chain: B: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump 98 d1kjqa3 not modelled 5.3 23 Fold:ATP-grasp Superfamily:Glutathione synthetase ATP-binding domain-like Family:BC ATP-binding domain-like 99 c1ot0A_ not modelled 5.2 13 PDB header:antibiotic Chain: A: PDB Molecule:50s ribosomal protein l1; PDBTitle: structure of antimicrobial peptide, hp (2-20) and its2 analogues derived from helicobacter pylori, as determined3 by 1h nmr spectroscopy

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

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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