Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	I	P	S	I	Y	L	H	Q	Q	L	H	Y	C	K	T	A	I	L	N	W	S	R	K	M	A	L	S	R	Q	K	F	T	F	E	R	L	R	R	F	T	L	P	E	G	K	K	Q	T	F	L	W	D	A	D	V	T	T	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?													?		?	?	?	?	?	?	?	?	?			?										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	C	R	A	T	S	G	A	K	A	F	V	F	Q	S	V	Y	A	G	K	T	L	R	M	T	I	G	N	I	N	D	W	K	I	D	D	A	R	A	E	A	R	R	L	Q	T	L	I	D	T	G	I	D	P	R	I	A	K	A	V
Secondary structure
SS confidence
Disorder																																																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	I	A	E	A	E	S	L	Q	A	E	S	R	K	T	K	V	T	F	S	V	A	W	E	D	Y	L	Q	E	L	R	T	G	I	S	A	K	T	K	R	P	Y	S	T	R	Y	I	A	D	H	I	N	L	S	S	R	G	G	E	S
Secondary structure
SS confidence
Disorder															?																			?	?		?	?																			?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		K	K	R	G	Q	G	P	T	S	A	G	P	L	A	S	L	L	N	L	P	L	S	E	L	T	P	D	Y	I	A	A	W	L	S	T	E	R	Q	N	R	P	T	V	T	A	H	A	Y	R	L	L	R	A	F	I	K	W	S	N	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?		?			?																												?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		Q	K	K	Y	Q	G	I	I	P	G	D	L	A	Q	D	Y	N	V	R	K	M	V	P	V	S	A	S	K	A	D	D	C	L	Q	K	E	Q	L	K	S	W	F	S	A	V	R	S	L	N	N	P	I	A	S	A	Y	L	Q	V	L
Secondary structure
SS confidence
Disorder																		?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	L	T	G	A	R	R	E	E	I	A	S	L	R	W	S	D	V	D	F	K	W	S	S	M	R	I	K	D	K	I	E	G	E	R	I	I	P	L	T	P	Y	V	S	E	L	L	N	V	L	A	Q	S	P	N	S	D	V	N	K
Secondary structure
SS confidence
Disorder																																																						?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		E	G	W	V	F	R	S	N	S	K	S	G	K	I	I	E	P	R	S	A	H	N	R	A	L	V	L	A	E	L	P	H	I	S	L	H	G	L	R	R	S	F	G	T	L	A	E	W	V	E	V	P	T	G	I	V	A	Q	I	M
Secondary structure
SS confidence
Disorder											?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.
Sequence		G	H	K	P	S	A	L	A	E	K	H	Y	R	R	R	P	L	D	L	L	R	K	W	H	E	K	I	E	T	W	I	L	N	E	A	G	I	T	I	K	N	N	V	D	M	R
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 1z1b chain A Region: 58 - 436 Aligned: 326 Modelled: 343 Confidence: 100.0% Identity: 14% PDB header:dna binding protein/dna Chain: A: PDB Molecule:integrase; PDBTitle: crystal structure of a lambda integrase dimer bound to a2 coc' core site Phyre2 PDB 1p7d chain A Region: 137 - 434 Aligned: 262 Modelled: 273 Confidence: 100.0% Identity: 14% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1ma7 chain A Region: 138 - 449 Aligned: 290 Modelled: 291 Confidence: 100.0% Identity: 13% PDB header:hydrolase, ligase/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: crystal structure of cre site-specific recombinase2 complexed with a mutant dna substrate, loxp-a8/t27 Phyre2 PDB 3nkh chain B Region: 268 - 449 Aligned: 182 Modelled: 182 Confidence: 100.0% Identity: 18% PDB header:recombination Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of integrase from mrsa strain staphylococcus aureus Phyre2 PDB 1crx chain A Region: 140 - 449 Aligned: 288 Modelled: 289 Confidence: 100.0% Identity: 13% PDB header:replication/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: cre recombinase/dna complex reaction intermediate i Phyre2 PDB 1aih chain A Region: 267 - 446 Aligned: 162 Modelled: 164 Confidence: 99.9% Identity: 17% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1a0p chain A Region: 141 - 445 Aligned: 259 Modelled: 267 Confidence: 99.9% Identity: 22% PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd Phyre2 PDB 2a3v chain A Region: 140 - 436 Aligned: 254 Modelled: 275 Confidence: 99.9% Identity: 19% PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination Phyre2 PDB 1a0p chain A domain 2 Region: 271 - 445 Aligned: 172 Modelled: 175 Confidence: 99.9% Identity: 21% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3ju0 chain A Region: 33 - 129 Aligned: 93 Modelled: 95 Confidence: 99.9% Identity: 18% PDB header:dna binding protein Chain: A: PDB Molecule:phage integrase; PDBTitle: structure of the arm-type binding domain of hai7 integrase Phyre2 PDB 1ae9 chain A Region: 269 - 437 Aligned: 165 Modelled: 169 Confidence: 99.9% Identity: 12% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1f44 chain A domain 2 Region: 266 - 449 Aligned: 183 Modelled: 184 Confidence: 99.9% Identity: 15% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3jtz chain A Region: 33 - 111 Aligned: 75 Modelled: 77 Confidence: 99.8% Identity: 17% PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: structure of the arm-type binding domain of hpi integrase Phyre2 PDB 5crx chain B domain 2 Region: 266 - 421 Aligned: 156 Modelled: 156 Confidence: 99.8% Identity: 16% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 2khv chain A Region: 137 - 263 Aligned: 106 Modelled: 106 Confidence: 99.3% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of protein nmul_a0922 from2 nitrosospira multiformis. northeast structural genomics3 consortium target nmr38b. Phyre2 PDB 2kj8 chain A Region: 135 - 270 Aligned: 114 Modelled: 114 Confidence: 99.2% Identity: 11% PDB header:dna binding protein Chain: A: PDB Molecule:putative prophage cps-53 integrase; PDBTitle: nmr structure of fragment 87-196 from the putative phage2 integrase ints of e. coli: northeast structural genomics3 consortium target er652a, psi-2 Phyre2 PDB 2kj9 chain A Region: 131 - 265 Aligned: 112 Modelled: 113 Confidence: 99.2% Identity: 13% PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: nmr structure of intb phage-integrase-like protein fragment2 90-199 from erwinia carotova subsp. atroseptica: northeast3 structural genomics consortium target ewr217e Phyre2 PDB 2kiw chain A Region: 138 - 265 Aligned: 105 Modelled: 105 Confidence: 99.1% Identity: 10% PDB header:dna binding protein Chain: A: PDB Molecule:int protein; PDBTitle: solution nmr structure of the domain n-terminal to the2 integrase domain of sh1003 from staphylococcus3 haemolyticus. northeast structural genomics consortium4 target shr105f (64-166). Phyre2 PDB 2kkv chain A Region: 132 - 272 Aligned: 118 Modelled: 119 Confidence: 99.1% Identity: 8% PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: solution nmr structure of an integrase domain from protein2 spa4288 from salmonella enterica, northeast structural3 genomics consortium target slr105h Phyre2 PDB 2kj5 chain A Region: 132 - 266 Aligned: 112 Modelled: 112 Confidence: 99.1% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of a domain from a putative phage2 integrase protein nmul_a0064 from nitrosospira multiformis,3 northeast structural genomics consortium target nmr46c Phyre2 1 c1z1bA_ 2 d1p7da_ 3 c1ma7A_ 4 c3nkhB_ 5 c1crxA_ 6 d1aiha_ 7 c1a0pA_ 8 c2a3vA_ 9 d1a0pa2 10 c3ju0A_ 11 d1ae9a_ 12 d1f44a2 13 c3jtzA_ 14 d5crxb2 15 c2khvA_ 16 c2kj8A_ 17 c2kj9A_ 18 c2kiwA_ 19 c2kkvA_ 20 c2kj5A_ 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

Detailed template information

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

1 c1z1bA_ 100.0 14 PDB header:dna binding protein/dna Chain: A: PDB Molecule:integrase; PDBTitle: crystal structure of a lambda integrase dimer bound to a2 coc' core site 2 d1p7da_ 100.0 14 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 3 c1ma7A_ 100.0 13 PDB header:hydrolase, ligase/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: crystal structure of cre site-specific recombinase2 complexed with a mutant dna substrate, loxp-a8/t27 4 c3nkhB_ 100.0 18 PDB header:recombination Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of integrase from mrsa strain staphylococcus aureus 5 c1crxA_ 100.0 13 PDB header:replication/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: cre recombinase/dna complex reaction intermediate i 6 d1aiha_ 99.9 17 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 7 c1a0pA_ 99.9 22 PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd 8 c2a3vA_ 99.9 19 PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination 9 d1a0pa2 99.9 21 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 10 c3ju0A_ 99.9 18 PDB header:dna binding protein Chain: A: PDB Molecule:phage integrase; PDBTitle: structure of the arm-type binding domain of hai7 integrase 11 d1ae9a_ 99.9 12 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 12 d1f44a2 99.9 15 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 13 c3jtzA_ 99.8 17 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: structure of the arm-type binding domain of hpi integrase 14 d5crxb2 99.8 16 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 15 c2khvA_ 99.3 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of protein nmul_a0922 from2 nitrosospira multiformis. northeast structural genomics3 consortium target nmr38b. 16 c2kj8A_ 99.2 11 PDB header:dna binding protein Chain: A: PDB Molecule:putative prophage cps-53 integrase; PDBTitle: nmr structure of fragment 87-196 from the putative phage2 integrase ints of e. coli: northeast structural genomics3 consortium target er652a, psi-2 17 c2kj9A_ 99.2 13 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: nmr structure of intb phage-integrase-like protein fragment2 90-199 from erwinia carotova subsp. atroseptica: northeast3 structural genomics consortium target ewr217e 18 c2kiwA_ 99.1 10 PDB header:dna binding protein Chain: A: PDB Molecule:int protein; PDBTitle: solution nmr structure of the domain n-terminal to the2 integrase domain of sh1003 from staphylococcus3 haemolyticus. northeast structural genomics consortium4 target shr105f (64-166). 19 c2kkvA_ 99.1 8 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: solution nmr structure of an integrase domain from protein2 spa4288 from salmonella enterica, northeast structural3 genomics consortium target slr105h 20 c2kj5A_ 99.1 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of a domain from a putative phage2 integrase protein nmul_a0064 from nitrosospira multiformis,3 northeast structural genomics consortium target nmr46c 21 c2oxoA_ not modelled 99.0 15 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: crystallization and structure determination of the core-2 binding domain of bacteriophage lambda integrase 22 c2khqA_ not modelled 98.9 7 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: solution nmr structure of a phage integrase ssp19472 fragment 59-159 from staphylococcus saprophyticus,3 northeast structural genomics consortium target syr103b 23 c2kd1A_ not modelled 98.9 12 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:dna integration/recombination/invertion protein; PDBTitle: solution nmr structure of the integrase-like domain from2 bacillus cereus ordered locus bc_1272. northeast3 structural genomics consortium target bcr268f 24 c2kobA_ not modelled 98.9 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of clolep_01837 (fragment 61-160)2 from clostridium leptum. northeast structural genomics3 consortium target qlr8a 25 c3lysC_ not modelled 98.8 19 PDB header:recombination Chain: C: PDB Molecule:prophage pi2 protein 01, integrase; PDBTitle: crystal structure of the n-terminal domain of the prophage2 pi2 protein 01 (integrase) from lactococcus lactis,3 northeast structural genomics consortium target kr124f 26 c2kkpA_ not modelled 98.8 12 PDB header:dna binding protein Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of the phage integrase sam-like2 domain from moth 1796 from moorella thermoacetica.3 northeast structural genomics consortium target mtr39k4 (residues 64-171). 27 c2keyA_ not modelled 98.2 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative phage integrase; PDBTitle: solution nmr structure of a domain from a putative phage integrase2 protein bf2284 from bacteroides fragilis, northeast structural3 genomics consortium target bfr257c 28 c3nrwA_ not modelled 98.1 11 PDB header:recombination Chain: A: PDB Molecule:phage integrase/site-specific recombinase; PDBTitle: crystal structure of the n-terminal domain of phage integrase/site-2 specific recombinase (tnp) from haloarcula marismortui, northeast3 structural genomics consortium target hmr208a 29 c2v6eB_ not modelled 97.2 16 PDB header:hydrolase Chain: B: PDB Molecule:protelemorase; PDBTitle: protelomerase telk complexed with substrate dna 30 c2f4qA_ not modelled 95.5 13 PDB header:isomerase Chain: A: PDB Molecule:type i topoisomerase, putative; PDBTitle: crystal structure of deinococcus radiodurans topoisomerase ib 31 d1a0pa1 not modelled 95.0 17 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 32 c2h7fX_ not modelled 89.6 15 PDB header:isomerase/dna Chain: X: PDB Molecule:dna topoisomerase 1; PDBTitle: structure of variola topoisomerase covalently bound to dna 33 c2b9sA_ not modelled 73.1 15 PDB header:isomerase/dna Chain: A: PDB Molecule:topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex 34 c3igmA_ not modelled 71.0 10 PDB header:transcription/dna Chain: A: PDB Molecule:pf14_0633 protein; PDBTitle: a 2.2a crystal structure of the ap2 domain of pf14_0633 from p.2 falciparum, bound as a domain-swapped dimer to its cognate dna 35 d1k4ta2 not modelled 49.3 15 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 36 d1a41a_ not modelled 47.4 18 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 37 d1rr8c1 not modelled 36.6 15 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 38 d1f44a1 not modelled 29.1 12 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 39 d2auwa1 not modelled 28.2 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 40 c1a31A_ not modelled 25.2 13 PDB header:isomerase/dna Chain: A: PDB Molecule:protein (topoisomerase i); PDBTitle: human reconstituted dna topoisomerase i in covalent complex2 with a 22 base pair dna duplex 41 d2csba1 not modelled 22.7 20 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 42 d1j6xa_ not modelled 20.7 17 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 43 d1e43a1 not modelled 16.5 34 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 44 c3sy3D_ not modelled 15.0 7 PDB header:lyase Chain: D: PDB Molecule:gbaa_1210 protein; PDBTitle: gbaa_1210 protein, a putative adenylate cyclase, from bacillus2 anthracis 45 c3mxnA_ not modelled 14.5 6 PDB header:replication Chain: A: PDB Molecule:recq-mediated genome instability protein 1; PDBTitle: crystal structure of the rmi core complex 46 d1uxca_ not modelled 12.4 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 47 d1vjea_ not modelled 12.2 33 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 48 d1j6wa_ not modelled 11.9 19 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 49 c2j5dA_ not modelled 11.6 45 PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: nmr structure of bnip3 transmembrane domain in lipid2 bicelles 50 d1khda1 not modelled 11.5 29 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 51 c1nh3A_ not modelled 11.2 16 PDB header:isomerase/dna Chain: A: PDB Molecule:dna topoisomerase i; PDBTitle: human topoisomerase i ara-c complex 52 c3hshA_ not modelled 11.2 13 PDB header:protein binding Chain: A: PDB Molecule:collagen alpha-1(xviii) chain; PDBTitle: crystal structure of human collagen xviii trimerization domain2 (tetragonal crystal form) 53 c3lsoA_ not modelled 11.1 20 PDB header:membrane protein Chain: A: PDB Molecule:putative membrane anchored protein; PDBTitle: crystal structure of putative membrane anchored protein from2 corynebacterium diphtheriae 54 c2l8nA_ not modelled 10.9 17 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional repressor cytr; PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna 55 c2i3eA_ not modelled 10.2 19 PDB header:hydrolase Chain: A: PDB Molecule:g-rich; PDBTitle: solution structure of catalytic domain of goldfish rich2 protein 56 c2zcyM_ not modelled 9.5 7 PDB header:hydrolase Chain: M: PDB Molecule:proteasome component pre4; PDBTitle: yeast 20s proteasome:syringolin a-complex 57 c1q7lB_ not modelled 9.3 12 PDB header:hydrolase Chain: B: PDB Molecule:aminoacylase-1; PDBTitle: zn-binding domain of the t347g mutant of human aminoacylase-2 i 58 c2bpqB_ not modelled 9.3 10 PDB header:transferase Chain: B: PDB Molecule:anthranilate phosphoribosyltransferase; PDBTitle: anthranilate phosphoribosyltransferase (trpd) from2 mycobacterium tuberculosis (apo structure) 59 c2auwB_ not modelled 8.8 17 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 60 d1uxda_ not modelled 8.6 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 61 d1m5ya3 not modelled 8.1 19 Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase 62 d2d3na1 not modelled 8.0 24 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 63 d2cqra1 not modelled 7.8 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 64 d1okia2 not modelled 7.8 19 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 65 c2ka2B_ not modelled 6.9 42 PDB header:membrane protein Chain: B: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles with his173-ser172 intermonomer3 hydrogen bond restraints 66 c2ka2A_ not modelled 6.9 42 PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles with his173-ser172 intermonomer3 hydrogen bond restraints 67 c2ka1A_ not modelled 6.9 42 PDB header:membrane protein Chain: A: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles 68 c2ka1B_ not modelled 6.9 42 PDB header:membrane protein Chain: B: PDB Molecule:bcl2/adenovirus e1b 19 kda protein-interacting PDBTitle: solution nmr structure of bnip3 transmembrane peptide dimer2 in detergent micelles 69 d1x48a1 not modelled 6.9 11 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:Double-stranded RNA-binding domain (dsRBD) 70 d2gf5a1 not modelled 6.6 17 Fold:DEATH domain Superfamily:DEATH domain Family:DEATH domain, DD 71 d1lcda_ not modelled 6.5 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 72 d1ryp2_ not modelled 6.4 7 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 73 d2izva1 not modelled 6.4 27 Fold:SOCS box-like Superfamily:SOCS box-like Family:SOCS box-like 74 d2i2la1 not modelled 6.4 24 Fold:YopX-like Superfamily:YopX-like Family:YopX-like 75 d1v8ga1 not modelled 6.2 27 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 76 d2gjpa1 not modelled 5.9 22 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 77 d1vkza1 not modelled 5.8 24 Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:BC C-terminal domain-like 78 c2jzvA_ not modelled 5.6 23 PDB header:isomerase Chain: A: PDB Molecule:foldase protein prsa; PDBTitle: solution structure of s. aureus prsa-ppiase 79 c2bgcA_ not modelled 5.5 18 PDB header:transcription Chain: A: PDB Molecule:prfa; PDBTitle: prfa-g145s, a constitutive active mutant of the2 transcriptional regulator in l.monocytogenes 80 d1j98a_ not modelled 5.5 16 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 81 d1qpza1 not modelled 5.3 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 82 c2lcvA_ not modelled 5.3 17 PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional repressor cytr; PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation 83 d2bjca1 not modelled 5.1 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 84 c2nogA_ not modelled 5.1 8 PDB header:dna binding protein Chain: A: PDB Molecule:iswi protein; PDBTitle: sant domain structure of xenopus remodeling factor iswi 85 d1xg1a1 not modelled 5.0 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:DNA-binding domain of telomeric protein 86 d1gsoa1 not modelled 5.0 21 Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:BC C-terminal domain-like

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