Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	L	F	R	R	N	E	I	W	Y	A	S	Y	S	L	P	G	G	K	R	I	K	E	S	L	G	T	K	D	K	R	Q	A	Q	E	L	H	D	K	R	K	A	E	L	W	R	V	E	K	L	G	D	L	P	D	V	T	F	E
Secondary structure
SS confidence
Disorder		?	?	?		?																																										?	?	?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	A	C	L	R	W	L	E	E	K	A	D	K	K	S	L	D	S	D	K	S	R	I	E	F	W	L	E	H	F	E	G	I	R	L	K	D	I	S	E	A	K	I	Y	S	A	V	S	R	M	H	N	R	K	T	K	E	I	W	K
Secondary structure
SS confidence
Disorder													?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Q	K	V	Q	A	A	I	R	K	G	K	E	L	P	V	Y	E	P	K	P	V	S	T	Q	T	K	A	K	H	L	A	M	I	K	A	I	L	R	A	A	E	R	D	W	K	W	L	E	K	A	P	V	I	K	I	P	A	V	R	N
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?	?	?	?	?	?	?	?																																					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		K	R	V	R	W	L	E	K	E	E	A	K	R	L	I	D	E	C	P	E	P	L	K	S	V	V	K	F	A	L	A	T	G	L	R	K	S	N	I	I	N	L	E	W	Q	Q	I	D	M	Q	R	R	V	A	W	V	N	P	E	E
Secondary structure
SS confidence
Disorder																																																												?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	K	S	N	R	A	I	G	V	A	L	N	D	T	A	C	K	V	L	R	D	Q	I	G	K	H	H	K	W	V	F	V	H	T	K	A	A	K	R	A	D	G	T	S	T	P	A	V	R	K	M	R	I	D	S	K	T	S	W	L
Secondary structure
SS confidence
Disorder		?	?	?																								?										?	?	?								?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		S	A	C	R	R	A	G	I	E	D	F	R	F	H	D	L	R	H	T	W	A	S	W	L	I	Q	S	G	V	P	L	S	V	L	Q	E	M	G	G	W	E	S	I	E	M	V	R	R	Y	A	H	L	A	P	N	H	L	T	E	H
Secondary structure
SS confidence
Disorder																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.
Sequence		A	R	K	I	D	D	I	F	G	D	N	V	P	N	M	S	H	S	E	I	M	E	D	I	K	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 1z1b chain A Region: 3 - 351 Aligned: 310 Modelled: 319 Confidence: 100.0% Identity: 17% 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 1ma7 chain A Region: 58 - 366 Aligned: 283 Modelled: 283 Confidence: 100.0% Identity: 14% 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 2a3v chain A Region: 59 - 353 Aligned: 268 Modelled: 270 Confidence: 100.0% Identity: 17% PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination Phyre2 PDB 1crx chain A Region: 60 - 366 Aligned: 281 Modelled: 281 Confidence: 100.0% Identity: 15% PDB header:replication/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: cre recombinase/dna complex reaction intermediate i Phyre2 PDB 1p7d chain A Region: 57 - 355 Aligned: 264 Modelled: 272 Confidence: 100.0% Identity: 13% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3nkh chain B Region: 181 - 367 Aligned: 187 Modelled: 187 Confidence: 99.9% Identity: 18% PDB header:recombination Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of integrase from mrsa strain staphylococcus aureus Phyre2 PDB 1a0p chain A Region: 61 - 362 Aligned: 261 Modelled: 266 Confidence: 99.9% Identity: 18% PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd Phyre2 PDB 1aih chain A Region: 180 - 363 Aligned: 158 Modelled: 162 Confidence: 99.9% Identity: 30% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1f44 chain A domain 2 Region: 179 - 366 Aligned: 188 Modelled: 188 Confidence: 99.9% Identity: 12% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1a0p chain A domain 2 Region: 184 - 362 Aligned: 174 Modelled: 179 Confidence: 99.8% Identity: 22% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1ae9 chain A Region: 183 - 353 Aligned: 163 Modelled: 171 Confidence: 99.8% Identity: 14% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 5crx chain B domain 2 Region: 179 - 339 Aligned: 161 Modelled: 161 Confidence: 99.6% Identity: 14% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 2khq chain A Region: 57 - 187 Aligned: 104 Modelled: 104 Confidence: 99.1% Identity: 16% 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 Phyre2 PDB 2kiw chain A Region: 58 - 184 Aligned: 100 Modelled: 100 Confidence: 99.0% Identity: 17% 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 2oxo chain A Region: 57 - 171 Aligned: 88 Modelled: 88 Confidence: 99.0% Identity: 16% 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 Phyre2 PDB 3lys chain C Region: 55 - 180 Aligned: 99 Modelled: 99 Confidence: 99.0% Identity: 9% 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 Phyre2 PDB 2kob chain A Region: 56 - 183 Aligned: 99 Modelled: 99 Confidence: 99.0% Identity: 18% 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 Phyre2 PDB 2kd1 chain A Region: 53 - 183 Aligned: 105 Modelled: 105 Confidence: 98.9% Identity: 13% 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 Phyre2 PDB 2kj8 chain A Region: 54 - 187 Aligned: 107 Modelled: 107 Confidence: 98.9% Identity: 18% 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 2khv chain A Region: 57 - 182 Aligned: 98 Modelled: 98 Confidence: 98.9% Identity: 20% 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 1 c1z1bA_ 2 c1ma7A_ 3 c2a3vA_ 4 c1crxA_ 5 d1p7da_ 6 c3nkhB_ 7 c1a0pA_ 8 d1aiha_ 9 d1f44a2 10 d1a0pa2 11 d1ae9a_ 12 d5crxb2 13 c2khqA_ 14 c2kiwA_ 15 c2oxoA_ 16 c3lysC_ 17 c2kobA_ 18 c2kd1A_ 19 c2kj8A_ 20 c2khvA_ 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

Detailed template information

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

1 c1z1bA_ 100.0 17 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 c1ma7A_ 100.0 14 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 3 c2a3vA_ 100.0 17 PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination 4 c1crxA_ 100.0 15 PDB header:replication/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: cre recombinase/dna complex reaction intermediate i 5 d1p7da_ 100.0 13 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 6 c3nkhB_ 99.9 18 PDB header:recombination Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of integrase from mrsa strain staphylococcus aureus 7 c1a0pA_ 99.9 18 PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd 8 d1aiha_ 99.9 30 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 9 d1f44a2 99.9 12 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 10 d1a0pa2 99.8 22 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 11 d1ae9a_ 99.8 14 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 12 d5crxb2 99.6 14 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 13 c2khqA_ 99.1 16 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 14 c2kiwA_ 99.0 17 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). 15 c2oxoA_ 99.0 16 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 16 c3lysC_ 99.0 9 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 17 c2kobA_ 99.0 18 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 18 c2kd1A_ 98.9 13 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 19 c2kj8A_ 98.9 18 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 20 c2khvA_ 98.9 20 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. 21 c2kkpA_ not modelled 98.9 15 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). 22 c2kj5A_ not modelled 98.8 11 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 23 c2kkvA_ not modelled 98.8 12 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 24 c2kj9A_ not modelled 98.8 12 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 25 c2keyA_ not modelled 98.7 21 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 26 c3nrwA_ not modelled 98.6 21 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 27 c2v6eB_ not modelled 97.1 11 PDB header:hydrolase Chain: B: PDB Molecule:protelemorase; PDBTitle: protelomerase telk complexed with substrate dna 28 d1a0pa1 not modelled 96.7 14 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 29 c3ju0A_ not modelled 96.7 20 PDB header:dna binding protein Chain: A: PDB Molecule:phage integrase; PDBTitle: structure of the arm-type binding domain of hai7 integrase 30 c3jtzA_ not modelled 96.0 22 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: structure of the arm-type binding domain of hpi integrase 31 d1f44a1 not modelled 92.5 11 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 32 c2f4qA_ not modelled 87.0 10 PDB header:isomerase Chain: A: PDB Molecule:type i topoisomerase, putative; PDBTitle: crystal structure of deinococcus radiodurans topoisomerase ib 33 d1z1ba1 not modelled 86.2 36 Fold:DNA-binding domain Superfamily:DNA-binding domain Family:lambda integrase N-terminal domain 34 c1kjkA_ not modelled 84.8 36 PDB header:viral protein Chain: A: PDB Molecule:integrase; PDBTitle: solution structure of the lambda integrase amino-terminal2 domain 35 d1gcca_ not modelled 64.5 17 Fold:DNA-binding domain Superfamily:DNA-binding domain Family:GCC-box binding domain 36 d3bida1 not modelled 61.1 15 Fold:YegP-like Superfamily:YegP-like Family:YegP-like 37 c2k8eA_ not modelled 56.6 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0339 protein yegp; PDBTitle: solution nmr structure of protein of unknown function yegp from e.2 coli. ontario center for structural proteomics target ec0640_1_1233 northeast structural genomics consortium target et102. 38 c3igmA_ not modelled 52.6 17 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 39 c2k7iB_ not modelled 50.4 13 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:upf0339 protein atu0232; PDBTitle: solution nmr structure of protein atu0232 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att3. ontario center for structural proteomics target atc0223. 40 d2k7ia1 not modelled 50.4 13 Fold:YegP-like Superfamily:YegP-like Family:YegP-like 41 d2k8ea1 not modelled 49.9 15 Fold:YegP-like Superfamily:YegP-like Family:YegP-like 42 d2k49a2 not modelled 49.0 17 Fold:YegP-like Superfamily:YegP-like Family:YegP-like 43 c2k49A_ not modelled 46.6 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0339 protein so_3888; PDBTitle: solution nmr structure of upf0339 protein so3888 from shewanella2 oneidensis. northeast structural genomics consortium target sor190 44 c2h7fX_ not modelled 43.1 16 PDB header:isomerase/dna Chain: X: PDB Molecule:dna topoisomerase 1; PDBTitle: structure of variola topoisomerase covalently bound to dna 45 d2k49a1 not modelled 37.4 11 Fold:YegP-like Superfamily:YegP-like Family:YegP-like 46 d1zj8a1 not modelled 30.6 15 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:Duplicated SiR/NiR-like domains 1 and 3 47 d2k8ea2 not modelled 29.8 16 Fold:YegP-like Superfamily:YegP-like Family:YegP-like 48 d2auwa1 not modelled 21.6 23 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 49 d1a41a_ not modelled 16.6 13 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 50 d1aopa2 not modelled 16.1 10 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:Duplicated SiR/NiR-like domains 1 and 3 51 c2l2nA_ not modelled 14.9 15 PDB header:rna binding protein, plant protein Chain: A: PDB Molecule:hyponastic leave 1; PDBTitle: backbone 1h, 13c, and 15n chemical shift assignments for the first2 dsrbd of protein hyl1 52 d2gf5a1 not modelled 14.3 8 Fold:DEATH domain Superfamily:DEATH domain Family:DEATH domain, DD 53 d1bb8a_ not modelled 14.0 16 Fold:DNA-binding domain Superfamily:DNA-binding domain Family:DNA-binding domain from tn916 integrase 54 d1whna_ not modelled 13.2 12 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:Double-stranded RNA-binding domain (dsRBD) 55 c3adiC_ not modelled 12.6 14 PDB header:gene regulation/rna Chain: C: PDB Molecule:f21m12.9 protein; PDBTitle: structure of arabidopsis hyl1 and its molecular implications for mirna2 processing 56 d2akja1 not modelled 11.7 10 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:Duplicated SiR/NiR-like domains 1 and 3 57 c3frwF_ not modelled 11.3 9 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 58 d1trra_ not modelled 10.1 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 59 d1l8qa1 not modelled 9.8 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Chromosomal replication initiation factor DnaA C-terminal domain IV 60 c2auwB_ not modelled 9.7 24 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 61 d1xp8a2 not modelled 8.1 18 Fold:Anti-LPS factor/recA domain Superfamily:RecA protein, C-terminal domain Family:RecA protein, C-terminal domain 62 c3sohB_ not modelled 7.9 13 PDB header:motor protein Chain: B: PDB Molecule:flagellar motor switch protein flig; PDBTitle: architecture of the flagellar rotor 63 c2b9sA_ not modelled 7.6 13 PDB header:isomerase/dna Chain: A: PDB Molecule:topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex 64 c3ol0C_ not modelled 7.3 24 PDB header:de novo protein Chain: C: PDB Molecule:de novo designed monomer trefoil-fold sub-domain which PDBTitle: crystal structure of monofoil-4p homo-trimer: de novo designed monomer2 trefoil-fold sub-domain which forms homo-trimer assembly 65 d1x57a1 not modelled 7.1 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like 66 d1dwka1 not modelled 6.6 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Cyanase N-terminal domain 67 d2aq0a1 not modelled 6.5 13 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 68 c2gjhA_ not modelled 6.2 17 PDB header:de novo protein Chain: A: PDB Molecule:designed protein; PDBTitle: nmr structure of cfr (c-terminal fragment of2 computationally designed novel-topology protein top7) 69 d1u94a2 not modelled 6.1 27 Fold:Anti-LPS factor/recA domain Superfamily:RecA protein, C-terminal domain Family:RecA protein, C-terminal domain 70 d1uxca_ not modelled 6.0 8 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 71 d1jhga_ not modelled 5.8 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 72 c2nogA_ not modelled 5.7 13 PDB header:dna binding protein Chain: A: PDB Molecule:iswi protein; PDBTitle: sant domain structure of xenopus remodeling factor iswi 73 c2gf5A_ not modelled 5.7 8 PDB header:apoptosis Chain: A: PDB Molecule:fadd protein; PDBTitle: structure of intact fadd (mort1) 74 c3nqhA_ not modelled 5.5 11 PDB header:hydrolase Chain: A: PDB Molecule:glycosyl hydrolase; PDBTitle: crystal structure of a glycosyl hydrolase (bt_2959) from bacteroides2 thetaiotaomicron vpi-5482 at 2.11 a resolution 75 d1s7oa_ not modelled 5.5 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like 76 d1qu6a2 not modelled 5.3 22 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:Double-stranded RNA-binding domain (dsRBD) 77 d1ubea2 not modelled 5.3 17 Fold:Anti-LPS factor/recA domain Superfamily:RecA protein, C-terminal domain Family:RecA protein, C-terminal domain 78 d2d6ya1 not modelled 5.1 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 79 d1mo6a2 not modelled 5.1 25 Fold:Anti-LPS factor/recA domain Superfamily:RecA protein, C-terminal domain Family:RecA protein, C-terminal domain 80 d1z91a1 not modelled 5.1 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators

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