Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	R	K	T	K	P	L	T	D	T	E	I	K	A	A	K	P	K	D	A	D	Y	Q	L	Y	D	G	D	G	L	T	L	L	I	K	S	S	G	S	K	L	W	Q	F	R	Y	Y	R	P	L	T	K	Q	R	T	K	Q	S	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	A	Y	P	A	V	S	L	S	D	A	R	K	L	R	A	E	S	K	V	L	L	A	K	D	I	D	P	Q	E	H	Q	K	E	Q	V	R	N	S	Q	E	A	K	T	N	T	F	L	L	V	A	E	R	W	W	N	V	K	K	T
Secondary structure
SS confidence
Disorder																									?		?	?															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	V	T	E	D	Y	A	D	D	I	W	R	S	L	E	R	D	I	F	P	A	I	G	D	I	S	I	T	E	I	K	A	H	T	L	V	K	A	V	Q	P	V	Q	A	R	G	A	L	E	T	V	R	R	L	C	Q	R	I	N	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	M	I	Y	A	Q	N	T	G	L	I	D	A	V	P	S	V	N	I	G	K	A	F	E	K	P	Q	K	K	N	M	P	S	I	R	P	D	Q	L	P	Q	L	M	H	T	M	R	T	A	S	I	S	M	S	T	R	C	L	F	M
Secondary structure
SS confidence
Disorder																							?	?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		W	Q	L	L	T	I	T	R	P	A	E	A	A	E	A	R	W	D	E	I	D	F	N	A	S	E	W	K	I	P	A	A	R	M	K	M	N	R	D	H	T	V	P	L	S	D	G	A	L	A	I	L	E	M	M	K	P	L	S	G
Secondary structure
SS confidence
Disorder																																			?																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	R	E	F	I	F	P	S	R	I	K	P	N	Q	P	M	N	S	Q	T	V	N	A	A	L	K	R	A	G	L	G	G	V	L	V	S	H	G	L	R	S	I	A	S	T	A	L	N	E	E	G	F	P	P	D	V	I	E	A	A
Secondary structure
SS confidence
Disorder												?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.
Sequence		L	A	H	V	D	K	N	E	V	R	R	A	Y	N	R	S	D	Y	L	E	Q	R	R	P	M	M	Q	W	W	A	D	L	V	K	A	A	D	S	G	S	I	V	L	T	H	L	S	K	I	R	L	V	G
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: 29 - 375 Aligned: 326 Modelled: 347 Confidence: 100.0% Identity: 16% 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: 105 - 376 Aligned: 262 Modelled: 272 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: 106 - 391 Aligned: 284 Modelled: 286 Confidence: 100.0% Identity: 15% 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 1crx chain A Region: 108 - 391 Aligned: 282 Modelled: 284 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 2a3v chain A Region: 107 - 377 Aligned: 256 Modelled: 271 Confidence: 99.9% Identity: 16% PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination Phyre2 PDB 3nkh chain B Region: 209 - 399 Aligned: 186 Modelled: 191 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: 109 - 387 Aligned: 258 Modelled: 279 Confidence: 99.9% Identity: 14% PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd Phyre2 PDB 1aih chain A Region: 208 - 389 Aligned: 163 Modelled: 182 Confidence: 99.9% Identity: 15% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1f44 chain A domain 2 Region: 207 - 376 Aligned: 169 Modelled: 170 Confidence: 99.8% Identity: 13% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3ju0 chain A Region: 7 - 102 Aligned: 94 Modelled: 96 Confidence: 99.8% Identity: 44% PDB header:dna binding protein Chain: A: PDB Molecule:phage integrase; PDBTitle: structure of the arm-type binding domain of hai7 integrase Phyre2 PDB 1a0p chain A domain 2 Region: 212 - 387 Aligned: 172 Modelled: 176 Confidence: 99.8% Identity: 13% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1ae9 chain A Region: 211 - 375 Aligned: 161 Modelled: 165 Confidence: 99.8% Identity: 17% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3jtz chain A Region: 8 - 84 Aligned: 75 Modelled: 77 Confidence: 99.8% Identity: 43% 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: 207 - 362 Aligned: 156 Modelled: 156 Confidence: 99.6% Identity: 16% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 2kj8 chain A Region: 101 - 212 Aligned: 112 Modelled: 112 Confidence: 99.5% Identity: 28% 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 2kiw chain A Region: 106 - 212 Aligned: 106 Modelled: 107 Confidence: 99.4% Identity: 23% 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 2kj9 chain A Region: 96 - 212 Aligned: 116 Modelled: 117 Confidence: 99.4% Identity: 28% 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 2kkv chain A Region: 100 - 217 Aligned: 117 Modelled: 118 Confidence: 99.4% Identity: 27% 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 2khq chain A Region: 105 - 209 Aligned: 104 Modelled: 105 Confidence: 99.4% Identity: 18% 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 2kd1 chain A Region: 101 - 213 Aligned: 113 Modelled: 113 Confidence: 99.3% Identity: 17% 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 1 c1z1bA_ 2 d1p7da_ 3 c1ma7A_ 4 c1crxA_ 5 c2a3vA_ 6 c3nkhB_ 7 c1a0pA_ 8 d1aiha_ 9 d1f44a2 10 c3ju0A_ 11 d1a0pa2 12 d1ae9a_ 13 c3jtzA_ 14 d5crxb2 15 c2kj8A_ 16 c2kiwA_ 17 c2kj9A_ 18 c2kkvA_ 19 c2khqA_ 20 c2kd1A_ 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 c1z1bA_ 100.0 16 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 15 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 c1crxA_ 100.0 15 PDB header:replication/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: cre recombinase/dna complex reaction intermediate i 5 c2a3vA_ 99.9 16 PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination 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 14 PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd 8 d1aiha_ 99.9 15 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 9 d1f44a2 99.8 13 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 10 c3ju0A_ 99.8 44 PDB header:dna binding protein Chain: A: PDB Molecule:phage integrase; PDBTitle: structure of the arm-type binding domain of hai7 integrase 11 d1a0pa2 99.8 13 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 12 d1ae9a_ 99.8 17 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 13 c3jtzA_ 99.8 43 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: structure of the arm-type binding domain of hpi integrase 14 d5crxb2 99.6 16 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 15 c2kj8A_ 99.5 28 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 16 c2kiwA_ 99.4 23 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). 17 c2kj9A_ 99.4 28 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 c2kkvA_ 99.4 27 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 19 c2khqA_ 99.4 18 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 20 c2kd1A_ 99.3 17 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 21 c2kkpA_ not modelled 99.3 17 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 c3lysC_ not modelled 99.3 13 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 23 c2oxoA_ not modelled 99.3 10 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 24 c2kj5A_ not modelled 99.3 17 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 25 c2khvA_ not modelled 99.3 21 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. 26 c2kobA_ not modelled 99.2 15 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 27 c2keyA_ not modelled 99.0 10 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 98.7 10 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 97.7 16 PDB header:hydrolase Chain: B: PDB Molecule:protelemorase; PDBTitle: protelomerase telk complexed with substrate dna 30 d1a0pa1 not modelled 97.5 13 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 31 c2f4qA_ not modelled 97.3 14 PDB header:isomerase Chain: A: PDB Molecule:type i topoisomerase, putative; PDBTitle: crystal structure of deinococcus radiodurans topoisomerase ib 32 c2h7fX_ not modelled 96.9 14 PDB header:isomerase/dna Chain: X: PDB Molecule:dna topoisomerase 1; PDBTitle: structure of variola topoisomerase covalently bound to dna 33 d1f44a1 not modelled 95.9 10 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 34 d1a41a_ not modelled 94.5 18 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 35 d1k4ta2 not modelled 92.6 12 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 36 c2b9sA_ not modelled 92.5 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 37 d1rr8c1 not modelled 91.0 12 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Eukaryotic DNA topoisomerase I, catalytic core 38 d1z1ba1 not modelled 89.9 20 Fold:DNA-binding domain Superfamily:DNA-binding domain Family:lambda integrase N-terminal domain 39 c1kjkA_ not modelled 89.1 20 PDB header:viral protein Chain: A: PDB Molecule:integrase; PDBTitle: solution structure of the lambda integrase amino-terminal2 domain 40 c1a31A_ not modelled 80.9 12 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 c1nh3A_ not modelled 79.0 12 PDB header:isomerase/dna Chain: A: PDB Molecule:dna topoisomerase i; PDBTitle: human topoisomerase i ara-c complex 42 d1gcca_ not modelled 75.6 15 Fold:DNA-binding domain Superfamily:DNA-binding domain Family:GCC-box binding domain 43 c3igmA_ not modelled 44.2 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 44 d1uxca_ not modelled 25.9 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 45 c2l8nA_ not modelled 16.2 13 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 46 d2iw5b1 not modelled 16.0 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 47 d2csba1 not modelled 16.0 26 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 48 d2gf5a1 not modelled 15.7 15 Fold:DEATH domain Superfamily:DEATH domain Family:DEATH domain, DD 49 d1uxda_ not modelled 15.3 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 50 c1v9nA_ not modelled 11.4 17 PDB header:oxidoreductase Chain: A: PDB Molecule:malate dehydrogenase; PDBTitle: structure of malate dehydrogenase from pyrococcus horikoshii ot3 51 c2nogA_ not modelled 10.9 14 PDB header:dna binding protein Chain: A: PDB Molecule:iswi protein; PDBTitle: sant domain structure of xenopus remodeling factor iswi 52 d1xc5a1 not modelled 10.9 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 53 d1xrha_ not modelled 10.7 8 Fold:L-sulfolactate dehydrogenase-like Superfamily:L-sulfolactate dehydrogenase-like Family:L-sulfolactate dehydrogenase-like 54 d1p4ea2 not modelled 9.8 14 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 55 d1lcda_ not modelled 9.6 4 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 56 d1e6vc_ not modelled 9.5 19 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase gamma chain 57 c2g8yB_ not modelled 9.1 10 PDB header:oxidoreductase Chain: B: PDB Molecule:malate/l-lactate dehydrogenases; PDBTitle: the structure of a putative malate/lactate dehydrogenase from e. coli. 58 d1qpza1 not modelled 9.0 0 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 59 c2lcvA_ not modelled 9.0 13 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 60 d1r8da_ not modelled 8.9 17 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 61 d2bjca1 not modelled 8.8 4 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 62 c2x0lB_ not modelled 8.6 14 PDB header:transcription Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: crystal structure of a neuro-specific splicing variant of2 human histone lysine demethylase lsd1. 63 c2iw5B_ not modelled 8.6 14 PDB header:oxidoreductase/transcription regulator Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: structural basis for corest-dependent demethylation of2 nucleosomes by the human lsd1 histone demethylase 64 c2v1dB_ not modelled 8.6 14 PDB header:oxidoreductase/repressor Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: structural basis of lsd1-corest selectivity in histone h32 recognition 65 c2xajB_ not modelled 8.6 14 PDB header:transcription Chain: B: PDB Molecule:rest corepressor 1; PDBTitle: crystal structure of lsd1-corest in complex with (-)-trans-2 2-phenylcyclopropyl-1-amine 66 c2eqrA_ not modelled 8.6 12 PDB header:transcription Chain: A: PDB Molecule:nuclear receptor corepressor 1; PDBTitle: solution structure of the first sant domain from human2 nuclear receptor corepressor 1 67 c1u24A_ not modelled 8.3 10 PDB header:hydrolase Chain: A: PDB Molecule:myo-inositol hexaphosphate phosphohydrolase; PDBTitle: crystal structure of selenomonas ruminantium phytase 68 c1p4eB_ not modelled 7.9 14 PDB header:dna binding protein/recombination/dna Chain: B: PDB Molecule:recombinase flp protein; PDBTitle: flpe w330f mutant-dna holliday junction complex 69 d2auwa1 not modelled 7.9 6 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 70 c3kmpA_ not modelled 7.8 13 PDB header:transcription regulator/dna Chain: A: PDB Molecule:smad1-mh1; PDBTitle: crystal structure of smad1-mh1/dna complex 71 c3lgbB_ not modelled 7.5 15 PDB header:transferase Chain: B: PDB Molecule:dna primase large subunit; PDBTitle: crystal structure of the fe-s domain of the yeast dna primase 72 c3d6zA_ not modelled 7.5 7 PDB header:transcription regulator/dna Chain: A: PDB Molecule:multidrug-efflux transporter 1 regulator; PDBTitle: crystal structure of r275e mutant of bmrr bound to dna and rhodamine 73 c2daeA_ not modelled 7.5 35 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:kiaa0733 protein; PDBTitle: solution structure of the n-terminal cue domain in the2 human mitogen-activated protein kinase kinase kinase 73 interacting protein 2 (map3k7ip2) 74 c3cuqA_ not modelled 7.4 16 PDB header:protein transport Chain: A: PDB Molecule:vacuolar-sorting protein snf8; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex 75 d1hbnc_ not modelled 7.4 13 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase gamma chain 76 d2hsga1 not modelled 7.3 4 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 77 c1wtjB_ not modelled 7.2 10 PDB header:oxidoreductase Chain: B: PDB Molecule:ureidoglycolate dehydrogenase; PDBTitle: crystal structure of delta1-piperideine-2-carboxylate2 reductase from pseudomonas syringae pvar.tomato 78 d1nxua_ not modelled 7.1 11 Fold:L-sulfolactate dehydrogenase-like Superfamily:L-sulfolactate dehydrogenase-like Family:L-sulfolactate dehydrogenase-like 79 c2v4xA_ not modelled 7.0 16 PDB header:viral protein Chain: A: PDB Molecule:capsid protein p27; PDBTitle: crystal structure of jaagsiekte sheep retrovirus capsid n-2 terminal domain 80 d1jhfa1 not modelled 7.0 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain 81 c3sqgF_ not modelled 6.8 31 PDB header:transferase Chain: F: PDB Molecule:methyl-coenzyme m reductase, gamma subunit; PDBTitle: crystal structure of a methyl-coenzyme m reductase purified from black2 sea mats 82 c3i0pA_ not modelled 6.6 11 PDB header:oxidoreductase Chain: A: PDB Molecule:malate dehydrogenase; PDBTitle: crystal structure of malate dehydrogenase from entamoeba histolytica 83 c2kscA_ not modelled 6.6 17 PDB header:unknown function Chain: A: PDB Molecule:cyanoglobin; PDBTitle: solution structure of synechococcus sp. pcc 7002 hemoglobin 84 c4a69C_ not modelled 6.5 13 PDB header:transcription Chain: C: PDB Molecule:nuclear receptor corepressor 2; PDBTitle: structure of hdac3 bound to corepressor and inositol tetraphosphate 85 d1u5ta1 not modelled 6.5 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Vacuolar sorting protein domain 86 d1j98a_ not modelled 6.5 17 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 87 d1e6yc_ not modelled 6.4 19 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase gamma chain 88 d1efaa1 not modelled 6.4 4 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 89 c3ol0C_ not modelled 6.4 31 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 90 c3n3fB_ not modelled 6.3 10 PDB header:protein binding Chain: B: PDB Molecule:collagen alpha-1(xv) chain; PDBTitle: crystal structure of the human collagen xv trimerization domain: a2 potent trimerizing unit common to multiplexin collagens 91 c1vbiA_ not modelled 6.3 13 PDB header:oxidoreductase Chain: A: PDB Molecule:type 2 malate/lactate dehydrogenase; PDBTitle: crystal structure of type 2 malate/lactate dehydrogenase from thermus2 thermophilus hb8 92 c3aq8A_ not modelled 6.3 19 PDB header:oxygen binding Chain: A: PDB Molecule:group 1 truncated hemoglobin; PDBTitle: crystal structure of truncated hemoglobin from tetrahymena pyriformis,2 q46e mutant, fe(iii) form 93 d1r8ea1 not modelled 6.2 6 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 94 d1j6xa_ not modelled 5.9 20 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 95 d2crga1 not modelled 5.8 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 96 d1vmha_ not modelled 5.7 15 Fold:YjbQ-like Superfamily:YjbQ-like Family:YjbQ-like 97 c1or7A_ not modelled 5.6 9 PDB header:transcription Chain: A: PDB Molecule:rna polymerase sigma-e factor; PDBTitle: crystal structure of escherichia coli sigmae with the cytoplasmic2 domain of its anti-sigma rsea 98 c3qaoA_ not modelled 5.6 11 PDB header:transcription regulator Chain: A: PDB Molecule:merr-like transcriptional regulator; PDBTitle: the crystal structure of the n-terminal domain of a merr-like2 transcriptional regulator from listeria monocytogenes egd-e 99 d1qu6a2 not modelled 5.6 13 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:Double-stranded RNA-binding domain (dsRBD)

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