Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		G	E	L	R	S	S	V	C	Y	A	I	K	T	G	V	F	D	Y	A	K	Q	F	P	S	S	R	N	L	E	K	F	G	E	A	R	Q	D	L	T	I	K	E	L	A	E	K	F	L	A	L	K	E	T	E	V	A	K	T	S	L
Secondary structure
SS confidence
Disorder		?	?																										?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	T	Y	R	A	V	I	K	N	I	L	S	I	I	G	E	K	N	L	A	S	S	I	N	K	E	K	L	L	E	V	R	K	E	L	L	T	G	Y	Q	I	P	K	S	N	Y	I	V	T	Q	P	G	R	S	A	V	T	V	N	N
Secondary structure
SS confidence
Disorder																																											?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Y	M	T	N	L	N	A	V	F	Q	F	G	V	D	N	G	Y	L	A	D	N	P	F	K	G	I	S	P	L	K	E	S	R	T	I	P	D	P	L	S	R	E	E	F	I	R	L	I	D	A	C	R	N	Q	Q	A	K	N	L	W
Secondary structure
SS confidence
Disorder																														?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		C	V	S	V	Y	T	G	V	R	P	G	E	L	C	A	L	G	W	E	D	I	D	L	K	N	G	T	M	M	I	R	R	N	L	A	K	D	R	F	T	V	P	K	T	Q	A	G	T	N	R	V	I	H	L	I	K	P	A	I	D
Secondary structure
SS confidence
Disorder																																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	L	R	S	Q	M	T	L	T	R	L	S	K	E	H	I	I	D	V	H	F	R	E	Y	G	R	T	E	K	Q	K	C	T	F	V	F	Q	P	E	V	S	A	R	V	K	N	Y	G	D	H	F	T	V	D	S	I	R	Q	M	W
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?	?	?	?		?	?		?		?	?	?	?		?													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		D	A	A	I	K	R	A	G	L	R	H	R	K	S	Y	Q	S	R	H	T	Y	A	C	W	S	L	T	A	G	A	N	P	A	F	I	A	N	Q	M	G	H	A	D	A	Q	M	V	F	Q	V	Y	G	K	W	M	S	E	N	N	N
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.
Sequence		A	Q	V	A	L	L	N	T	Q	L	S	E	F	A	P	T	M	P	H	N	E	A	M	K	N
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 1ma7 chain A Region: 39 - 367 Aligned: 296 Modelled: 297 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 1z1b chain A Region: 28 - 351 Aligned: 274 Modelled: 276 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 1crx chain A Region: 41 - 367 Aligned: 294 Modelled: 300 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 2a3v chain A Region: 41 - 354 Aligned: 296 Modelled: 302 Confidence: 100.0% Identity: 15% PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination Phyre2 PDB 1p7d chain A Region: 38 - 357 Aligned: 266 Modelled: 278 Confidence: 100.0% Identity: 16% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3nkh chain B Region: 154 - 368 Aligned: 198 Modelled: 198 Confidence: 100.0% Identity: 19% PDB header:recombination Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of integrase from mrsa strain staphylococcus aureus Phyre2 PDB 1a0p chain A Region: 42 - 363 Aligned: 264 Modelled: 284 Confidence: 100.0% Identity: 19% PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd Phyre2 PDB 1aih chain A Region: 153 - 365 Aligned: 159 Modelled: 173 Confidence: 99.8% Identity: 19% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1f44 chain A domain 2 Region: 154 - 367 Aligned: 186 Modelled: 200 Confidence: 99.8% Identity: 15% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1a0p chain A domain 2 Region: 157 - 363 Aligned: 172 Modelled: 187 Confidence: 99.7% Identity: 20% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 1ae9 chain A Region: 156 - 354 Aligned: 163 Modelled: 178 Confidence: 99.7% Identity: 18% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 5crx chain B domain 2 Region: 154 - 340 Aligned: 168 Modelled: 173 Confidence: 99.6% Identity: 13% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 2kd1 chain A Region: 34 - 160 Aligned: 114 Modelled: 127 Confidence: 99.6% Identity: 11% 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: 34 - 160 Aligned: 113 Modelled: 113 Confidence: 99.5% Identity: 12% 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 2kkp chain A Region: 34 - 159 Aligned: 113 Modelled: 113 Confidence: 99.5% Identity: 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). Phyre2 PDB 2kiw chain A Region: 39 - 159 Aligned: 106 Modelled: 107 Confidence: 99.5% Identity: 19% 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 2khq chain A Region: 38 - 157 Aligned: 105 Modelled: 106 Confidence: 99.5% Identity: 17% 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 3lys chain C Region: 35 - 152 Aligned: 103 Modelled: 104 Confidence: 99.4% Identity: 14% 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: 37 - 157 Aligned: 104 Modelled: 105 Confidence: 99.4% Identity: 24% 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 3nrw chain A Region: 35 - 149 Aligned: 102 Modelled: 102 Confidence: 99.4% Identity: 17% 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 Phyre2 1 c1ma7A_ 2 c1z1bA_ 3 c1crxA_ 4 c2a3vA_ 5 d1p7da_ 6 c3nkhB_ 7 c1a0pA_ 8 d1aiha_ 9 d1f44a2 10 d1a0pa2 11 d1ae9a_ 12 d5crxb2 13 c2kd1A_ 14 c2kj8A_ 15 c2kkpA_ 16 c2kiwA_ 17 c2khqA_ 18 c3lysC_ 19 c2kobA_ 20 c3nrwA_ 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 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 2 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 3 c1crxA_ 100.0 13 PDB header:replication/dna Chain: A: PDB Molecule:cre recombinase; PDBTitle: cre recombinase/dna complex reaction intermediate i 4 c2a3vA_ 100.0 15 PDB header:recombination Chain: A: PDB Molecule:site-specific recombinase inti4; PDBTitle: structural basis for broad dna-specificity in integron2 recombination 5 d1p7da_ 100.0 16 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 6 c3nkhB_ 100.0 19 PDB header:recombination Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of integrase from mrsa strain staphylococcus aureus 7 c1a0pA_ 100.0 19 PDB header:dna recombination Chain: A: PDB Molecule:site-specific recombinase xerd; PDBTitle: site-specific recombinase, xerd 8 d1aiha_ 99.8 19 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 9 d1f44a2 99.8 15 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 10 d1a0pa2 99.7 20 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 11 d1ae9a_ 99.7 18 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 12 d5crxb2 99.6 13 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 13 c2kd1A_ 99.6 11 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 14 c2kj8A_ 99.5 12 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 15 c2kkpA_ 99.5 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). 16 c2kiwA_ 99.5 19 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 c2khqA_ 99.5 17 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 18 c3lysC_ 99.4 14 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 19 c2kobA_ 99.4 24 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 20 c3nrwA_ 99.4 17 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 21 c2kj9A_ not modelled 99.4 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 22 c2oxoA_ not modelled 99.4 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 23 c2keyA_ not modelled 99.4 8 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 24 c2kkvA_ not modelled 99.4 13 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 25 c2khvA_ not modelled 99.3 16 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 c2kj5A_ not modelled 99.2 14 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 27 d1a0pa1 not modelled 98.5 16 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 28 d1f44a1 not modelled 98.0 11 Fold:SAM domain-like Superfamily:lambda integrase-like, N-terminal domain Family:lambda integrase-like, N-terminal domain 29 c2v6eB_ not modelled 97.2 17 PDB header:hydrolase Chain: B: PDB Molecule:protelemorase; PDBTitle: protelomerase telk complexed with substrate dna 30 d1trra_ not modelled 37.9 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 31 d2d6ya1 not modelled 28.9 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 32 c2f4qA_ not modelled 28.5 10 PDB header:isomerase Chain: A: PDB Molecule:type i topoisomerase, putative; PDBTitle: crystal structure of deinococcus radiodurans topoisomerase ib 33 c2h7fX_ not modelled 27.8 15 PDB header:isomerase/dna Chain: X: PDB Molecule:dna topoisomerase 1; PDBTitle: structure of variola topoisomerase covalently bound to dna 34 d1jhga_ not modelled 26.1 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 35 d1l8qa1 not modelled 25.8 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Chromosomal replication initiation factor DnaA C-terminal domain IV 36 c3fwcO_ not modelled 21.6 11 PDB header:cell cycle, transcription Chain: O: PDB Molecule:protein sus1; PDBTitle: sac3:sus1:cdc31 complex 37 d2auwa1 not modelled 21.1 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 38 c3sohB_ not modelled 19.0 14 PDB header:motor protein Chain: B: PDB Molecule:flagellar motor switch protein flig; PDBTitle: architecture of the flagellar rotor 39 c3lsgD_ not modelled 18.7 13 PDB header:transcription regulator Chain: D: PDB Molecule:two-component response regulator yesn; PDBTitle: the crystal structure of the c-terminal domain of the two-2 component response regulator yesn from fusobacterium3 nucleatum subsp. nucleatum atcc 25586 40 c1u78A_ not modelled 18.6 8 PDB header:dna binding protein/dna Chain: A: PDB Molecule:transposable element tc3 transposase; PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna 41 c3ic7A_ not modelled 17.1 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator of gntr family2 from bacteroides thetaiotaomicron 42 c3eetA_ not modelled 17.0 14 PDB header:transcription regulator Chain: A: PDB Molecule:putative gntr-family transcriptional regulator; PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator 43 d1ijwc_ not modelled 12.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 44 d1hcra_ not modelled 12.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 45 d2aq0a1 not modelled 11.0 16 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 46 c3tqnC_ not modelled 10.5 28 PDB header:transcription Chain: C: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: structure of the transcriptional regulator of the gntr family, from2 coxiella burnetii. 47 c3frwF_ not modelled 9.9 13 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 48 d1fsea_ not modelled 9.4 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 49 d1a04a1 not modelled 9.1 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 50 c3bwgA_ not modelled 9.0 10 PDB header:transcription regulator Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk; PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168 51 c1x3uA_ not modelled 8.9 17 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot 52 c2wv0H_ not modelled 8.9 21 PDB header:transcription Chain: H: PDB Molecule:hth-type transcriptional repressor yvoa; PDBTitle: crystal structure of the gntr-hutc family member yvoa from2 bacillus subtilis 53 d1s7oa_ not modelled 8.9 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like 54 c2auwB_ not modelled 8.1 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 55 c2b9sA_ not modelled 7.9 12 PDB header:isomerase/dna Chain: A: PDB Molecule:topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex 56 c3neuA_ not modelled 6.8 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 57 d1k78a1 not modelled 6.7 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 58 c2krfB_ not modelled 6.5 13 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a 59 c2x48B_ not modelled 6.4 26 PDB header:viral protein Chain: B: PDB Molecule:cag38821; PDBTitle: orf 55 from sulfolobus islandicus rudivirus 1 60 c3fhkF_ not modelled 6.3 16 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:upf0403 protein yphp; PDBTitle: crystal structure of apc1446, b.subtilis yphp disulfide2 isomerase 61 d1yioa1 not modelled 6.3 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 62 c2eqrA_ not modelled 6.2 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 63 d1xc5a1 not modelled 6.1 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 64 d1bl0a2 not modelled 6.0 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:AraC type transcriptional activator 65 d1v4ra1 not modelled 6.0 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 66 c2yqkA_ not modelled 5.9 15 PDB header:transcription/apoptosis Chain: A: PDB Molecule:arginine-glutamic acid dipeptide repeats protein; PDBTitle: solution structure of the sant domain in arginine-glutamic2 acid dipeptide (re) repeats 67 c2rnjA_ not modelled 5.7 18 PDB header:transcription Chain: A: PDB Molecule:response regulator protein vrar; PDBTitle: nmr structure of the s. aureus vrar dna binding domain 68 d1lcda_ not modelled 5.7 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 69 d1rkta1 not modelled 5.7 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 70 d2g7la1 not modelled 5.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 71 c3by6C_ not modelled 5.5 23 PDB header:transcription regulator Chain: C: PDB Molecule:predicted transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni 72 c3korD_ not modelled 5.5 18 PDB header:transcription Chain: D: PDB Molecule:possible trp repressor; PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus 73 d1m9ia2 not modelled 5.5 16 Fold:Annexin Superfamily:Annexin Family:Annexin 74 d1i4aa_ not modelled 5.4 14 Fold:Annexin Superfamily:Annexin Family:Annexin 75 d2csba1 not modelled 5.4 23 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 76 d1j09a1 not modelled 5.4 12 Fold:An anticodon-binding domain of class I aminoacyl-tRNA synthetases Superfamily:An anticodon-binding domain of class I aminoacyl-tRNA synthetases Family:C-terminal domain of glutamyl-tRNA synthetase (GluRS) 77 d1hm6a_ not modelled 5.3 16 Fold:Annexin Superfamily:Annexin Family:Annexin 78 d2gf5a1 not modelled 5.3 8 Fold:DEATH domain Superfamily:DEATH domain Family:DEATH domain, DD 79 d1d5ya2 not modelled 5.2 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:AraC type transcriptional activator 80 c2jpcA_ not modelled 5.2 15 PDB header:dna binding protein Chain: A: PDB Molecule:ssrb; PDBTitle: ssrb dna binding protein 81 d2iw5b1 not modelled 5.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 82 d2ozga1 not modelled 5.1 9 Fold:SCP-like Superfamily:SCP-like Family:EF1021 C-terminal domain-like 83 d1efaa1 not modelled 5.1 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 84 c4a69C_ not modelled 5.0 13 PDB header:transcription Chain: C: PDB Molecule:nuclear receptor corepressor 2; PDBTitle: structure of hdac3 bound to corepressor and inositol tetraphosphate 85 c3f8mA_ not modelled 5.0 14 PDB header:transcription Chain: A: PDB Molecule:gntr-family protein transcriptional regulator; PDBTitle: crystal structure of phnf from mycobacterium smegmatis 86 d2crga1 not modelled 5.0 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain

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