Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	V	N	S	S	S	N	R	G	E	A	I	L	A	A	L	K	T	Q	F	P	G	A	V	L	D	E	E	R	Q	T	P	E	Q	V	T	I	T	V	K	I	N	L	L	P	D	V	V	Q	Y	L	Y	Y	Q	H	D	G	W	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	V	L	F	G	N	D	E	R	T	L	N	G	H	Y	A	V	Y	Y	A	L	S	M	E	G	A	E	K	C	W	I	V	V	K	A	L	V	D	A	D	S	R	E	F	P	S	V	T	P	R	V	P	A	A	V	W	G	E	R	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	R	D	M	Y	G	L	I	P	V	G	L	P	D	Q	R	R	L	V	L	P	D	D	W	P	E	D	M	H	P	L	R	K	D	A	M	D	Y	R	L	R	P	E	P	T	T	D	S	E	T	Y	P	F	I	N	E	G	N	S	D
Secondary structure
SS confidence
Disorder																																						?	?	?	?																	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	R	V	I	P	V	G	P	L	H	I	T	S	D	E	P	G	H	F	R	L	F	V	D	G	E	Q	I	V	D	A	D	Y	R	L	F	Y	V	H	R	G	M	E	K	L	A	E	T	R	M	G	Y	N	E	V	T	F	L	S	D
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		R	V	C	G	I	C	G	F	A	H	S	V	A	Y	T	N	S	V	E	N	A	L	G	I	E	V	P	Q	R	A	H	T	I	R	S	I	L	L	E	V	E	R	L	H	S	H	L	L	N	L	G	L	S	C	H	F	V	G	F	D
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		T	G	F	M	Q	F	F	R	V	R	E	K	S	M	T	M	A	E	L	L	I	G	S	R	K	T	Y	G	L	N	L	I	G	G	V	R	R	D	I	L	K	E	Q	R	L	Q	T	L	K	L	V	R	E	M	R	A	D	V	S	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		L	V	E	M	L	L	A	T	P	N	M	E	Q	R	T	Q	G	I	G	I	L	D	R	Q	I	A	R	D	L	R	F	D	H	P	Y	A	D	Y	G	N	I	P	K	T	L	F	T	F	T	G	G	D	V	F	S	R	V	M	V	R
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		V	K	E	T	F	D	S	L	A	M	L	E	F	A	L	D	N	M	P	D	T	P	L	L	T	E	G	F	S	Y	K	P	H	A	F	A	L	G	F	V	E	A	P	R	G	E	D	V	H	W	S	M	L	G	D	N	Q	K	L	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		R	W	R	C	R	A	A	T	Y	A	N	W	P	V	L	R	Y	M	L	R	G	N	T	V	S	D	A	P	L	I	I	G	S	L	D	P	C	Y	S	C	T	D	R	V	T	L	V	D	V	R	K	R	Q	S	K	T	V	P	Y	K
Secondary structure
SS confidence
Disorder																																																		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.	.	.
Sequence		E	I	E	R	Y	G	I	D	R	N	R	S	P	L	K
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 2fug chain 4 Region: 191 - 523 Aligned: 327 Modelled: 333 Confidence: 100.0% Identity: 31% PDB header:oxidoreductase Chain: 4: PDB Molecule:nadh-quinone oxidoreductase chain 4; PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus Phyre2 PDB 2fug chain 4 domain 1 Region: 191 - 523 Aligned: 327 Modelled: 333 Confidence: 100.0% Identity: 31% Fold: HydB/Nqo4-like Superfamily: HydB/Nqo4-like Family: Nqo4-like Phyre2 PDB 1yq9 chain H domain 1 Region: 183 - 523 Aligned: 337 Modelled: 341 Confidence: 100.0% Identity: 23% Fold: HydB/Nqo4-like Superfamily: HydB/Nqo4-like Family: Nickel-iron hydrogenase, large subunit Phyre2 PDB 1frf chain L Region: 175 - 523 Aligned: 345 Modelled: 349 Confidence: 100.0% Identity: 23% Fold: HydB/Nqo4-like Superfamily: HydB/Nqo4-like Family: Nickel-iron hydrogenase, large subunit Phyre2 PDB 1cc1 chain L Region: 182 - 523 Aligned: 337 Modelled: 342 Confidence: 100.0% Identity: 23% Fold: HydB/Nqo4-like Superfamily: HydB/Nqo4-like Family: Nickel-iron hydrogenase, large subunit Phyre2 PDB 1e3d chain B Region: 175 - 523 Aligned: 345 Modelled: 349 Confidence: 100.0% Identity: 23% Fold: HydB/Nqo4-like Superfamily: HydB/Nqo4-like Family: Nickel-iron hydrogenase, large subunit Phyre2 PDB 1h2a chain L Region: 184 - 523 Aligned: 336 Modelled: 340 Confidence: 100.0% Identity: 24% PDB header:oxidoreductase Chain: L: PDB Molecule:hydrogenase; PDBTitle: single crystals of hydrogenase from desulfovibrio vulgaris Phyre2 PDB 2wpn chain B Region: 180 - 523 Aligned: 338 Modelled: 344 Confidence: 100.0% Identity: 23% PDB header:oxidoreductase Chain: B: PDB Molecule:periplasmic [nifese] hydrogenase, large subunit, PDBTitle: structure of the oxidised, as-isolated nifese hydrogenase2 from d. vulgaris hildenborough Phyre2 PDB 3myr chain B Region: 184 - 523 Aligned: 335 Modelled: 340 Confidence: 100.0% Identity: 23% PDB header:oxidoreductase Chain: B: PDB Molecule:nickel-dependent hydrogenase large subunit; PDBTitle: crystal structure of [nife] hydrogenase from allochromatium vinosum in2 its ni-a state Phyre2 PDB 1wui chain L domain 1 Region: 184 - 523 Aligned: 334 Modelled: 340 Confidence: 100.0% Identity: 23% Fold: HydB/Nqo4-like Superfamily: HydB/Nqo4-like Family: Nickel-iron hydrogenase, large subunit Phyre2 PDB 2fug chain 5 domain 1 Region: 14 - 161 Aligned: 140 Modelled: 140 Confidence: 100.0% Identity: 23% Fold: Nqo5-like Superfamily: Nqo5-like Family: Nqo5-like Phyre2 PDB 3mcr chain A Region: 11 - 135 Aligned: 123 Modelled: 125 Confidence: 100.0% Identity: 22% PDB header:oxidoreductase Chain: A: PDB Molecule:nadh dehydrogenase, subunit c; PDBTitle: crystal structure of nadh dehydrogenase subunit c (tfu_2693) from2 thermobifida fusca yx-er1 at 2.65 a resolution Phyre2 PDB 3cf5 chain G Region: 514 - 531 Aligned: 18 Modelled: 18 Confidence: 35.6% Identity: 17% PDB header:ribosome/antibiotic Chain: G: PDB Molecule:50s ribosomal protein l13; PDBTitle: thiopeptide antibiotic thiostrepton bound to the large ribosomal2 subunit of deinococcus radiodurans Phyre2 PDB 2zjr chain G domain 1 Region: 514 - 531 Aligned: 18 Modelled: 18 Confidence: 35.6% Identity: 17% Fold: Ribosomal protein L13 Superfamily: Ribosomal protein L13 Family: Ribosomal protein L13 Phyre2 PDB 1v97 chain A domain 4 Region: 466 - 516 Aligned: 51 Modelled: 51 Confidence: 28.1% Identity: 8% Fold: CO dehydrogenase flavoprotein C-domain-like Superfamily: CO dehydrogenase flavoprotein C-terminal domain-like Family: CO dehydrogenase flavoprotein C-terminal domain-like Phyre2 PDB 2ftc chain H Region: 514 - 531 Aligned: 18 Modelled: 18 Confidence: 27.5% Identity: 22% PDB header:ribosome Chain: H: PDB Molecule:39s ribosomal protein l13, mitochondrial; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome Phyre2 PDB 3bbo chain L Region: 514 - 531 Aligned: 18 Modelled: 18 Confidence: 26.3% Identity: 22% PDB header:ribosome Chain: L: PDB Molecule:ribosomal protein l13; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome Phyre2 PDB 3d5b chain N Region: 513 - 531 Aligned: 19 Modelled: 19 Confidence: 25.4% Identity: 26% PDB header:ribosome Chain: N: PDB Molecule:50s ribosomal protein l13; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of one 70s ribosome. the entire crystal3 structure contains two 70s ribosomes as described in remark 400. Phyre2 PDB 2dgy chain A Region: 444 - 486 Aligned: 42 Modelled: 43 Confidence: 25.1% Identity: 10% PDB header:translation Chain: A: PDB Molecule:mgc11102 protein; PDBTitle: solution structure of the eukaryotic initiation factor 1a2 in mgc11102 protein Phyre2 PDB 1nh8 chain A domain 2 Region: 1 - 56 Aligned: 56 Modelled: 56 Confidence: 23.7% Identity: 5% Fold: Ferredoxin-like Superfamily: GlnB-like Family: ATP phosphoribosyltransferase (ATP-PRTase, HisG), regulatory C-terminal domain Phyre2 1 c2fug4_ 2 d2fug41 3 d1yq9h1 4 d1frfl_ 5 d1cc1l_ 6 d1e3db_ 7 c1h2aL_ 8 c2wpnB_ 9 c3myrB_ 10 d1wuil1 11 d2fug51 12 c3mcrA_ 13 c3cf5G_ 14 d2zjrg1 15 d1v97a4 16 c2ftcH_ 17 c3bboL_ 18 c3d5bN_ 19 c2dgyA_ 20 d1nh8a2 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 c2fug4_ 100.0 31 PDB header:oxidoreductase Chain: 4: PDB Molecule:nadh-quinone oxidoreductase chain 4; PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus 2 d2fug41 100.0 31 Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nqo4-like 3 d1yq9h1 100.0 23 Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit 4 d1frfl_ 100.0 23 Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit 5 d1cc1l_ 100.0 23 Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit 6 d1e3db_ 100.0 23 Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit 7 c1h2aL_ 100.0 24 PDB header:oxidoreductase Chain: L: PDB Molecule:hydrogenase; PDBTitle: single crystals of hydrogenase from desulfovibrio vulgaris 8 c2wpnB_ 100.0 23 PDB header:oxidoreductase Chain: B: PDB Molecule:periplasmic [nifese] hydrogenase, large subunit, PDBTitle: structure of the oxidised, as-isolated nifese hydrogenase2 from d. vulgaris hildenborough 9 c3myrB_ 100.0 23 PDB header:oxidoreductase Chain: B: PDB Molecule:nickel-dependent hydrogenase large subunit; PDBTitle: crystal structure of [nife] hydrogenase from allochromatium vinosum in2 its ni-a state 10 d1wuil1 100.0 23 Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit 11 d2fug51 100.0 23 Fold:Nqo5-like Superfamily:Nqo5-like Family:Nqo5-like 12 c3mcrA_ 100.0 22 PDB header:oxidoreductase Chain: A: PDB Molecule:nadh dehydrogenase, subunit c; PDBTitle: crystal structure of nadh dehydrogenase subunit c (tfu_2693) from2 thermobifida fusca yx-er1 at 2.65 a resolution 13 c3cf5G_ 35.6 17 PDB header:ribosome/antibiotic Chain: G: PDB Molecule:50s ribosomal protein l13; PDBTitle: thiopeptide antibiotic thiostrepton bound to the large ribosomal2 subunit of deinococcus radiodurans 14 d2zjrg1 35.6 17 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 15 d1v97a4 28.1 8 Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like 16 c2ftcH_ 27.5 22 PDB header:ribosome Chain: H: PDB Molecule:39s ribosomal protein l13, mitochondrial; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 17 c3bboL_ 26.3 22 PDB header:ribosome Chain: L: PDB Molecule:ribosomal protein l13; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 18 c3d5bN_ 25.4 26 PDB header:ribosome Chain: N: PDB Molecule:50s ribosomal protein l13; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of one 70s ribosome. the entire crystal3 structure contains two 70s ribosomes as described in remark 400. 19 c2dgyA_ 25.1 10 PDB header:translation Chain: A: PDB Molecule:mgc11102 protein; PDBTitle: solution structure of the eukaryotic initiation factor 1a2 in mgc11102 protein 20 d1nh8a2 23.7 5 Fold:Ferredoxin-like Superfamily:GlnB-like Family:ATP phosphoribosyltransferase (ATP-PRTase, HisG), regulatory C-terminal domain 21 d1ffvc1 not modelled 23.3 15 Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like 22 c3kwlA_ not modelled 20.8 10 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a hypothetical protein from helicobacter pylori 23 d1mixa2 not modelled 20.5 16 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Third domain of FERM 24 d2j01n1 not modelled 19.5 26 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 25 d1ef1a3 not modelled 19.3 9 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:First domain of FERM 26 c1ufiD_ not modelled 18.6 50 PDB header:dna binding protein Chain: D: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of the dimerization domain of human cenp-b 27 d1ufia_ not modelled 18.3 50 Fold:ROP-like Superfamily:Dimerisation domain of CENP-B Family:Dimerisation domain of CENP-B 28 c3mhyC_ not modelled 18.3 18 PDB header:signaling protein Chain: C: PDB Molecule:pii-like protein pz; PDBTitle: a new pii protein structure 29 d1u07a_ not modelled 18.0 14 Fold:TolA/TonB C-terminal domain Superfamily:TolA/TonB C-terminal domain Family:TonB 30 d1ni2a3 not modelled 17.4 20 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:First domain of FERM 31 d2zpya3 not modelled 17.0 9 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:First domain of FERM 32 c1wvtA_ not modelled 16.0 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein st2180; PDBTitle: crystal structure of uncharacterized protein st2180 from sulfolobus2 tokodaii 33 d1in0a2 not modelled 15.8 20 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 34 d2gych1 not modelled 15.7 17 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 35 c2dnwA_ not modelled 15.6 17 PDB header:transport protein Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of rsgi ruh-059, an acp domain of acyl2 carrier protein, mitochondrial [precursor] from human cdna 36 d1gg3a3 not modelled 15.3 15 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:First domain of FERM 37 c2grxC_ not modelled 15.2 8 PDB header:metal transport Chain: C: PDB Molecule:protein tonb; PDBTitle: crystal structure of tonb in complex with fhua, e. coli2 outer membrane receptor for ferrichrome 38 d1vqza1 not modelled 14.6 13 Fold:SufE/NifU Superfamily:SufE/NifU Family:SP1160 C-terminal domain-like 39 d1rtya_ not modelled 14.4 11 Fold:Ferritin-like Superfamily:Cobalamin adenosyltransferase-like Family:Cobalamin adenosyltransferase 40 d2hc5a1 not modelled 14.1 13 Fold:FlaG-like Superfamily:FlaG-like Family:FlaG-like 41 c1xx3A_ not modelled 13.8 6 PDB header:transport protein Chain: A: PDB Molecule:tonb protein; PDBTitle: solution structure of escherichia coli tonb-ctd 42 d2ntka1 not modelled 13.5 27 Fold:Ntn hydrolase-like Superfamily:Archaeal IMP cyclohydrolase PurO Family:Archaeal IMP cyclohydrolase PurO 43 d1o98a1 not modelled 13.3 14 Fold:2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain Superfamily:2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain Family:2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain 44 d2gskb1 not modelled 13.1 8 Fold:TolA/TonB C-terminal domain Superfamily:TolA/TonB C-terminal domain Family:TonB 45 d1qy7a_ not modelled 13.0 10 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Prokaryotic signal transducing protein 46 d3elna1 not modelled 13.0 21 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Cysteine dioxygenase type I 47 c1dpuA_ not modelled 12.6 14 PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) 48 d1dpua_ not modelled 12.6 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of RPA32 49 d2piia_ not modelled 12.6 16 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Prokaryotic signal transducing protein 50 c2oqkA_ not modelled 12.1 13 PDB header:translation Chain: A: PDB Molecule:putative translation initiation factor eif-1a; PDBTitle: crystal structure of putative cryptosporidium parvum translation2 initiation factor eif-1a 51 d2g40a1 not modelled 11.8 24 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:YkgG-like 52 c2g40A_ not modelled 11.8 24 PDB header:unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of a duf162 family protein (dr_1909) from2 deinococcus radiodurans at 1.70 a resolution 53 d3dhxa1 not modelled 11.8 8 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 54 c2z51A_ not modelled 11.6 15 PDB header:metal transport Chain: A: PDB Molecule:nifu-like protein 2, chloroplast; PDBTitle: crystal structure of arabidopsis cnfu involved in iron-2 sulfur cluster biosynthesis 55 c2zhzC_ not modelled 11.6 14 PDB header:transferase Chain: C: PDB Molecule:atp:cob(i)alamin adenosyltransferase, putative; PDBTitle: crystal structure of a pduo-type atp:cobalamin adenosyltransferase2 from burkholderia thailandensis 56 c2w3zA_ not modelled 11.5 14 PDB header:hydrolase Chain: A: PDB Molecule:putative deacetylase; PDBTitle: structure of a streptococcus mutans ce4 esterase 57 d1d7qa_ not modelled 11.3 13 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 58 d2v4jb2 not modelled 11.3 9 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:DsrA/DsrB N-terminal-domain-like 59 c2ntxB_ not modelled 11.2 53 PDB header:signaling protein Chain: B: PDB Molecule:emb cab41934.1; 60 d2qswa1 not modelled 11.1 8 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 61 c3echC_ not modelled 11.0 36 PDB header:transcription, transcription regulation Chain: C: PDB Molecule:25-mer fragment of protein armr; PDBTitle: the marr-family repressor mexr in complex with its antirepressor armr 62 d2r4qa1 not modelled 10.5 29 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Fructose specific IIB subunit-like 63 d1zj8a1 not modelled 10.3 17 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:Duplicated SiR/NiR-like domains 1 and 3 64 c3e7hA_ not modelled 10.3 21 PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase subunit beta; PDBTitle: the crystal structure of the beta subunit of the dna-2 directed rna polymerase from vibrio cholerae o1 biovar3 eltor 65 d2qrra1 not modelled 10.1 4 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 66 d1yqga2 not modelled 10.0 15 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:6-phosphogluconate dehydrogenase-like, N-terminal domain 67 c2ibpB_ not modelled 9.9 23 PDB header:transferase Chain: B: PDB Molecule:citrate synthase; PDBTitle: crystal structure of citrate synthase from pyrobaculum aerophilum 68 d1vfja_ not modelled 9.6 10 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Prokaryotic signal transducing protein 69 d2ns1b1 not modelled 9.6 19 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Prokaryotic signal transducing protein 70 d1r6ta2 not modelled 9.6 23 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Class I aminoacyl-tRNA synthetases (RS), catalytic domain 71 d1qxha_ not modelled 9.5 10 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione peroxidase-like 72 d1llaa3 not modelled 9.4 9 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Arthropod hemocyanin, C-terminal domain 73 c2fq2A_ not modelled 9.3 14 PDB header:lipid transport Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of minor conformation of holo-acyl2 carrier protein from malaria parasite plasmodium falciparum 74 d1hc1a3 not modelled 9.2 12 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Arthropod hemocyanin, C-terminal domain 75 d2qlvb1 not modelled 9.2 15 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like 76 c3ixvG_ not modelled 9.1 6 PDB header:oxygen binding Chain: G: PDB Molecule:hemocyanin aa6 chain; PDBTitle: scorpion hemocyanin resting state pseudo atomic model built based on2 cryo-em density map 77 c2eceA_ not modelled 9.0 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:462aa long hypothetical selenium-binding protein; PDBTitle: x-ray structure of hypothetical selenium-binding protein2 from sulfolobus tokodaii, st0059 78 c3g59A_ not modelled 8.7 17 PDB header:transferase Chain: A: PDB Molecule:fmn adenylyltransferase; PDBTitle: crystal structure of candida glabrata fmn2 adenylyltransferase in complex with atp 79 c3hrdC_ not modelled 8.6 12 PDB header:oxidoreductase Chain: C: PDB Molecule:nicotinate dehydrogenase fad-subunit; PDBTitle: crystal structure of nicotinate dehydrogenase 80 c1bl1A_ not modelled 8.6 56 PDB header:hormone receptor Chain: A: PDB Molecule:parathyroid hormone receptor; PDBTitle: pth receptor n-terminus fragment, nmr, 1 structure 81 d1es6a2 not modelled 8.6 36 Fold:EV matrix protein Superfamily:EV matrix protein Family:EV matrix protein 82 c1es6A_ not modelled 8.5 36 PDB header:viral protein Chain: A: PDB Molecule:matrix protein vp40; PDBTitle: crystal structure of the matrix protein of ebola virus 83 c2vgpD_ not modelled 8.4 19 PDB header:transferase Chain: D: PDB Molecule:inner centromere protein a; PDBTitle: crystal structure of aurora b kinase in complex with a2 aminothiazole inhibitor 84 d1n62c1 not modelled 8.3 15 Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like 85 d2ic1a1 not modelled 8.3 21 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Cysteine dioxygenase type I 86 c2ip1A_ not modelled 8.3 31 PDB header:ligase Chain: A: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure analysis of s. cerevisiae tryptophanyl trna2 synthetase 87 c3jxeB_ not modelled 8.1 23 PDB header:ligase Chain: B: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure of pyrococcus horikoshii tryptophanyl-trna2 synthetase in complex with trpamp 88 d1xhja_ not modelled 8.0 36 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 89 c2kzxA_ not modelled 8.0 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of a3dht5 from clostridium thermocellum,2 northeast structural genomics consortium target cmr116 90 c3a05A_ not modelled 8.0 31 PDB header:ligase Chain: A: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure of tryptophanyl-trna synthetase from2 hyperthermophilic archaeon, aeropyrum pernix k1 complex3 with tryptophan 91 d2owna1 not modelled 7.9 8 Fold:Thioesterase/thiol ester dehydrase-isomerase Superfamily:Thioesterase/thiol ester dehydrase-isomerase Family:Acyl-ACP thioesterase-like 92 c1in0B_ not modelled 7.8 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) 93 d1woha_ not modelled 7.8 15 Fold:Arginase/deacetylase Superfamily:Arginase/deacetylase Family:Arginase-like amidino hydrolases 94 c3hzrD_ not modelled 7.8 15 PDB header:ligase Chain: D: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: tryptophanyl-trna synthetase homolog from entamoeba histolytica 95 c1mbbA_ not modelled 7.7 17 PDB header:oxidoreductase Chain: A: PDB Molecule:uridine diphospho-n-acetylenolpyruvylglucosamine PDBTitle: oxidoreductase 96 c1nh7A_ not modelled 7.7 5 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: atp phosphoribosyltransferase (atp-prtase) from mycobacterium2 tuberculosis 97 d1vi7a2 not modelled 7.6 17 Fold:Ferredoxin-like Superfamily:EF-G C-terminal domain-like Family:YigZ C-terminal domain-like 98 d1h4ra3 not modelled 7.6 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:First domain of FERM 99 c2l4bA_ not modelled 7.6 16 PDB header:transferase Chain: A: PDB Molecule:acyl carrier protein; PDBTitle: solution structure of a putative acyl carrier protein from anaplasma2 phagocytophilum. seattle structural genomics center for infectious3 disease target anpha.01018.a

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