Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	I	T	K	L	A	W	R	D	L	V	P	D	T	D	S	Y	Q	E	I	F	A	Q	P	H	L	I	D	E	N	D	P	L	F	S	D	T	Q	P	R	L	Q	F	A	L	E	Q	L	L	H	T	R	A	S	S	S	F	M	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?				?	?	?	?												?	?	?	?	?	?	?	?	?	?	?	?		?	?	?	?										?	?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	K	A	P	E	E	S	E	Y	L	N	L	I	A	N	A	A	R	T	L	Q	S	D	A	G	Q	L	V	G	G	H	Y	E	V	S	G	H	S	I	R	L	R	H	A	V	S	A	D	D	N	F	A	T	L	T	Q	V	V	A	A
Secondary structure
SS confidence
Disorder			?		?	?																		?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	W	V	E	A	E	Q	L	F	G	C	L	R	Q	F	N	G	D	I	T	L	Q	P	G	L	V	H	Q	A	N	G	G	I	L	I	I	S	L	R	T	L	L	A	Q	P	L	L	W	M	R	L	K	N	I	V	N	R	E	R	F
Secondary structure
SS confidence
Disorder																					?																																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	W	V	A	F	D	E	S	R	P	L	P	V	S	V	P	S	M	P	L	K	L	K	V	I	L	V	G	E	R	E	S	L	A	D	F	Q	E	M	E	P	E	L	S	E	Q	A	I	Y	S	E	F	E	D	T	L	Q	I	V	D
Secondary structure
SS confidence
Disorder			?	?		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	E	S	V	T	Q	W	C	R	W	V	T	F	T	A	R	H	N	H	L	P	A	P	G	A	D	A	W	P	I	L	I	R	E	A	A	R	Y	T	G	E	Q	E	T	L	P	L	S	P	Q	W	I	L	R	Q	C	K	E	V	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		S	L	C	D	G	D	T	F	S	G	E	Q	L	N	L	M	L	Q	Q	R	E	W	R	E	G	F	L	A	E	R	M	Q	D	E	I	L	Q	E	Q	I	L	I	E	T	E	G	E	R	I	G	Q	I	N	A	L	S	V	I	E	F
Secondary structure
SS confidence
Disorder					?			?		?														?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		P	G	H	P	R	A	F	G	E	P	S	R	I	S	C	V	V	H	I	G	D	G	E	F	T	D	I	E	R	K	A	E	L	G	G	N	I	H	A	K	G	M	M	I	M	Q	A	F	L	M	S	E	L	Q	L	E	Q	Q	I	P
Secondary structure
SS confidence
Disorder				?			?	?		?	?	?	?							?	?	?	?		?		?	?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		F	S	A	S	L	T	F	E	Q	S	Y	S	E	V	D	G	D	S	A	S	M	A	E	L	C	A	L	I	S	A	L	A	D	V	P	V	N	Q	S	I	A	I	T	G	S	V	D	Q	F	G	R	A	Q	P	V	G	G	L	N	E
Secondary structure
SS confidence
Disorder										?		?	?	?	?	?																		?															?							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		K	I	E	G	F	F	A	I	C	Q	Q	R	E	L	T	G	K	Q	G	V	I	I	P	T	A	N	V	R	H	L	S	L	H	S	E	L	V	K	A	V	E	E	G	K	F	T	I	W	A	V	D	D	V	T	D	A	L	P	L	L
Secondary structure
SS confidence
Disorder																															?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.
Sequence		L	N	L	V	W	D	G	E	G	Q	T	T	L	M	Q	T	I	Q	E	R	I	A	Q	A	S	Q	Q	E	G	R	H	R	F	P	W	P	L	R	W	L	N	W	F	I	P	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 3k1j chain A Region: 101 - 561 Aligned: 437 Modelled: 461 Confidence: 100.0% Identity: 22% PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease lon; PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1 Phyre2 PDB 3m6a chain C Region: 21 - 541 Aligned: 455 Modelled: 494 Confidence: 100.0% Identity: 19% PDB header:hydrolase Chain: C: PDB Molecule:atp-dependent protease la 1; PDBTitle: crystal structure of bacillus subtilis lon c-terminal domain Phyre2 PDB 1z0e chain F Region: 341 - 556 Aligned: 191 Modelled: 216 Confidence: 100.0% Identity: 34% PDB header:hydrolase Chain: F: PDB Molecule:putative protease la homolog type; PDBTitle: crystal structure of a. fulgidus lon proteolytic domain Phyre2 PDB 1xhk chain A Region: 346 - 543 Aligned: 175 Modelled: 198 Confidence: 100.0% Identity: 33% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: ATP-dependent protease Lon (La), catalytic domain Phyre2 PDB 2x36 chain F Region: 347 - 541 Aligned: 172 Modelled: 195 Confidence: 100.0% Identity: 23% PDB header:hydrolase Chain: F: PDB Molecule:lon protease homolog, mitochondrial; PDBTitle: structure of the proteolytic domain of the human2 mitochondrial lon protease Phyre2 PDB 1rre chain A Region: 348 - 544 Aligned: 176 Modelled: 197 Confidence: 100.0% Identity: 27% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: ATP-dependent protease Lon (La), catalytic domain Phyre2 PDB 1ny5 chain A Region: 93 - 317 Aligned: 206 Modelled: 216 Confidence: 99.3% Identity: 13% PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state Phyre2 PDB 3dzd chain A Region: 35 - 309 Aligned: 249 Modelled: 275 Confidence: 99.2% Identity: 14% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state Phyre2 PDB 1qzm chain A Region: 276 - 353 Aligned: 77 Modelled: 78 Confidence: 99.1% Identity: 13% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 1x37 chain A Region: 276 - 348 Aligned: 72 Modelled: 73 Confidence: 99.1% Identity: 18% PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease la 1; PDBTitle: structure of bacillus subtilis lon protease ssd domain Phyre2 PDB 1ny5 chain A domain 2 Region: 92 - 317 Aligned: 207 Modelled: 217 Confidence: 97.7% Identity: 13% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 2c99 chain A Region: 92 - 313 Aligned: 203 Modelled: 222 Confidence: 97.6% Identity: 12% PDB header:transcription regulation Chain: A: PDB Molecule:psp operon transcriptional activator; PDBTitle: structural basis of the nucleotide driven conformational2 changes in the aaa domain of transcription activator pspf Phyre2 PDB 3pxg chain A Region: 134 - 319 Aligned: 166 Modelled: 186 Confidence: 97.0% Identity: 16% PDB header:protein binding Chain: A: PDB Molecule:negative regulator of genetic competence clpc/mecb; PDBTitle: structure of meca121 and clpc1-485 complex Phyre2 PDB 1ojl chain F Region: 92 - 317 Aligned: 207 Modelled: 226 Confidence: 96.8% Identity: 15% PDB header:response regulator Chain: F: PDB Molecule:transcriptional regulatory protein zrar; PDBTitle: crystal structure of a sigma54-activator suggests the2 mechanism for the conformational switch necessary for3 sigma54 binding Phyre2 PDB 1qvr chain B Region: 135 - 337 Aligned: 176 Modelled: 191 Confidence: 96.8% Identity: 14% PDB header:chaperone Chain: B: PDB Molecule:clpb protein; PDBTitle: crystal structure analysis of clpb Phyre2 PDB 3f8t chain A Region: 141 - 318 Aligned: 163 Modelled: 178 Confidence: 96.3% Identity: 16% PDB header:hydrolase Chain: A: PDB Molecule:predicted atpase involved in replication control, PDBTitle: crystal structure analysis of a full-length mcm homolog2 from methanopyrus kandleri Phyre2 PDB 3f9v chain A Region: 117 - 318 Aligned: 191 Modelled: 202 Confidence: 95.3% Identity: 16% PDB header:hydrolase Chain: A: PDB Molecule:minichromosome maintenance protein mcm; PDBTitle: crystal structure of a near full-length archaeal mcm: functional2 insights for an aaa+ hexameric helicase Phyre2 PDB 2gef chain A Region: 440 - 500 Aligned: 50 Modelled: 58 Confidence: 94.5% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:protease vp4; PDBTitle: crystal structure of a novel viral protease with a2 serine/lysine catalytic dyad mechanism Phyre2 PDB 1r6b chain X domain 2 Region: 135 - 319 Aligned: 177 Modelled: 185 Confidence: 92.6% Identity: 12% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 3nbx chain X Region: 93 - 313 Aligned: 202 Modelled: 221 Confidence: 92.1% Identity: 14% PDB header:hydrolase Chain: X: PDB Molecule:atpase rava; PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp Phyre2 1 c3k1jA_ 2 c3m6aC_ 3 c1z0eF_ 4 d1xhka_ 5 c2x36F_ 6 d1rrea_ 7 c1ny5A_ 8 c3dzdA_ 9 d1qzma_ 10 c1x37A_ 11 d1ny5a2 12 c2c99A_ 13 c3pxgA_ 14 c1ojlF_ 15 c1qvrB_ 16 c3f8tA_ 17 c3f9vA_ 18 c2gefA_ 19 d1r6bx2 20 c3nbxX_ 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 c3k1jA_ 100.0 22 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease lon; PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1 2 c3m6aC_ 100.0 19 PDB header:hydrolase Chain: C: PDB Molecule:atp-dependent protease la 1; PDBTitle: crystal structure of bacillus subtilis lon c-terminal domain 3 c1z0eF_ 100.0 34 PDB header:hydrolase Chain: F: PDB Molecule:putative protease la homolog type; PDBTitle: crystal structure of a. fulgidus lon proteolytic domain 4 d1xhka_ 100.0 33 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:ATP-dependent protease Lon (La), catalytic domain 5 c2x36F_ 100.0 23 PDB header:hydrolase Chain: F: PDB Molecule:lon protease homolog, mitochondrial; PDBTitle: structure of the proteolytic domain of the human2 mitochondrial lon protease 6 d1rrea_ 100.0 27 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:ATP-dependent protease Lon (La), catalytic domain 7 c1ny5A_ 99.3 13 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state 8 c3dzdA_ 99.2 14 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state 9 d1qzma_ 99.1 13 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 10 c1x37A_ 99.1 18 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease la 1; PDBTitle: structure of bacillus subtilis lon protease ssd domain 11 d1ny5a2 97.7 13 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 12 c2c99A_ 97.6 12 PDB header:transcription regulation Chain: A: PDB Molecule:psp operon transcriptional activator; PDBTitle: structural basis of the nucleotide driven conformational2 changes in the aaa domain of transcription activator pspf 13 c3pxgA_ 97.0 16 PDB header:protein binding Chain: A: PDB Molecule:negative regulator of genetic competence clpc/mecb; PDBTitle: structure of meca121 and clpc1-485 complex 14 c1ojlF_ 96.8 15 PDB header:response regulator Chain: F: PDB Molecule:transcriptional regulatory protein zrar; PDBTitle: crystal structure of a sigma54-activator suggests the2 mechanism for the conformational switch necessary for3 sigma54 binding 15 c1qvrB_ 96.8 14 PDB header:chaperone Chain: B: PDB Molecule:clpb protein; PDBTitle: crystal structure analysis of clpb 16 c3f8tA_ 96.3 16 PDB header:hydrolase Chain: A: PDB Molecule:predicted atpase involved in replication control, PDBTitle: crystal structure analysis of a full-length mcm homolog2 from methanopyrus kandleri 17 c3f9vA_ 95.3 16 PDB header:hydrolase Chain: A: PDB Molecule:minichromosome maintenance protein mcm; PDBTitle: crystal structure of a near full-length archaeal mcm: functional2 insights for an aaa+ hexameric helicase 18 c2gefA_ 94.5 36 PDB header:hydrolase Chain: A: PDB Molecule:protease vp4; PDBTitle: crystal structure of a novel viral protease with a2 serine/lysine catalytic dyad mechanism 19 d1r6bx2 92.6 12 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 20 c3nbxX_ 92.1 14 PDB header:hydrolase Chain: X: PDB Molecule:atpase rava; PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp 21 c1r6bX_ not modelled 91.9 15 PDB header:hydrolase Chain: X: PDB Molecule:clpa protein; PDBTitle: high resolution crystal structure of clpa 22 d1um8a_ not modelled 91.6 13 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 23 c3pxiB_ not modelled 90.7 14 PDB header:protein binding Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb; PDBTitle: structure of meca108:clpc 24 d1g8pa_ not modelled 90.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 25 c3co5B_ not modelled 88.0 14 PDB header:transcription regulator Chain: B: PDB Molecule:putative two-component system transcriptional response PDBTitle: crystal structure of sigma-54 interaction domain of putative2 transcriptional response regulator from neisseria gonorrhoeae 26 c3u5zM_ not modelled 85.8 14 PDB header:dna binding protein/dna Chain: M: PDB Molecule:dna polymerase accessory protein 44; PDBTitle: structure of t4 bacteriophage clamp loader bound to the t4 clamp,2 primer-template dna, and atp analog 27 c3pfiB_ not modelled 84.9 12 PDB header:hydrolase Chain: B: PDB Molecule:holliday junction atp-dependent dna helicase ruvb; PDBTitle: 2.7 angstrom resolution crystal structure of a probable holliday2 junction dna helicase (ruvb) from campylobacter jejuni subsp. jejuni3 nctc 11168 in complex with adenosine-5'-diphosphate 28 c3b9pA_ not modelled 82.7 15 PDB header:hydrolase Chain: A: PDB Molecule:cg5977-pa, isoform a; PDBTitle: spastin 29 c1sxjA_ not modelled 82.5 13 PDB header:replication Chain: A: PDB Molecule:activator 1 95 kda subunit; PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna) 30 d1iqpa2 not modelled 81.7 14 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 31 c1in8A_ not modelled 81.1 17 PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction dna helicase ruvb; PDBTitle: thermotoga maritima ruvb t158v 32 d1sxjb2 not modelled 80.7 11 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 33 c2r44A_ not modelled 79.7 9 PDB header:hydrolase Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative atpase (chu_0153) from cytophaga2 hutchinsonii atcc 33406 at 2.00 a resolution 34 d1qvra3 not modelled 79.2 13 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 35 c1iy2A_ not modelled 78.9 14 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh; PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus 36 c3d8bB_ not modelled 77.9 12 PDB header:hydrolase Chain: B: PDB Molecule:fidgetin-like protein 1; PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp 37 d2ce7a2 not modelled 76.0 13 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 38 d1ixza_ not modelled 73.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 39 c3pvsA_ not modelled 72.6 13 PDB header:recombination Chain: A: PDB Molecule:replication-associated recombination protein a; PDBTitle: structure and biochemical activities of escherichia coli mgsa 40 c2r65A_ not modelled 68.4 14 PDB header:hydrolase Chain: A: PDB Molecule:cell division protease ftsh homolog; PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex 41 c2z4rB_ not modelled 68.0 10 PDB header:dna binding protein Chain: B: PDB Molecule:chromosomal replication initiator protein dnaa; PDBTitle: crystal structure of domain iii from the thermotoga2 maritima replication initiation protein dnaa 42 d1sxjc2 not modelled 68.0 19 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 43 d1dvoa_ not modelled 67.0 13 Fold:FinO-like Superfamily:FinO-like Family:FinO-like 44 d1r6bx3 not modelled 63.9 11 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 45 c2x8aA_ not modelled 61.5 13 PDB header:nuclear protein Chain: A: PDB Molecule:nuclear valosin-containing protein-like; PDBTitle: human nuclear valosin containing protein like (nvl), c-2 terminal aaa-atpase domain 46 c3bosA_ not modelled 61.1 13 PDB header:hydrolase regulator,dna binding protein Chain: A: PDB Molecule:putative dna replication factor; PDBTitle: crystal structure of a putative dna replication regulator hda2 (sama_1916) from shewanella amazonensis sb2b at 1.75 a resolution 47 d2hxja1 not modelled 56.1 9 Fold:FinO-like Superfamily:FinO-like Family:FinO-like 48 d1qvra2 not modelled 54.4 16 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 49 c2dhrC_ not modelled 53.1 15 PDB header:hydrolase Chain: C: PDB Molecule:ftsh; PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l) 50 d1yvua1 not modelled 47.3 44 Fold:SH3-like barrel Superfamily:PAZ domain Family:PAZ domain 51 c3hteC_ not modelled 46.1 8 PDB header:motor protein Chain: C: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx; PDBTitle: crystal structure of nucleotide-free hexameric clpx 52 c3hu2C_ not modelled 45.4 14 PDB header:transport protein Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase; PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs 53 d1njfa_ not modelled 43.8 23 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 54 c3cf1C_ not modelled 41.4 14 PDB header:transport protein Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase; PDBTitle: structure of p97/vcp in complex with adp/adp.alfx 55 c1sxjE_ not modelled 38.0 12 PDB header:replication Chain: E: PDB Molecule:activator 1 40 kda subunit; PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna) 56 d1in4a2 not modelled 34.9 16 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 57 c3pi7A_ not modelled 33.5 12 PDB header:oxidoreductase Chain: A: PDB Molecule:nadh oxidoreductase; PDBTitle: crystal structure of a putative nadph:quinone reductase (mll3093) from2 mesorhizobium loti at 1.71 a resolution 58 d1rm6a2 not modelled 32.8 8 Fold:Molybdenum cofactor-binding domain Superfamily:Molybdenum cofactor-binding domain Family:Molybdenum cofactor-binding domain 59 c1wygA_ not modelled 32.5 17 PDB header:oxidoreductase Chain: A: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of a rat xanthine dehydrogenase triple mutant2 (c535a, c992r and c1324s) 60 c2w54F_ not modelled 30.9 10 PDB header:oxidoreductase Chain: F: PDB Molecule:xanthine dehydrogenase; PDBTitle: crystal structure of xanthine dehydrogenase from2 rhodobacter capsulatus in complex with bound inhibitor3 pterin-6-aldehyde 61 d1ofha_ not modelled 30.2 14 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 62 c2c0cB_ not modelled 28.9 7 PDB header:oxidoreductase Chain: B: PDB Molecule:zinc binding alcohol dehydrogenase, domain PDBTitle: structure of the mgc45594 gene product 63 d1qf8a_ not modelled 26.9 24 Fold:Rubredoxin-like Superfamily:Casein kinase II beta subunit Family:Casein kinase II beta subunit 64 c2hcyD_ not modelled 25.9 9 PDB header:oxidoreductase Chain: D: PDB Molecule:alcohol dehydrogenase 1; PDBTitle: yeast alcohol dehydrogenase i, saccharomyces cerevisiae fermentative2 enzyme 65 c1wlyA_ not modelled 25.1 17 PDB header:oxidoreductase Chain: A: PDB Molecule:2-haloacrylate reductase; PDBTitle: crystal structure of 2-haloacrylate reductase 66 c2c9kA_ not modelled 24.3 23 PDB header:toxin Chain: A: PDB Molecule:pesticidal crystal protein cry4aa; PDBTitle: structure of the functional form of the mosquito-larvicidal2 cry4aa toxin from bacillus thuringiensis at 2.8 a3 resolution 67 d1d2na_ not modelled 24.2 10 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 68 c2z5wA_ not modelled 23.5 21 PDB header:structural protein Chain: A: PDB Molecule:bcla protein; PDBTitle: tbcla, a recombinant spore surface protein from bacillus anthracis 69 d1v97a5 not modelled 23.3 14 Fold:Molybdenum cofactor-binding domain Superfamily:Molybdenum cofactor-binding domain Family:Molybdenum cofactor-binding domain 70 c1wckA_ not modelled 23.2 21 PDB header:structural protein Chain: A: PDB Molecule:bcla protein; PDBTitle: crystal structure of the c-terminal domain of bcla, the2 major antigen of the exosporium of the bacillus anthracis3 spore. 71 c3eihB_ not modelled 23.1 12 PDB header:protein transport Chain: B: PDB Molecule:vacuolar protein sorting-associated protein 4; PDBTitle: crystal structure of s.cerevisiae vps4 in the presence of atpgammas 72 c2pnmA_ not modelled 22.2 19 PDB header:hydrolase Chain: A: PDB Molecule:protease vp4; PDBTitle: crystal structure of vp4 protease from infectious pancreatic necrosis2 virus (ipnv) in space group p6122 73 c2qz4A_ not modelled 21.9 12 PDB header:hydrolase Chain: A: PDB Molecule:paraplegin; PDBTitle: human paraplegin, aaa domain in complex with adp 74 c1nsfA_ not modelled 21.3 10 PDB header:protein transport Chain: A: PDB Molecule:n-ethylmaleimide sensitive factor; PDBTitle: d2 hexamerization domain of n-ethylmaleimide sensitive factor (nsf) 75 d1hiod_ not modelled 21.3 11 Fold:Histone-fold Superfamily:Histone-fold Family:Nucleosome core histones 76 c3gazA_ not modelled 20.6 22 PDB header:oxidoreductase Chain: A: PDB Molecule:alcohol dehydrogenase superfamily protein; PDBTitle: crystal structure of an alcohol dehydrogenase superfamily protein from2 novosphingobium aromaticivorans 77 c1hk8A_ not modelled 20.2 28 PDB header:oxidoreductase Chain: A: PDB Molecule:anaerobic ribonucleotide-triphosphate reductase; PDBTitle: structural basis for allosteric substrate specificity2 regulation in class iii ribonucleotide reductases:3 nrdd in complex with dgtp 78 d1hk8a_ not modelled 20.2 28 Fold:PFL-like glycyl radical enzymes Superfamily:PFL-like glycyl radical enzymes Family:Class III anaerobic ribonucleotide reductase NRDD subunit 79 d1sxja2 not modelled 20.0 12 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 80 c1uufA_ not modelled 19.5 13 PDB header:oxidoreductase Chain: A: PDB Molecule:zinc-type alcohol dehydrogenase-like protein PDBTitle: crystal structure of a zinc-type alcohol dehydrogenase-like2 protein yahk 81 d1o75a2 not modelled 19.3 23 Fold:Immunoglobulin-like beta-sandwich Superfamily:Tp47 lipoprotein, middle and C-terminal domains Family:Tp47 lipoprotein, middle and C-terminal domains 82 c2p65A_ not modelled 19.1 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pf08_0063; PDBTitle: crystal structure of the first nucleotide binding domain of2 chaperone clpb1, putative, (pv089580) from plasmodium vivax 83 d1jrob2 not modelled 19.0 10 Fold:Molybdenum cofactor-binding domain Superfamily:Molybdenum cofactor-binding domain Family:Molybdenum cofactor-binding domain 84 c1x59A_ not modelled 19.0 22 PDB header:protein binding Chain: A: PDB Molecule:histidyl-trna synthetase; PDBTitle: solution structures of the whep-trs domain of human2 histidyl-trna synthetase 85 d2hfqa1 not modelled 18.8 16 Fold:NE1680-like Superfamily:NE1680-like Family:NE1680-like 86 c2hfqA_ not modelled 18.8 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: nmr structure of protein ne1680 from nitrosomonas europaea:2 northeast structural genomics consortium target net5 87 c1zsvB_ not modelled 18.7 31 PDB header:oxidoreductase Chain: B: PDB Molecule:nadp-dependent leukotriene b4 12- PDBTitle: crystal structure of human nadp-dependent leukotriene b4 12-2 hydroxydehydrogenase 88 c3jynA_ not modelled 18.6 23 PDB header:oxidoreductase Chain: A: PDB Molecule:quinone oxidoreductase; PDBTitle: crystal structures of pseudomonas syringae pv. tomato dc30002 quinone oxidoreductase complexed with nadph 89 c1k47F_ not modelled 16.3 12 PDB header:transferase Chain: F: PDB Molecule:phosphomevalonate kinase; PDBTitle: crystal structure of the streptococcus pneumoniae2 phosphomevalonate kinase (pmk) 90 c3eubL_ not modelled 16.1 14 PDB header:oxidoreductase Chain: L: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of desulfo-xanthine oxidase with xanthine 91 c1sb3D_ not modelled 16.1 8 PDB header:oxidoreductase Chain: D: PDB Molecule:4-hydroxybenzoyl-coa reductase alpha subunit; PDBTitle: structure of 4-hydroxybenzoyl-coa reductase from thauera2 aromatica 92 c2vcyA_ not modelled 16.0 17 PDB header:oxidoreductase Chain: A: PDB Molecule:trans-2-enoyl-coa reductase; PDBTitle: crystal structure of 2-enoyl thioester reductase of human2 fas ii 93 c1iqpF_ not modelled 15.8 16 PDB header:replication Chain: F: PDB Molecule:rfcs; PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus 94 c2om6A_ not modelled 15.5 23 PDB header:hydrolase Chain: A: PDB Molecule:probable phosphoserine phosphatase; PDBTitle: hypothetical protein (probable phosphoserine phosph (ph0253) from2 pyrococcus horikoshii ot3 95 d1sxjd2 not modelled 15.5 16 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 96 d1x6va3 not modelled 15.3 22 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Adenosine-5'phosphosulfate kinase (APS kinase) 97 c3gohA_ not modelled 15.0 17 PDB header:oxidoreductase Chain: A: PDB Molecule:alcohol dehydrogenase, zinc-containing; PDBTitle: crystal structure of alcohol dehydrogenase superfamily protein2 (np_718042.1) from shewanella oneidensis at 1.55 a resolution 98 c3hrdE_ not modelled 15.0 18 PDB header:oxidoreductase Chain: E: PDB Molecule:nicotinate dehydrogenase large molybdopterin PDBTitle: crystal structure of nicotinate dehydrogenase 99 c1yadD_ not modelled 14.8 23 PDB header:transcription Chain: D: PDB Molecule:regulatory protein teni; PDBTitle: structure of teni from bacillus subtilis

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