Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	H	E	T	K	M	E	N	Q	S	W	L	K	K	L	A	R	R	L	G	P	G	H	V	V	N	L	C	F	I	V	V	L	L	F	S	T	L	L	T	W	R	E	V	V	V	L	E	D	A	Y	I	S	S	Q	R	N	H	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?											?																						?					?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	N	V	A	N	A	L	D	K	H	L	Q	Y	N	V	D	K	L	I	F	L	R	N	G	M	R	E	A	L	V	A	P	L	D	F	T	S	L	R	D	A	V	T	E	F	E	Q	H	R	D	E	H	A	W	K	I	E	L	N	R
Secondary structure
SS confidence
Disorder						?		?																								?	?	?	?	?	?	?	?										?		?	?	?						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	R	T	L	P	V	N	G	V	S	D	A	L	V	S	E	G	N	L	L	S	R	E	N	E	S	L	D	N	E	I	T	A	A	L	E	V	G	Y	L	L	R	L	A	H	N	S	S	S	M	V	E	Q	A	M	Y	V	S	R	A
Secondary structure
SS confidence
Disorder		?	?		?					?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?									?	?								?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	F	Y	V	S	T	Q	P	T	L	F	T	R	N	V	P	T	R	Y	Y	G	Y	V	T	Q	P	W	F	I	G	H	S	Q	R	E	N	R	H	R	A	V	R	W	F	T	S	Q	P	E	H	A	S	N	T	E	P	Q	V	T	V
Secondary structure
SS confidence
Disorder		?							?	?	?	?	?																						?	?		?		?							?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	V	P	V	D	S	N	N	Y	W	Y	G	V	L	G	M	S	I	P	V	R	T	M	Q	Q	F	L	R	N	A	I	D	K	N	L	D	G	E	Y	Q	L	Y	D	S	K	L	R	F	L	T	S	S	N	P	D	H	P	T	G	N
Secondary structure
SS confidence
Disorder																																															?					?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		I	F	D	P	R	E	L	A	L	L	A	Q	A	M	E	H	D	T	R	G	G	I	R	M	D	S	R	Y	V	S	W	E	R	L	D	H	F	D	G	V	L	V	R	V	H	T	L	S	E	G	V	R	G	D	F	G	S	I	S	I
Secondary structure
SS confidence
Disorder		?												?	?		?	?	?	?	?																										?	?					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		A	L	T	L	L	W	A	L	F	T	T	M	L	L	I	S	W	Y	V	I	R	R	M	V	S	N	M	Y	V	L	Q	S	S	L	Q	W	Q	A	W	H	D	T	L	T	R	L	Y	N	R	G	A	L	F	E	K	A	R	P	L	A
Secondary structure
SS confidence
Disorder																																							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		K	L	C	Q	T	H	Q	H	P	F	S	V	I	Q	V	D	L	D	H	F	K	A	I	N	D	R	F	G	H	Q	A	G	D	R	V	L	S	H	A	A	G	L	I	S	S	S	L	R	A	Q	D	V	A	G	R	V	G	G	E	E
Secondary structure
SS confidence
Disorder					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		F	C	V	I	L	P	G	A	S	L	T	E	A	A	E	V	A	E	R	I	R	L	K	L	N	E	K	E	M	L	I	A	K	S	T	T	I	R	I	S	A	S	L	G	V	S	S	S	E	E	T	G	D	Y	D	F	E	Q	L	Q
Secondary structure
SS confidence
Disorder																															?	?	?	?	?																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.
Sequence		S	L	A	D	R	R	L	Y	L	A	K	Q	A	G	R	N	R	V	F	A	S	D	N	A
Secondary structure
SS confidence
Disorder																						?	?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 1w25 chain B Region: 370 - 561 Aligned: 191 Modelled: 192 Confidence: 100.0% Identity: 34% PDB header:signaling protein Chain: B: PDB Molecule:stalked-cell differentiation controlling protein; PDBTitle: response regulator pled in complex with c-digmp Phyre2 PDB 3ezu chain A Region: 373 - 560 Aligned: 177 Modelled: 188 Confidence: 100.0% Identity: 31% PDB header:signaling protein Chain: A: PDB Molecule:ggdef domain protein; PDBTitle: crystal structure of multidomain protein of unknown function with2 ggdef-domain (np_951600.1) from geobacter sulfurreducens at 1.95 a3 resolution Phyre2 PDB 3bre chain A Region: 350 - 563 Aligned: 213 Modelled: 214 Confidence: 100.0% Identity: 30% PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: crystal structure of p.aeruginosa pa3702 Phyre2 PDB 3i5a chain A Region: 357 - 560 Aligned: 204 Modelled: 204 Confidence: 100.0% Identity: 31% PDB header:signaling protein Chain: A: PDB Molecule:response regulator/ggdef domain protein; PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae Phyre2 PDB 3i5c chain A Region: 370 - 560 Aligned: 190 Modelled: 191 Confidence: 100.0% Identity: 31% PDB header:signaling protein Chain: A: PDB Molecule:fusion of general control protein gcn4 and wspr response PDBTitle: crystal structure of a fusion protein containing the leucine zipper of2 gcn4 and the ggdef domain of wspr from pseudomonas aeruginosa Phyre2 PDB 3i5b chain A Region: 397 - 562 Aligned: 165 Modelled: 166 Confidence: 100.0% Identity: 34% PDB header:signaling protein Chain: A: PDB Molecule:wspr response regulator; PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa Phyre2 PDB 3ign chain A Region: 396 - 561 Aligned: 164 Modelled: 162 Confidence: 100.0% Identity: 35% PDB header:transferase Chain: A: PDB Molecule:diguanylate cyclase; PDBTitle: crystal structure of the ggdef domain from marinobacter2 aquaeolei diguanylate cyclase complexed with c-di-gmp -3 northeast structural genomics consortium target mqr89a Phyre2 PDB 3hva chain A Region: 397 - 559 Aligned: 161 Modelled: 163 Confidence: 100.0% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:protein fimx; PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa Phyre2 PDB 3qyy chain B Region: 393 - 561 Aligned: 156 Modelled: 156 Confidence: 100.0% Identity: 31% PDB header:signaling protein/inhibitor Chain: B: PDB Molecule:response regulator; PDBTitle: a novel interaction mode between a microbial ggdef domain and the bis-2 (3, 5 )-cyclic di-gmp Phyre2 PDB 3icl chain A Region: 400 - 562 Aligned: 160 Modelled: 162 Confidence: 100.0% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:eal/ggdef domain protein; PDBTitle: x-ray structure of protein (eal/ggdef domain protein) from2 m.capsulatus, northeast structural genomics consortium3 target mcr174c Phyre2 PDB 1w25 chain A domain 3 Region: 403 - 563 Aligned: 160 Modelled: 161 Confidence: 100.0% Identity: 38% Fold: Ferredoxin-like Superfamily: Nucleotide cyclase Family: GGDEF domain Phyre2 PDB 3mtk chain A Region: 393 - 564 Aligned: 160 Modelled: 172 Confidence: 100.0% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:diguanylate cyclase/phosphodiesterase; PDBTitle: x-ray structure of diguanylate cyclase/phosphodiesterase from2 caldicellulosiruptor saccharolyticus, northeast structural genomics3 consortium target clr27c Phyre2 PDB 3pjw chain A Region: 382 - 564 Aligned: 178 Modelled: 181 Confidence: 100.0% Identity: 21% PDB header:lyase Chain: A: PDB Molecule:cyclic dimeric gmp binding protein; PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23 Phyre2 PDB 3hvw chain A Region: 407 - 563 Aligned: 153 Modelled: 155 Confidence: 100.0% Identity: 16% PDB header:lyase Chain: A: PDB Molecule:diguanylate-cyclase (dgc); PDBTitle: crystal structure of the ggdef domain of the pa2567 protein2 from pseudomonas aeruginosa, northeast structural genomics3 consortium target par365c Phyre2 PDB 3gfz chain B Region: 394 - 562 Aligned: 137 Modelled: 140 Confidence: 99.8% Identity: 10% PDB header:hydrolase, signaling protein Chain: B: PDB Molecule:klebsiella pneumoniae blrp1; PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex Phyre2 PDB 3p7n chain B Region: 383 - 455 Aligned: 73 Modelled: 73 Confidence: 99.0% Identity: 10% PDB header:dna binding protein Chain: B: PDB Molecule:sensor histidine kinase; PDBTitle: crystal structure of light activated transcription factor el222 from2 erythrobacter litoralis Phyre2 PDB 3lia chain A Region: 54 - 351 Aligned: 252 Modelled: 260 Confidence: 98.0% Identity: 12% PDB header:signaling protein Chain: A: PDB Molecule:hypothetical sensory transduction histidine kinase; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase mmhk1s-z2 Phyre2 PDB 3lib chain A Region: 54 - 354 Aligned: 255 Modelled: 263 Confidence: 98.0% Identity: 10% PDB header:signaling protein Chain: A: PDB Molecule:hypothetical sensory transduction histidine kinase; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase mmhk1s-z3 Phyre2 PDB 2p7j chain A Region: 58 - 350 Aligned: 245 Modelled: 249 Confidence: 97.6% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:putative sensory box/ggdef family protein; PDBTitle: crystal structure of the domain of putative sensory box/ggdef family2 protein from vibrio parahaemolyticus Phyre2 PDB 3lic chain A Region: 44 - 353 Aligned: 256 Modelled: 265 Confidence: 97.6% Identity: 11% PDB header:signaling protein Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase sohk1s-z6 Phyre2 1 c1w25B_ 2 c3ezuA_ 3 c3breA_ 4 c3i5aA_ 5 c3i5cA_ 6 c3i5bA_ 7 c3ignA_ 8 c3hvaA_ 9 c3qyyB_ 10 c3iclA_ 11 d1w25a3 12 c3mtkA_ 13 c3pjwA_ 14 c3hvwA_ 15 c3gfzB_ 16 c3p7nB_ 17 c3liaA_ 18 c3libA_ 19 c2p7jA_ 20 c3licA_ 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 c1w25B_ 100.0 34 PDB header:signaling protein Chain: B: PDB Molecule:stalked-cell differentiation controlling protein; PDBTitle: response regulator pled in complex with c-digmp 2 c3ezuA_ 100.0 31 PDB header:signaling protein Chain: A: PDB Molecule:ggdef domain protein; PDBTitle: crystal structure of multidomain protein of unknown function with2 ggdef-domain (np_951600.1) from geobacter sulfurreducens at 1.95 a3 resolution 3 c3breA_ 100.0 30 PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: crystal structure of p.aeruginosa pa3702 4 c3i5aA_ 100.0 31 PDB header:signaling protein Chain: A: PDB Molecule:response regulator/ggdef domain protein; PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae 5 c3i5cA_ 100.0 31 PDB header:signaling protein Chain: A: PDB Molecule:fusion of general control protein gcn4 and wspr response PDBTitle: crystal structure of a fusion protein containing the leucine zipper of2 gcn4 and the ggdef domain of wspr from pseudomonas aeruginosa 6 c3i5bA_ 100.0 34 PDB header:signaling protein Chain: A: PDB Molecule:wspr response regulator; PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa 7 c3ignA_ 100.0 35 PDB header:transferase Chain: A: PDB Molecule:diguanylate cyclase; PDBTitle: crystal structure of the ggdef domain from marinobacter2 aquaeolei diguanylate cyclase complexed with c-di-gmp -3 northeast structural genomics consortium target mqr89a 8 c3hvaA_ 100.0 19 PDB header:transferase Chain: A: PDB Molecule:protein fimx; PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa 9 c3qyyB_ 100.0 31 PDB header:signaling protein/inhibitor Chain: B: PDB Molecule:response regulator; PDBTitle: a novel interaction mode between a microbial ggdef domain and the bis-2 (3, 5 )-cyclic di-gmp 10 c3iclA_ 100.0 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:eal/ggdef domain protein; PDBTitle: x-ray structure of protein (eal/ggdef domain protein) from2 m.capsulatus, northeast structural genomics consortium3 target mcr174c 11 d1w25a3 100.0 38 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:GGDEF domain 12 c3mtkA_ 100.0 21 PDB header:transferase Chain: A: PDB Molecule:diguanylate cyclase/phosphodiesterase; PDBTitle: x-ray structure of diguanylate cyclase/phosphodiesterase from2 caldicellulosiruptor saccharolyticus, northeast structural genomics3 consortium target clr27c 13 c3pjwA_ 100.0 21 PDB header:lyase Chain: A: PDB Molecule:cyclic dimeric gmp binding protein; PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23 14 c3hvwA_ 100.0 16 PDB header:lyase Chain: A: PDB Molecule:diguanylate-cyclase (dgc); PDBTitle: crystal structure of the ggdef domain of the pa2567 protein2 from pseudomonas aeruginosa, northeast structural genomics3 consortium target par365c 15 c3gfzB_ 99.8 10 PDB header:hydrolase, signaling protein Chain: B: PDB Molecule:klebsiella pneumoniae blrp1; PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex 16 c3p7nB_ 99.0 10 PDB header:dna binding protein Chain: B: PDB Molecule:sensor histidine kinase; PDBTitle: crystal structure of light activated transcription factor el222 from2 erythrobacter litoralis 17 c3liaA_ 98.0 12 PDB header:signaling protein Chain: A: PDB Molecule:hypothetical sensory transduction histidine kinase; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase mmhk1s-z2 18 c3libA_ 98.0 10 PDB header:signaling protein Chain: A: PDB Molecule:hypothetical sensory transduction histidine kinase; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase mmhk1s-z3 19 c2p7jA_ 97.6 14 PDB header:transcription Chain: A: PDB Molecule:putative sensory box/ggdef family protein; PDBTitle: crystal structure of the domain of putative sensory box/ggdef family2 protein from vibrio parahaemolyticus 20 c3licA_ 97.6 11 PDB header:signaling protein Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase sohk1s-z6 21 c3c8cB_ not modelled 97.3 10 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:methyl-accepting chemotaxis protein; PDBTitle: crystal structure of mcp_n and cache domains of methyl-2 accepting chemotaxis protein from vibrio cholerae 22 c2qv6D_ not modelled 97.3 21 PDB header:hydrolase Chain: D: PDB Molecule:gtp cyclohydrolase iii; PDBTitle: gtp cyclohydrolase iii from m. jannaschii (mj0145)2 complexed with gtp and metal ions 23 c3fosA_ not modelled 97.3 16 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of two-component sensor histidine kinase domain from2 bacillus subtilis subsp. subtilis str. 168 24 c3e4pB_ not modelled 97.0 14 PDB header:transferase Chain: B: PDB Molecule:c4-dicarboxylate transport sensor protein dctb; PDBTitle: crystal structure of malonate occupied dctb 25 c3lifA_ not modelled 97.0 12 PDB header:signaling protein Chain: A: PDB Molecule:putative diguanylate cyclase (ggdef) with pas/pac domain; PDBTitle: crystal structure of the extracellular domain of the putative2 histidine kinase rphk1s-z16 26 c1cjkA_ not modelled 96.9 8 PDB header:lyase/lyase/signaling protein Chain: A: PDB Molecule:adenylate cyclase, type v; PDBTitle: complex of gs-alpha with the catalytic domains of mammalian adenylyl2 cyclase: complex with adenosine 5'-(alpha thio)-triphosphate (rp),3 mg, and mn 27 d1azsa_ not modelled 96.7 8 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 28 c2w01C_ not modelled 96.2 12 PDB header:lyase Chain: C: PDB Molecule:adenylate cyclase; PDBTitle: crystal structure of the guanylyl cyclase cya2 29 c3by9A_ not modelled 95.9 14 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of the v. cholerae histidine kinase dctb2 sensor domain 30 d1wc1a_ not modelled 95.9 14 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 31 c3mr7B_ not modelled 95.8 13 PDB header:hydrolase Chain: B: PDB Molecule:adenylate/guanylate cyclase/hydrolase, alpha/beta fold PDBTitle: crystal structure of adenylate/guanylate cyclase/hydrolase from2 silicibacter pomeroyi 32 c1wc6B_ not modelled 95.7 15 PDB header:lyase Chain: B: PDB Molecule:adenylate cyclase; PDBTitle: soluble adenylyl cyclase cyac from s. platensis in complex2 with rp-atpalphas in presence of bicarbonate 33 d1fx2a_ not modelled 95.4 14 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 34 c3uvjC_ not modelled 94.8 15 PDB header:lyase Chain: C: PDB Molecule:guanylate cyclase soluble subunit alpha-3; PDBTitle: crystal structure of the catalytic domain of the heterodimeric human2 soluble guanylate cyclase 1. 35 d2p7ja2 not modelled 94.1 15 Fold:Profilin-like Superfamily:Sensory domain-like Family:YkuI C-terminal domain-like 36 c1yk9A_ not modelled 93.5 11 PDB header:lyase Chain: A: PDB Molecule:adenylate cyclase; PDBTitle: crystal structure of a mutant form of the mycobacterial2 adenylyl cyclase rv1625c 37 c1y10C_ not modelled 93.5 12 PDB header:lyase Chain: C: PDB Molecule:hypothetical protein rv1264/mt1302; PDBTitle: mycobacterial adenylyl cyclase rv1264, holoenzyme, inhibited state 38 c1ybuA_ not modelled 92.9 13 PDB header:hydrolase Chain: A: PDB Molecule:lipj; PDBTitle: mycobacterium tuberculosis adenylyl cyclase rv1900c chd, in complex2 with a substrate analog. 39 c3r5gB_ not modelled 92.9 17 PDB header:lyase Chain: B: PDB Molecule:cyab; PDBTitle: crystal structure of the adenylyl cyclase cyab from p. aeruginosa 40 d1fx4a_ not modelled 92.5 27 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 41 c2aq4A_ not modelled 88.6 20 PDB header:transferase Chain: A: PDB Molecule:dna repair protein rev1; PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp. 42 c3et6A_ not modelled 86.9 11 PDB header:lyase Chain: A: PDB Molecule:soluble guanylyl cyclase beta; PDBTitle: the crystal structure of the catalytic domain of a eukaryotic2 guanylate cyclase 43 c3onqB_ not modelled 86.5 10 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:regulator of polyketide synthase expression; PDBTitle: crystal structure of regulator of polyketide synthase expression2 bad_0249 from bifidobacterium adolescentis 44 c1k1qA_ not modelled 80.3 25 PDB header:transcription Chain: A: PDB Molecule:dbh protein; PDBTitle: crystal structure of a dinb family error prone dna2 polymerase from sulfolobus solfataricus 45 c3mr2A_ not modelled 79.7 31 PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: human dna polymerase eta in complex with normal dna and incoming2 nucleotide (nrm) 46 d2basa2 not modelled 79.5 14 Fold:Profilin-like Superfamily:Sensory domain-like Family:YkuI C-terminal domain-like 47 c1s97D_ not modelled 78.6 25 PDB header:transferase/dna Chain: D: PDB Molecule:dna polymerase iv; PDBTitle: dpo4 with gt mismatch 48 c3gqcB_ not modelled 76.8 20 PDB header:transferase/dna Chain: B: PDB Molecule:dna repair protein rev1; PDBTitle: structure of human rev1-dna-dntp ternary complex 49 c2wz1B_ not modelled 76.8 9 PDB header:lyase Chain: B: PDB Molecule:guanylate cyclase soluble subunit beta-1; PDBTitle: structure of the catalytic domain of human soluble2 guanylate cyclase 1 beta 3. 50 d1jx4a2 not modelled 74.5 21 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 51 c2r8kB_ not modelled 74.0 30 PDB header:replication, transferase/dna Chain: B: PDB Molecule:dna polymerase eta; PDBTitle: structure of the eukaryotic dna polymerase eta in complex with 1,2-2 d(gpg)-cisplatin containing dna 52 d1im4a_ not modelled 71.5 25 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 53 d1azsb_ not modelled 70.0 13 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 54 d1k1sa2 not modelled 66.7 25 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 55 c2oh2B_ not modelled 66.6 23 PDB header:transferase/dna Chain: B: PDB Molecule:dna polymerase kappa; PDBTitle: ternary complex of human dna polymerase 56 c1jihA_ not modelled 65.9 30 PDB header:translation Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: yeast dna polymerase eta 57 d1jiha2 not modelled 59.0 30 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 58 d1gx1a_ not modelled 56.9 14 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 59 c2fllA_ not modelled 55.5 31 PDB header:replication/dna Chain: A: PDB Molecule:dna polymerase iota; PDBTitle: ternary complex of human dna polymerase iota with dna and dttp 60 d1t0aa_ not modelled 50.7 15 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 61 c3f0gA_ not modelled 48.8 9 PDB header:lyase Chain: A: PDB Molecule:2-c-methyl-d-erythritol 2,4-cyclodiphosphate synthase; PDBTitle: co-crystal structure of 2c-methyl-d-erythritol 2,4-cyclodiphosphate2 synthase with cmp 62 c1t3nB_ not modelled 48.8 21 PDB header:replication/dna Chain: B: PDB Molecule:polymerase (dna directed) iota; PDBTitle: structure of the catalytic core of dna polymerase iota in2 complex with dna and dttp 63 d1w55a2 not modelled 47.8 20 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 64 c3oheA_ not modelled 47.0 13 PDB header:hydrolase Chain: A: PDB Molecule:histidine triad (hit) protein; PDBTitle: crystal structure of a histidine triad protein (maqu_1709) from2 marinobacter aquaeolei vt8 at 1.20 a resolution 65 d1iv3a_ not modelled 43.7 14 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 66 c2pmpA_ not modelled 43.3 17 PDB header:lyase Chain: A: PDB Molecule:2-c-methyl-d-erythritol 2,4-cyclodiphosphate synthase; PDBTitle: structure of 2c-methyl-d-erythritol 2,4-cyclodiphosphate synthase from2 the isoprenoid biosynthetic pathway of arabidopsis thaliana 67 c3l7xA_ not modelled 37.0 17 PDB header:cell cycle Chain: A: PDB Molecule:putative hit-like protein involved in cell-cycle PDBTitle: the crystal structure of smu.412c from streptococcus mutans ua159 68 c3p0tB_ not modelled 34.6 15 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an hit-like protein from mycobacterium2 paratuberculosis 69 c3i24B_ not modelled 34.1 15 PDB header:hydrolase Chain: B: PDB Molecule:hit family hydrolase; PDBTitle: crystal structure of a hit family hydrolase protein from2 vibrio fischeri. northeast structural genomics consortium3 target id vfr176 70 c1t94B_ not modelled 33.0 21 PDB header:replication Chain: B: PDB Molecule:polymerase (dna directed) kappa; PDBTitle: crystal structure of the catalytic core of human dna2 polymerase kappa 71 d2o5aa1 not modelled 28.7 21 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Iojap/YbeB-like 72 d1y23a_ not modelled 28.2 12 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins 73 d1yhta1 not modelled 25.2 13 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:beta-N-acetylhexosaminidase catalytic domain 74 c1xaxA_ not modelled 23.7 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical upf0054 protein hi0004; PDBTitle: nmr structure of hi0004, a putative essential gene product2 from haemophilus influenzae 75 c2ylaA_ not modelled 23.5 7 PDB header:hydrolase Chain: A: PDB Molecule:beta-n-acetylhexosaminidase; PDBTitle: inhibition of the pneumococcal virulence factor strh and2 molecular insights into n-glycan recognition and3 hydrolysis 76 c2yl8A_ not modelled 23.4 4 PDB header:hydrolase Chain: A: PDB Molecule:beta-n-acetylhexosaminidase; PDBTitle: inhibition of the pneumococcal virulence factor strh and2 molecular insights into n-glycan recognition and3 hydrolysis 77 c3imiB_ not modelled 23.0 13 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hit family protein; PDBTitle: 2.01 angstrom resolution crystal structure of a hit family protein2 from bacillus anthracis str. 'ames ancestor' 78 c1qgeE_ not modelled 22.4 23 PDB header:hydrolase Chain: E: PDB Molecule:protein (triacylglycerol hydrolase); PDBTitle: new crystal form of pseudomonas glumae (formerly chromobacterium2 viscosum atcc 6918) lipase 79 d1vr6a1 not modelled 22.0 18 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I DAHP synthetase 80 c3rpmA_ not modelled 21.1 7 PDB header:hydrolase Chain: A: PDB Molecule:beta-n-acetyl-hexosaminidase; PDBTitle: crystal structure of the first gh20 domain of a novel beta-n-acetyl-2 hexosaminidase strh from streptococcus pneumoniae r6 81 d1vh8a_ not modelled 21.0 14 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 82 c3b6nA_ not modelled 20.8 11 PDB header:lyase Chain: A: PDB Molecule:2-c-methyl-d-erythritol 2,4-cyclodiphosphate PDBTitle: crystal structure of 2c-methyl-d-erythritol 2,4-2 cyclodiphosphate synthase pv003920 from plasmodium vivax 83 d2axta1 not modelled 18.3 16 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 84 c3nrdB_ not modelled 17.9 17 PDB header:nucleotide binding protein Chain: B: PDB Molecule:histidine triad (hit) protein; PDBTitle: crystal structure of a histidine triad (hit) protein (smc02904) from2 sinorhizobium meliloti 1021 at 2.06 a resolution 85 d1fi4a1 not modelled 17.3 26 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:GHMP Kinase, N-terminal domain 86 c3fgeA_ not modelled 17.1 24 PDB header:oxidoreductase Chain: A: PDB Molecule:putative flavin reductase with split barrel domain; PDBTitle: crystal structure of putative flavin reductase with split barrel2 domain (yp_750721.1) from shewanella frigidimarina ncimb 400 at 1.743 a resolution 87 d1l9bm_ not modelled 16.9 23 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 88 c2yf0A_ not modelled 16.7 11 PDB header:hydrolase Chain: A: PDB Molecule:myotubularin-related protein 6; PDBTitle: human myotubularin related protein 6 (mtmr6) 89 d1t94a2 not modelled 16.5 30 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 90 d1eysl_ not modelled 16.4 26 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 91 d2i5nl1 not modelled 16.3 32 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 92 d2axtd1 not modelled 15.7 16 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 93 d2j8cl1 not modelled 15.3 26 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 94 d2i5nm1 not modelled 15.2 26 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 95 d1oz9a_ not modelled 15.1 13 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Predicted metal-dependent hydrolase 96 d1zsqa2 not modelled 13.8 10 Fold:(Phosphotyrosine protein) phosphatases II Superfamily:(Phosphotyrosine protein) phosphatases II Family:Myotubularin-like phosphatases 97 d1eysm_ not modelled 13.8 26 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 98 d2j8cm1 not modelled 13.7 23 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 99 c1m04A_ not modelled 13.6 10 PDB header:hydrolase Chain: A: PDB Molecule:beta-n-acetylhexosaminidase; PDBTitle: mutant streptomyces plicatus beta-hexosaminidase (d313n) in complex2 with product (glcnac)

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