Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	A	D	W	F	S	E	Q	F	S	T	G	V	L	I	V	P	C	M	L	T	L	A	I	P	G	V	L	P	R	F	K	A	E	Q	M	M	P	A	I	A	L	I	V	S	V	I	A	S	V	V	I	G	G	A	G	S	L	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	P	L	P	A	L	I	W	C	A	V	R	Y	T	P	Q	V	T	C	L	L	T	F	V	T	G	A	V	E	I	V	L	V	A	N	S	V	I	D	I	S	V	G	S	P	F	S	I	P	Q	M	F	S	A	R	L	G	I	A	T
Secondary structure
SS confidence
Disorder														?																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		M	A	I	C	P	I	M	V	S	F	S	V	A	A	I	N	S	L	M	K	Q	V	A	L	R	A	D	F	D	F	L	T	Q	V	Y	S	R	S	G	L	Y	E	A	L	K	S	P	S	L	K	Q	T	Q	H	L	T	V	M	L	L
Secondary structure
SS confidence
Disorder																											?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	I	D	Y	F	K	S	I	N	D	N	Y	G	H	E	C	G	D	K	V	L	S	V	F	A	R	H	I	Q	K	I	V	G	D	K	G	L	V	A	R	M	G	G	E	E	F	A	V	A	V	P	S	V	N	P	V	D	G	L	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		M	A	E	K	I	R	K	G	V	E	L	Q	P	F	T	W	Q	Q	K	T	L	Y	L	T	V	S	I	G	V	G	S	G	R	A	S	Y	L	T	L	T	D	D	F	N	K	L	M	V	E	A	D	T	C	L	Y	R	S	K	K	D
Secondary structure
SS confidence
Disorder																?																		?	?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.
Sequence		G	R	N	R	T	S	T	M	R	Y	G	E	E	V	V
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: 118 - 307 Aligned: 186 Modelled: 190 Confidence: 100.0% Identity: 32% 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: 124 - 308 Aligned: 175 Modelled: 184 Confidence: 100.0% Identity: 27% 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: 128 - 309 Aligned: 180 Modelled: 182 Confidence: 100.0% Identity: 33% 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: 127 - 307 Aligned: 178 Modelled: 181 Confidence: 100.0% Identity: 32% 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 3hva chain A Region: 145 - 306 Aligned: 158 Modelled: 162 Confidence: 100.0% Identity: 20% PDB header:transferase Chain: A: PDB Molecule:protein fimx; PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa Phyre2 PDB 3i5c chain A Region: 128 - 308 Aligned: 179 Modelled: 181 Confidence: 100.0% Identity: 32% 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 3ign chain A Region: 144 - 307 Aligned: 160 Modelled: 160 Confidence: 100.0% Identity: 27% 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 3i5b chain A Region: 145 - 308 Aligned: 162 Modelled: 164 Confidence: 100.0% Identity: 36% 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 3icl chain A Region: 148 - 309 Aligned: 158 Modelled: 157 Confidence: 99.9% Identity: 28% 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: 151 - 309 Aligned: 155 Modelled: 159 Confidence: 99.9% Identity: 37% Fold: Ferredoxin-like Superfamily: Nucleotide cyclase Family: GGDEF domain Phyre2 PDB 3mtk chain A Region: 141 - 314 Aligned: 161 Modelled: 174 Confidence: 99.9% Identity: 19% 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 3qyy chain B Region: 141 - 307 Aligned: 152 Modelled: 167 Confidence: 99.9% Identity: 30% 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 3pjw chain A Region: 131 - 313 Aligned: 177 Modelled: 183 Confidence: 99.9% Identity: 17% 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: 155 - 314 Aligned: 152 Modelled: 160 Confidence: 99.9% Identity: 14% 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: 142 - 314 Aligned: 139 Modelled: 145 Confidence: 99.3% Identity: 11% 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: 131 - 200 Aligned: 70 Modelled: 70 Confidence: 98.1% Identity: 6% 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 2qv6 chain D Region: 171 - 313 Aligned: 121 Modelled: 143 Confidence: 97.2% Identity: 17% 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 Phyre2 PDB 1wc6 chain B Region: 171 - 273 Aligned: 103 Modelled: 103 Confidence: 90.8% Identity: 12% 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 Phyre2 PDB 1wc1 chain A Region: 171 - 273 Aligned: 103 Modelled: 103 Confidence: 90.7% Identity: 15% Fold: Ferredoxin-like Superfamily: Nucleotide cyclase Family: Adenylyl and guanylyl cyclase catalytic domain Phyre2 PDB 1azs chain A Region: 173 - 273 Aligned: 98 Modelled: 101 Confidence: 89.6% Identity: 15% Fold: Ferredoxin-like Superfamily: Nucleotide cyclase Family: Adenylyl and guanylyl cyclase catalytic domain Phyre2 1 c1w25B_ 2 c3ezuA_ 3 c3breA_ 4 c3i5aA_ 5 c3hvaA_ 6 c3i5cA_ 7 c3ignA_ 8 c3i5bA_ 9 c3iclA_ 10 d1w25a3 11 c3mtkA_ 12 c3qyyB_ 13 c3pjwA_ 14 c3hvwA_ 15 c3gfzB_ 16 c3p7nB_ 17 c2qv6D_ 18 c1wc6B_ 19 d1wc1a_ 20 d1azsa_ 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 32 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 27 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 33 PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: crystal structure of p.aeruginosa pa3702 4 c3i5aA_ 100.0 32 PDB header:signaling protein Chain: A: PDB Molecule:response regulator/ggdef domain protein; PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae 5 c3hvaA_ 100.0 20 PDB header:transferase Chain: A: PDB Molecule:protein fimx; PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa 6 c3i5cA_ 100.0 32 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 7 c3ignA_ 100.0 27 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 c3i5bA_ 100.0 36 PDB header:signaling protein Chain: A: PDB Molecule:wspr response regulator; PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa 9 c3iclA_ 99.9 28 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 10 d1w25a3 99.9 37 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:GGDEF domain 11 c3mtkA_ 99.9 19 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 12 c3qyyB_ 99.9 30 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 13 c3pjwA_ 99.9 17 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_ 99.9 14 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_ 99.3 11 PDB header:hydrolase, signaling protein Chain: B: PDB Molecule:klebsiella pneumoniae blrp1; PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex 16 c3p7nB_ 98.1 6 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 c2qv6D_ 97.2 17 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 18 c1wc6B_ 90.8 12 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 19 d1wc1a_ 90.7 15 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 20 d1azsa_ 89.6 15 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 21 c1cjkA_ not modelled 89.4 14 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 22 d1fx4a_ not modelled 89.2 18 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 23 c1y10C_ not modelled 89.2 16 PDB header:lyase Chain: C: PDB Molecule:hypothetical protein rv1264/mt1302; PDBTitle: mycobacterial adenylyl cyclase rv1264, holoenzyme, inhibited state 24 d1fx2a_ not modelled 88.7 15 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 25 c3et6A_ not modelled 88.4 14 PDB header:lyase Chain: A: PDB Molecule:soluble guanylyl cyclase beta; PDBTitle: the crystal structure of the catalytic domain of a eukaryotic2 guanylate cyclase 26 c3uvjC_ not modelled 86.0 11 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. 27 c3mr7B_ not modelled 84.9 12 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 28 c2w01C_ not modelled 84.2 12 PDB header:lyase Chain: C: PDB Molecule:adenylate cyclase; PDBTitle: crystal structure of the guanylyl cyclase cya2 29 c3r5gB_ not modelled 82.3 20 PDB header:lyase Chain: B: PDB Molecule:cyab; PDBTitle: crystal structure of the adenylyl cyclase cyab from p. aeruginosa 30 d1vh8a_ not modelled 76.6 10 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 31 c3b6nA_ not modelled 76.1 10 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 32 c1s97D_ not modelled 73.0 15 PDB header:transferase/dna Chain: D: PDB Molecule:dna polymerase iv; PDBTitle: dpo4 with gt mismatch 33 c1ybuA_ not modelled 72.6 13 PDB header:hydrolase Chain: A: PDB Molecule:lipj; PDBTitle: mycobacterium tuberculosis adenylyl cyclase rv1900c chd, in complex2 with a substrate analog. 34 c2pmpA_ not modelled 72.4 12 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 35 d1w55a2 not modelled 70.5 11 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 36 d1t0aa_ not modelled 70.1 14 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 37 d1gx1a_ not modelled 69.4 12 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 38 d1iv3a_ not modelled 68.8 14 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 39 c2aq4A_ not modelled 67.9 23 PDB header:transferase Chain: A: PDB Molecule:dna repair protein rev1; PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp. 40 c3f0gA_ not modelled 67.9 12 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 41 c1yk9A_ not modelled 66.2 12 PDB header:lyase Chain: A: PDB Molecule:adenylate cyclase; PDBTitle: crystal structure of a mutant form of the mycobacterial2 adenylyl cyclase rv1625c 42 d1im4a_ not modelled 64.1 20 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 43 c3gqcB_ not modelled 61.0 24 PDB header:transferase/dna Chain: B: PDB Molecule:dna repair protein rev1; PDBTitle: structure of human rev1-dna-dntp ternary complex 44 c3re3B_ not modelled 57.8 12 PDB header:lyase Chain: B: PDB Molecule:2-c-methyl-d-erythritol 2,4-cyclodiphosphate synthase; PDBTitle: crystal structure of 2-c-methyl-d-erythritol 2,4-cyclodiphosphate2 synthase from francisella tularensis 45 c1k1qA_ not modelled 55.6 18 PDB header:transcription Chain: A: PDB Molecule:dbh protein; PDBTitle: crystal structure of a dinb family error prone dna2 polymerase from sulfolobus solfataricus 46 c2wz1B_ not modelled 55.3 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. 47 c1w57A_ not modelled 55.1 10 PDB header:transferase Chain: A: PDB Molecule:ispd/ispf bifunctional enzyme; PDBTitle: structure of the bifunctional ispdf from campylobacter2 jejuni containing zn 48 d1jx4a2 not modelled 51.0 15 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 49 c2r8kB_ not modelled 50.7 28 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 50 d1azsb_ not modelled 40.5 11 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 51 c1jihA_ not modelled 37.8 29 PDB header:translation Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: yeast dna polymerase eta 52 c3mr2A_ not modelled 32.7 32 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) 53 c2oh2B_ not modelled 31.3 21 PDB header:transferase/dna Chain: B: PDB Molecule:dna polymerase kappa; PDBTitle: ternary complex of human dna polymerase 54 c1xaxA_ not modelled 24.9 13 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 55 d1k1sa2 not modelled 24.9 16 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 56 d2ox6a1 not modelled 20.5 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:YdiL-like 57 c3qkbB_ not modelled 20.0 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein with unknown function which belongs to2 pfam duf74 family (pepe_0654) from pediococcus pentosaceus atcc 257453 at 2.73 a resolution 58 d1jiha2 not modelled 19.5 28 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 59 c1yy3A_ not modelled 19.0 18 PDB header:isomerase Chain: A: PDB Molecule:s-adenosylmethionine:trna ribosyltransferase- PDBTitle: structure of s-adenosylmethionine:trna ribosyltransferase-2 isomerase (quea) 60 d2o5aa1 not modelled 17.3 10 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Iojap/YbeB-like 61 d1wdia_ not modelled 16.9 18 Fold:QueA-like Superfamily:QueA-like Family:QueA-like 62 c2uzhB_ not modelled 15.3 21 PDB header:lyase Chain: B: PDB Molecule:2c-methyl-d-erythritol 2,4-cyclodiphosphate PDBTitle: mycobacterium smegmatis 2c-methyl-d-erythritol-2,4-2 cyclodiphosphate synthase (ispf) 63 c1qgeE_ not modelled 14.5 16 PDB header:hydrolase Chain: E: PDB Molecule:protein (triacylglycerol hydrolase); PDBTitle: new crystal form of pseudomonas glumae (formerly chromobacterium2 viscosum atcc 6918) lipase 64 c2y1bA_ not modelled 14.1 14 PDB header:membrane protein Chain: A: PDB Molecule:putative outer membrane protein, signal; PDBTitle: crystal structure of the e. coli outer membrane lipoprotein2 rcsf 65 d2fiqa1 not modelled 12.8 15 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:GatZ-like 66 c2bblA_ not modelled 11.0 14 PDB header:viral protein Chain: A: PDB Molecule:genome linked protein vpg; PDBTitle: nmr structures of the peptide linked to the genome (vpg) of2 poliovirus in a stabilizing solvent 67 c3l7xA_ not modelled 10.7 23 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 d1xxaa_ not modelled 10.7 18 Fold:DCoH-like Superfamily:C-terminal domain of arginine repressor Family:C-terminal domain of arginine repressor 69 d2oyra1 not modelled 10.6 25 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:YhiQ-like 70 d2djka1 not modelled 9.9 19 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:PDI-like 71 c2r6zA_ not modelled 9.7 15 PDB header:transferase Chain: A: PDB Molecule:upf0341 protein in rsp 3' region; PDBTitle: crystal structure of the sam-dependent methyltransferase2 ngo1261 from neisseria gonorrhoeae, northeast structural3 genomics consortium target ngr48 72 c3iyuY_ not modelled 9.3 20 PDB header:virus Chain: Y: PDB Molecule:outer capsid protein vp4; PDBTitle: atomic model of an infectious rotavirus particle 73 c3onqB_ not modelled 9.1 7 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 74 c1iojA_ not modelled 9.0 56 PDB header:apolipoprotein Chain: A: PDB Molecule:apoc-i; PDBTitle: human apolipoprotein c-i, nmr, 18 structures 75 d2dlxa1 not modelled 8.7 8 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:UAS domain 76 c3anoA_ not modelled 8.6 19 PDB header:transferase Chain: A: PDB Molecule:ap-4-a phosphorylase; PDBTitle: crystal structure of a novel diadenosine 5',5'''-p1,p4-tetraphosphate2 phosphorylase from mycobacterium tuberculosis h37rv 77 d1ei7a_ not modelled 8.5 40 Fold:Four-helical up-and-down bundle Superfamily:TMV-like viral coat proteins Family:TMV-like viral coat proteins 78 d2pkwa1 not modelled 8.5 25 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:YhiQ-like 79 d1nhoa_ not modelled 8.5 17 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 80 c3kmlB_ not modelled 8.5 36 PDB header:viral protein Chain: B: PDB Molecule:coat protein; PDBTitle: circular permutant of the tobacco mosaic virus 81 c3upsA_ not modelled 8.3 9 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:iojap-like protein; PDBTitle: crystal structure of iojap-like protein from zymomonas mobilis 82 d1zaka2 not modelled 8.3 29 Fold:Rubredoxin-like Superfamily:Microbial and mitochondrial ADK, insert "zinc finger" domain Family:Microbial and mitochondrial ADK, insert "zinc finger" domain 83 c3hf3A_ not modelled 8.3 17 PDB header:oxidoreductase Chain: A: PDB Molecule:chromate reductase; PDBTitle: old yellow enzyme from thermus scotoductus sa-01 84 c2zhoB_ not modelled 8.2 9 PDB header:transferase Chain: B: PDB Molecule:aspartokinase; PDBTitle: crystal structure of the regulatory subunit of aspartate2 kinase from thermus thermophilus (ligand free form) 85 c3imiB_ not modelled 8.1 14 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' 86 c2i46A_ not modelled 8.1 5 PDB header:protein binding Chain: A: PDB Molecule:adrenocortical dysplasia protein homolog; PDBTitle: crystal structure of human tpp1 87 d1vtmp_ not modelled 8.0 20 Fold:Four-helical up-and-down bundle Superfamily:TMV-like viral coat proteins Family:TMV-like viral coat proteins 88 d1xm5a_ not modelled 8.0 18 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Predicted metal-dependent hydrolase 89 d1fo5a_ not modelled 7.9 8 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 90 d2jnwa1 not modelled 7.8 10 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:XPF/Rad1/Mus81 nuclease 91 d2id1a1 not modelled 7.7 5 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Iojap/YbeB-like 92 d1h2vc2 not modelled 7.7 36 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:MIF4G domain-like 93 d1qgva_ not modelled 7.6 25 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:spliceosomal protein U5-15Kd 94 c3nj2B_ not modelled 7.4 19 PDB header:unknown function Chain: B: PDB Molecule:duf269-containing protein; PDBTitle: crystal structure of cce_0566 from the cyanobacterium cyanothece2 51142, a protein associated with nitrogen fixation from the duf2693 family 95 c2htfA_ not modelled 7.4 27 PDB header:transferase Chain: A: PDB Molecule:dna polymerase mu; PDBTitle: the solution structure of the brct domain from human2 polymerase reveals homology with the tdt brct domain 96 c2qsiB_ not modelled 7.3 11 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative hydrogenase expression/formation protein hupg; PDBTitle: crystal structure of putative hydrogenase expression/formation protein2 hupg from rhodopseudomonas palustris cga009 97 c1ps9A_ not modelled 7.3 14 PDB header:oxidoreductase Chain: A: PDB Molecule:2,4-dienoyl-coa reductase; PDBTitle: the crystal structure and reaction mechanism of e. coli 2,4-2 dienoyl coa reductase 98 c3k30B_ not modelled 7.2 15 PDB header:oxidoreductase Chain: B: PDB Molecule:histamine dehydrogenase; PDBTitle: histamine dehydrogenase from nocardiodes simplex 99 c2zqeA_ not modelled 7.1 14 PDB header:dna binding protein Chain: A: PDB Molecule:muts2 protein; PDBTitle: crystal structure of the smr domain of thermus thermophilus muts2

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

---

Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0