Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	L	H	H	R	M	L	R	H	F	I	A	A	S	V	I	V	L	T	S	S	F	L	I	F	E	L	V	A	S	D	R	A	M	S	A	Y	L	R	Y	I	V	Q	K	A	D	S	S	F	L	Y	D	K	Y	Q	N	Q	S	I
Secondary structure
SS confidence
Disorder		?	?																											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	A	H	V	M	R	A	L	A	A	E	Q	S	E	V	S	P	E	Q	R	R	A	I	C	E	A	F	E	S	A	N	N	T	H	G	L	N	L	T	A	H	K	Y	P	G	L	R	G	T	L	Q	T	A	S	T	D	C	D	T	I
Secondary structure
SS confidence
Disorder											?	?	?	?	?	?	?	?													?		?			?	?	?	?	?	?	?	?	?	?			?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	E	A	A	A	L	L	P	A	F	D	Q	A	V	E	G	N	R	H	Q	D	D	Y	G	S	G	L	G	M	A	E	E	K	F	H	Y	Y	L	D	L	N	D	R	Y	V	Y	F	Y	E	P	V	N	V	E	Y	F	A	M	N	N
Secondary structure
SS confidence
Disorder													?	?			?	?	?	?	?	?	?	?	?	?	?				?	?	?	?														?			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	S	F	L	Q	S	G	S	I	G	I	D	R	K	D	I	E	K	V	F	T	G	R	T	V	L	S	S	I	Y	Q	D	Q	R	T	K	Q	N	V	M	S	L	L	T	P	V	Y	V	A	G	Q	L	K	G	I	V	L	L	D	I
Secondary structure
SS confidence
Disorder								?	?	?	?	?	?	?					?	?	?		?	?	?	?						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		N	K	N	N	L	R	N	I	F	Y	T	H	D	R	P	L	L	W	R	F	L	N	V	T	L	T	D	T	D	S	G	R	D	I	I	I	N	Q	S	E	D	N	L	F	Q	Y	V	S	Y	V	H	D	L	P	G	G	I	R	V	S
Secondary structure
SS confidence
Disorder																		?					?	?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	S	I	D	I	L	Y	F	I	T	S	S	W	K	S	V	L	F	W	I	L	T	A	L	I	L	L	N	M	V	R	M	H	F	R	L	Y	Q	N	V	S	R	E	N	I	S	D	A	M	T	G	L	Y	N	R	K	I	L	T	P
Secondary structure
SS confidence
Disorder																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		E	L	E	Q	R	L	Q	K	L	V	Q	S	G	S	S	V	M	F	I	A	I	D	M	D	K	L	K	Q	I	N	D	T	L	G	H	Q	E	G	D	L	A	I	T	L	L	A	Q	A	I	K	Q	S	I	R	K	S	D	Y	A	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		R	L	G	G	D	E	F	C	I	I	L	V	D	S	T	P	Q	I	A	A	Q	L	P	E	R	I	E	K	R	L	Q	H	I	A	P	Q	K	E	I	G	F	S	S	G	I	Y	A	M	K	E	N	D	T	L	H	D	A	Y	K	A
Secondary structure
SS confidence
Disorder																																	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.
Sequence		S	D	E	R	L	Y	V	N	K	Q	N	K	N	S	R	S
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: 313 - 495 Aligned: 183 Modelled: 183 Confidence: 100.0% Identity: 27% 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: 319 - 495 Aligned: 172 Modelled: 177 Confidence: 100.0% Identity: 22% 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: 307 - 495 Aligned: 189 Modelled: 189 Confidence: 100.0% Identity: 27% 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: 307 - 495 Aligned: 189 Modelled: 189 Confidence: 100.0% Identity: 26% 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: 326 - 495 Aligned: 170 Modelled: 170 Confidence: 100.0% Identity: 29% 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 3qyy chain B Region: 339 - 495 Aligned: 152 Modelled: 157 Confidence: 100.0% Identity: 24% 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 3i5b chain A Region: 343 - 495 Aligned: 153 Modelled: 153 Confidence: 100.0% Identity: 30% 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 3hva chain A Region: 343 - 495 Aligned: 153 Modelled: 153 Confidence: 100.0% Identity: 18% PDB header:transferase Chain: A: PDB Molecule:protein fimx; PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa Phyre2 PDB 3ign chain A Region: 342 - 495 Aligned: 154 Modelled: 150 Confidence: 100.0% Identity: 29% 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 1w25 chain A domain 3 Region: 349 - 495 Aligned: 147 Modelled: 147 Confidence: 100.0% Identity: 32% Fold: Ferredoxin-like Superfamily: Nucleotide cyclase Family: GGDEF domain Phyre2 PDB 3icl chain A Region: 346 - 495 Aligned: 150 Modelled: 149 Confidence: 100.0% Identity: 30% 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 3mtk chain A Region: 339 - 495 Aligned: 152 Modelled: 157 Confidence: 100.0% Identity: 18% 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: 328 - 495 Aligned: 167 Modelled: 168 Confidence: 100.0% Identity: 20% 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: 353 - 494 Aligned: 140 Modelled: 142 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: 340 - 495 Aligned: 131 Modelled: 133 Confidence: 99.7% Identity: 9% 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: 329 - 401 Aligned: 73 Modelled: 73 Confidence: 98.8% Identity: 14% 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: 372 - 494 Aligned: 113 Modelled: 123 Confidence: 97.5% 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 1cjk chain A Region: 374 - 465 Aligned: 92 Modelled: 91 Confidence: 92.8% Identity: 11% 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 Phyre2 PDB 1fx2 chain A Region: 370 - 464 Aligned: 92 Modelled: 95 Confidence: 92.6% Identity: 25% Fold: Ferredoxin-like Superfamily: Nucleotide cyclase Family: Adenylyl and guanylyl cyclase catalytic domain Phyre2 PDB 2aq4 chain A Region: 403 - 492 Aligned: 78 Modelled: 90 Confidence: 92.0% Identity: 18% PDB header:transferase Chain: A: PDB Molecule:dna repair protein rev1; PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp. Phyre2 1 c1w25B_ 2 c3ezuA_ 3 c3breA_ 4 c3i5aA_ 5 c3i5cA_ 6 c3qyyB_ 7 c3i5bA_ 8 c3hvaA_ 9 c3ignA_ 10 d1w25a3 11 c3iclA_ 12 c3mtkA_ 13 c3pjwA_ 14 c3hvwA_ 15 c3gfzB_ 16 c3p7nB_ 17 c2qv6D_ 18 c1cjkA_ 19 d1fx2a_ 20 c2aq4A_ 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 27 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 22 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 27 PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: crystal structure of p.aeruginosa pa3702 4 c3i5aA_ 100.0 26 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 29 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 c3qyyB_ 100.0 24 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 7 c3i5bA_ 100.0 30 PDB header:signaling protein Chain: A: PDB Molecule:wspr response regulator; PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa 8 c3hvaA_ 100.0 18 PDB header:transferase Chain: A: PDB Molecule:protein fimx; PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa 9 c3ignA_ 100.0 29 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 10 d1w25a3 100.0 32 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:GGDEF domain 11 c3iclA_ 100.0 30 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 12 c3mtkA_ 100.0 18 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 20 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_ 99.7 9 PDB header:hydrolase, signaling protein Chain: B: PDB Molecule:klebsiella pneumoniae blrp1; PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex 16 c3p7nB_ 98.8 14 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_ 97.5 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 c1cjkA_ 92.8 11 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 19 d1fx2a_ 92.6 25 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 20 c2aq4A_ 92.0 18 PDB header:transferase Chain: A: PDB Molecule:dna repair protein rev1; PDBTitle: ternary complex of the catalytic core of rev1 with dna and dctp. 21 d1wc1a_ not modelled 90.7 9 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 22 d1fx4a_ not modelled 89.9 24 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 23 c1s97D_ not modelled 89.7 16 PDB header:transferase/dna Chain: D: PDB Molecule:dna polymerase iv; PDBTitle: dpo4 with gt mismatch 24 d1im4a_ not modelled 89.2 13 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 25 c3gqcB_ not modelled 88.5 12 PDB header:transferase/dna Chain: B: PDB Molecule:dna repair protein rev1; PDBTitle: structure of human rev1-dna-dntp ternary complex 26 d1k1sa2 not modelled 88.2 11 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 27 d1azsa_ not modelled 88.2 12 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 28 c1k1qA_ not modelled 88.0 11 PDB header:transcription Chain: A: PDB Molecule:dbh protein; PDBTitle: crystal structure of a dinb family error prone dna2 polymerase from sulfolobus solfataricus 29 c1y10C_ not modelled 87.6 14 PDB header:lyase Chain: C: PDB Molecule:hypothetical protein rv1264/mt1302; PDBTitle: mycobacterial adenylyl cyclase rv1264, holoenzyme, inhibited state 30 c1ybuA_ not modelled 86.8 17 PDB header:hydrolase Chain: A: PDB Molecule:lipj; PDBTitle: mycobacterium tuberculosis adenylyl cyclase rv1900c chd, in complex2 with a substrate analog. 31 c3mr2A_ not modelled 86.5 20 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) 32 c3r5gB_ not modelled 86.4 14 PDB header:lyase Chain: B: PDB Molecule:cyab; PDBTitle: crystal structure of the adenylyl cyclase cyab from p. aeruginosa 33 c1wc6B_ not modelled 85.2 10 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 34 d1jx4a2 not modelled 82.8 16 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 35 c3mr7B_ not modelled 82.0 16 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 36 c2w01C_ not modelled 80.9 11 PDB header:lyase Chain: C: PDB Molecule:adenylate cyclase; PDBTitle: crystal structure of the guanylyl cyclase cya2 37 c2r8kB_ not modelled 80.0 26 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 38 c1jihA_ not modelled 80.0 27 PDB header:translation Chain: A: PDB Molecule:dna polymerase eta; PDBTitle: yeast dna polymerase eta 39 c1t3nB_ not modelled 78.9 18 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 40 c2oh2B_ not modelled 77.9 15 PDB header:transferase/dna Chain: B: PDB Molecule:dna polymerase kappa; PDBTitle: ternary complex of human dna polymerase 41 d1jiha2 not modelled 74.5 28 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 42 c1yk9A_ not modelled 71.3 9 PDB header:lyase Chain: A: PDB Molecule:adenylate cyclase; PDBTitle: crystal structure of a mutant form of the mycobacterial2 adenylyl cyclase rv1625c 43 c2fllA_ not modelled 70.7 15 PDB header:replication/dna Chain: A: PDB Molecule:dna polymerase iota; PDBTitle: ternary complex of human dna polymerase iota with dna and dttp 44 c3uvjC_ not modelled 68.1 17 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. 45 c1t94B_ not modelled 65.8 15 PDB header:replication Chain: B: PDB Molecule:polymerase (dna directed) kappa; PDBTitle: crystal structure of the catalytic core of human dna2 polymerase kappa 46 d1t94a2 not modelled 63.9 21 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 47 c3l7xA_ not modelled 60.5 25 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 48 c3et6A_ not modelled 57.5 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 49 c2wz1B_ not modelled 56.1 11 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 c3onqB_ not modelled 52.2 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 51 c3imiB_ not modelled 49.8 12 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' 52 d1w55a2 not modelled 49.4 17 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 53 d1iv3a_ not modelled 44.9 15 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 54 c3i24B_ not modelled 43.6 13 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 55 d1y23a_ not modelled 42.3 25 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins 56 c3p0tB_ not modelled 41.5 13 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an hit-like protein from mycobacterium2 paratuberculosis 57 d1vr6a1 not modelled 40.7 18 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I DAHP synthetase 58 d1gx1a_ not modelled 40.2 18 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 59 d1t0aa_ not modelled 40.2 13 Fold:Bacillus chorismate mutase-like Superfamily:IpsF-like Family:IpsF-like 60 c3f0gA_ not modelled 39.3 18 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 61 d1azsb_ not modelled 37.5 12 Fold:Ferredoxin-like Superfamily:Nucleotide cyclase Family:Adenylyl and guanylyl cyclase catalytic domain 62 c3lr4A_ not modelled 36.7 24 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: periplasmic domain of the riss sensor protein from burkholderia2 pseudomallei, barium phased at low ph 63 c2pmpA_ not modelled 36.6 15 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 64 c2ylaA_ not modelled 36.2 11 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 65 c3nrdB_ not modelled 35.4 18 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 66 c2jroA_ not modelled 35.3 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of so0334 from shewanella oneidensis. northeast2 structural genomics target sor75 67 d1yhta1 not modelled 33.6 12 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:beta-N-acetylhexosaminidase catalytic domain 68 c3rpmA_ not modelled 32.6 18 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 69 c2yl8A_ not modelled 31.1 14 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 70 c3anoA_ not modelled 29.8 17 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 71 c3af5A_ not modelled 28.3 19 PDB header:hydrolase Chain: A: PDB Molecule:putative uncharacterized protein ph1404; PDBTitle: the crystal structure of an archaeal cpsf subunit, ph1404 from2 pyrococcus horikoshii 72 d2o5aa1 not modelled 27.6 14 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:Iojap/YbeB-like 73 c1w57A_ not modelled 25.2 17 PDB header:transferase Chain: A: PDB Molecule:ispd/ispf bifunctional enzyme; PDBTitle: structure of the bifunctional ispdf from campylobacter2 jejuni containing zn 74 c2byvE_ not modelled 23.8 13 PDB header:regulation Chain: E: PDB Molecule:rap guanine nucleotide exchange factor 4; PDBTitle: structure of the camp responsive exchange factor epac2 in2 its auto-inhibited state 75 d1zeta2 not modelled 23.1 15 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 76 c3ksvA_ not modelled 22.3 8 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: hypothetical protein from leishmania major 77 c1qbaA_ not modelled 20.7 32 PDB header:glycosyl hydrolase Chain: A: PDB Molecule:chitobiase; PDBTitle: bacterial chitobiase, glycosyl hydrolase family 20 78 c2uzhB_ not modelled 20.2 15 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) 79 d1qbaa3 not modelled 19.1 32 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:beta-N-acetylhexosaminidase catalytic domain 80 c1qgeE_ not modelled 18.9 27 PDB header:hydrolase Chain: E: PDB Molecule:protein (triacylglycerol hydrolase); PDBTitle: new crystal form of pseudomonas glumae (formerly chromobacterium2 viscosum atcc 6918) lipase 81 c3nvtA_ not modelled 18.8 21 PDB header:transferase/isomerase Chain: A: PDB Molecule:3-deoxy-d-arabino-heptulosonate 7-phosphate synthase; PDBTitle: 1.95 angstrom crystal structure of a bifunctional 3-deoxy-7-2 phosphoheptulonate synthase/chorismate mutase (aroa) from listeria3 monocytogenes egd-e 82 c3nsnA_ not modelled 18.6 19 PDB header:hydrolase Chain: A: PDB Molecule:n-acetylglucosaminidase; PDBTitle: crystal structure of insect beta-n-acetyl-d-hexosaminidase ofhex12 complexed with tmg-chitotriomycin 83 c3oheA_ not modelled 18.4 16 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 84 d1ei7a_ not modelled 18.0 45 Fold:Four-helical up-and-down bundle Superfamily:TMV-like viral coat proteins Family:TMV-like viral coat proteins 85 c3kmlB_ not modelled 17.5 45 PDB header:viral protein Chain: B: PDB Molecule:coat protein; PDBTitle: circular permutant of the tobacco mosaic virus 86 d1fita_ not modelled 17.4 13 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins 87 c3i4sB_ not modelled 17.1 12 PDB header:hydrolase Chain: B: PDB Molecule:histidine triad protein; PDBTitle: crystal structure of histidine triad protein blr8122 from2 bradyrhizobium japonicum 88 c2kloA_ not modelled 16.9 5 PDB header:cell cycle Chain: A: PDB Molecule:dna replication factor cdt1; PDBTitle: structure of the cdt1 c-terminal domain 89 c1m04A_ not modelled 16.7 7 PDB header:hydrolase Chain: A: PDB Molecule:beta-n-acetylhexosaminidase; PDBTitle: mutant streptomyces plicatus beta-hexosaminidase (d313n) in complex2 with product (glcnac) 90 c2x2iB_ not modelled 16.7 16 PDB header:lyase Chain: B: PDB Molecule:alpha-1,4-glucan lyase isozyme 1; PDBTitle: crystal structure of the gracilariopsis lemaneiformis alpha-2 1,4-glucan lyase with acarbose 91 d1nowa1 not modelled 16.7 35 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:beta-N-acetylhexosaminidase catalytic domain 92 c3hf3A_ not modelled 16.4 13 PDB header:oxidoreductase Chain: A: PDB Molecule:chromate reductase; PDBTitle: old yellow enzyme from thermus scotoductus sa-01 93 c1ps9A_ not modelled 16.4 18 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 94 d1yw4a1 not modelled 15.5 18 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:AstE/AspA-like 95 c3fgeA_ not modelled 15.2 18 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 96 d1iwga2 not modelled 14.9 16 Fold:Ferredoxin-like Superfamily:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains Family:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains 97 d1oz9a_ not modelled 13.8 15 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Predicted metal-dependent hydrolase 98 c1vs1B_ not modelled 13.2 17 PDB header:transferase Chain: B: PDB Molecule:3-deoxy-7-phosphoheptulonate synthase; PDBTitle: crystal structure of 3-deoxy-d-arabino-heptulosonate-7-2 phosphate synthase (dahp synthase) from aeropyrum pernix3 in complex with mn2+ and pep 99 d1vtmp_ not modelled 12.9 30 Fold:Four-helical up-and-down bundle Superfamily:TMV-like viral coat proteins Family:TMV-like viral coat proteins

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