Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	Y	Q	M	I	T	T	D	D	A	L	A	S	L	C	E	A	V	R	A	F	P	A	I	A	L	D	T	E	F	V	R	T	R	T	Y	Y	P	Q	L	G	L	I	Q	L	F	D	G	E	H	L	A	L	I	D	P	L	G	I
Secondary structure
SS confidence
Disorder		?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	D	W	S	P	L	K	A	I	L	R	D	P	S	I	T	K	F	L	H	A	G	S	E	D	L	E	V	F	L	N	V	F	G	E	L	P	Q	P	L	I	D	T	Q	I	L	A	A	F	C	G	R	P	M	S	W	G	F	A	S
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		M	V	E	E	Y	S	G	V	T	L	D	K	S	E	S	R	T	D	W	L	A	R	P	L	T	E	R	Q	C	E	Y	A	A	A	D	V	W	Y	L	L	P	I	T	A	K	L	M	V	E	T	E	A	S	G	W	L	P	A	A	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	E	C	R	L	M	Q	M	R	R	Q	E	V	V	A	P	E	D	A	W	R	D	I	T	N	A	W	Q	L	R	T	R	Q	L	A	C	L	Q	L	L	A	D	W	R	L	R	K	A	R	E	R	D	L	A	V	N	F	V	V	R
Secondary structure
SS confidence
Disorder										?	?	?	?	?	?	?	?	?								?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		E	E	H	L	W	S	V	A	R	Y	M	P	G	S	L	G	E	L	D	S	L	G	L	S	G	S	E	I	R	F	H	G	K	T	L	L	A	L	V	E	K	A	Q	T	L	P	E	D	A	L	P	Q	P	M	L	N	L	M	D	M
Secondary structure
SS confidence
Disorder											?			?								?	?	?	?																						?				?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		P	G	Y	R	K	A	F	K	A	I	K	S	L	I	T	D	V	S	E	T	H	K	I	S	A	E	L	L	A	S	R	R	Q	I	N	Q	L	L	N	W	H	W	K	L	K	P	Q	N	N	L	P	E	L	I	S	G	W	R	G	E
Secondary structure
SS confidence
Disorder		?	?																			?																							?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.
Sequence		L	M	A	E	A	L	H	N	L	L	Q	E	Y	P	Q
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 1yt3 chain A Region: 1 - 375 Aligned: 375 Modelled: 375 Confidence: 100.0% Identity: 100% PDB header:hydrolase,translation Chain: A: PDB Molecule:ribonuclease d; PDBTitle: crystal structure of escherichia coli rnase d, an2 exoribonuclease involved in structured rna processing Phyre2 PDB 3cym chain A Region: 5 - 372 Aligned: 366 Modelled: 368 Confidence: 100.0% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bad_0989; PDBTitle: crystal structure of protein bad_0989 from bifidobacterium2 adolescentis Phyre2 PDB 2hbk chain A Region: 3 - 289 Aligned: 286 Modelled: 287 Confidence: 100.0% Identity: 26% PDB header:hydrolase, gene regulation Chain: A: PDB Molecule:exosome complex exonuclease rrp6; PDBTitle: structure of the yeast nuclear exosome component, rrp6p,2 reveals an interplay between the active site and the hrdc3 domain; protein in complex with mn Phyre2 PDB 3sah chain A Region: 1 - 291 Aligned: 287 Modelled: 291 Confidence: 100.0% Identity: 24% PDB header:hydrolase Chain: A: PDB Molecule:exosome component 10; PDBTitle: crystal structure of the human rrp6 catalytic domain with y436a2 mutation in the catalytic site Phyre2 PDB 2hbk chain A domain 2 Region: 3 - 197 Aligned: 194 Modelled: 195 Confidence: 100.0% Identity: 27% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: DnaQ-like 3'-5' exonuclease Phyre2 PDB 1yt3 chain A domain 3 Region: 1 - 192 Aligned: 192 Modelled: 192 Confidence: 100.0% Identity: 100% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: DnaQ-like 3'-5' exonuclease Phyre2 PDB 2kzz chain A Region: 2 - 375 Aligned: 367 Modelled: 374 Confidence: 100.0% Identity: 17% PDB header:transferase/dna Chain: A: PDB Molecule:protein (dna polymerase i); PDBTitle: klenow fragment with normal substrate and zinc only Phyre2 PDB 1njz chain A Region: 1 - 375 Aligned: 360 Modelled: 375 Confidence: 100.0% Identity: 14% PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase i; PDBTitle: cytosine-thymine mismatch at the polymerase active site Phyre2 PDB 2e6m chain A Region: 1 - 168 Aligned: 167 Modelled: 168 Confidence: 100.0% Identity: 22% PDB header:hydrolase Chain: A: PDB Molecule:werner syndrome atp-dependent helicase homolog; PDBTitle: structure of mouse werner exonuclease domain Phyre2 PDB 1kfs chain A domain 1 Region: 2 - 172 Aligned: 171 Modelled: 171 Confidence: 100.0% Identity: 21% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: DnaQ-like 3'-5' exonuclease Phyre2 PDB 4ktq chain A Region: 29 - 375 Aligned: 320 Modelled: 328 Confidence: 100.0% Identity: 13% PDB header:transferase/dna Chain: A: PDB Molecule:protein (large fragment of dna polymerase i); PDBTitle: binary complex of the large fragment of dna polymerase i2 from t. aquaticus bound to a primer/template dna Phyre2 PDB 1vk0 chain A Region: 2 - 169 Aligned: 167 Modelled: 168 Confidence: 100.0% Identity: 16% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: DnaQ-like 3'-5' exonuclease Phyre2 PDB 2hhv chain A domain 1 Region: 1 - 173 Aligned: 166 Modelled: 173 Confidence: 100.0% Identity: 14% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: DnaQ-like 3'-5' exonuclease Phyre2 PDB 1cmw chain A Region: 27 - 375 Aligned: 307 Modelled: 330 Confidence: 99.9% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:protein (dna polymerase i); PDBTitle: crystal structure of taq dna-polymerase shows a new2 orientation for the structure-specific nuclease domain Phyre2 PDB 1yt3 chain A domain 1 Region: 194 - 294 Aligned: 101 Modelled: 101 Confidence: 99.9% Identity: 100% Fold: SAM domain-like Superfamily: HRDC-like Family: RNase D C-terminal domains Phyre2 PDB 1tk0 chain A Region: 24 - 352 Aligned: 325 Modelled: 329 Confidence: 99.8% Identity: 18% PDB header:transferase/electron transport/dna Chain: A: PDB Molecule:dna polymerase; PDBTitle: t7 dna polymerase ternary complex with 8 oxo guanosine and2 ddctp at the insertion site Phyre2 PDB 2cpr chain A domain 1 Region: 196 - 291 Aligned: 96 Modelled: 96 Confidence: 99.7% Identity: 20% Fold: SAM domain-like Superfamily: HRDC-like Family: EXOSC10 HRDC domain-like Phyre2 PDB 2hbk chain A domain 1 Region: 197 - 289 Aligned: 93 Modelled: 93 Confidence: 99.7% Identity: 22% Fold: SAM domain-like Superfamily: HRDC-like Family: EXOSC10 HRDC domain-like Phyre2 PDB 1yt3 chain A domain 2 Region: 299 - 375 Aligned: 77 Modelled: 77 Confidence: 99.7% Identity: 100% Fold: SAM domain-like Superfamily: HRDC-like Family: RNase D C-terminal domains Phyre2 PDB 1wud chain A domain 1 Region: 214 - 286 Aligned: 73 Modelled: 73 Confidence: 99.4% Identity: 21% Fold: SAM domain-like Superfamily: HRDC-like Family: HRDC domain from helicases Phyre2 1 c1yt3A_ 2 c3cymA_ 3 c2hbkA_ 4 c3sahA_ 5 d2hbka2 6 d1yt3a3 7 c2kzzA_ 8 c1njzA_ 9 c2e6mA_ 10 d1kfsa1 11 c4ktqA_ 12 d1vk0a_ 13 d2hhva1 14 c1cmwA_ 15 d1yt3a1 16 c1tk0A_ 17 d2cpra1 18 d2hbka1 19 d1yt3a2 20 d1wuda1 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 c1yt3A_ 100.0 100 PDB header:hydrolase,translation Chain: A: PDB Molecule:ribonuclease d; PDBTitle: crystal structure of escherichia coli rnase d, an2 exoribonuclease involved in structured rna processing 2 c3cymA_ 100.0 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bad_0989; PDBTitle: crystal structure of protein bad_0989 from bifidobacterium2 adolescentis 3 c2hbkA_ 100.0 26 PDB header:hydrolase, gene regulation Chain: A: PDB Molecule:exosome complex exonuclease rrp6; PDBTitle: structure of the yeast nuclear exosome component, rrp6p,2 reveals an interplay between the active site and the hrdc3 domain; protein in complex with mn 4 c3sahA_ 100.0 24 PDB header:hydrolase Chain: A: PDB Molecule:exosome component 10; PDBTitle: crystal structure of the human rrp6 catalytic domain with y436a2 mutation in the catalytic site 5 d2hbka2 100.0 27 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 6 d1yt3a3 100.0 100 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 7 c2kzzA_ 100.0 17 PDB header:transferase/dna Chain: A: PDB Molecule:protein (dna polymerase i); PDBTitle: klenow fragment with normal substrate and zinc only 8 c1njzA_ 100.0 14 PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase i; PDBTitle: cytosine-thymine mismatch at the polymerase active site 9 c2e6mA_ 100.0 22 PDB header:hydrolase Chain: A: PDB Molecule:werner syndrome atp-dependent helicase homolog; PDBTitle: structure of mouse werner exonuclease domain 10 d1kfsa1 100.0 21 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 11 c4ktqA_ 100.0 13 PDB header:transferase/dna Chain: A: PDB Molecule:protein (large fragment of dna polymerase i); PDBTitle: binary complex of the large fragment of dna polymerase i2 from t. aquaticus bound to a primer/template dna 12 d1vk0a_ 100.0 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 13 d2hhva1 100.0 14 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 14 c1cmwA_ 99.9 14 PDB header:transferase Chain: A: PDB Molecule:protein (dna polymerase i); PDBTitle: crystal structure of taq dna-polymerase shows a new2 orientation for the structure-specific nuclease domain 15 d1yt3a1 99.9 100 Fold:SAM domain-like Superfamily:HRDC-like Family:RNase D C-terminal domains 16 c1tk0A_ 99.8 18 PDB header:transferase/electron transport/dna Chain: A: PDB Molecule:dna polymerase; PDBTitle: t7 dna polymerase ternary complex with 8 oxo guanosine and2 ddctp at the insertion site 17 d2cpra1 99.7 20 Fold:SAM domain-like Superfamily:HRDC-like Family:EXOSC10 HRDC domain-like 18 d2hbka1 99.7 22 Fold:SAM domain-like Superfamily:HRDC-like Family:EXOSC10 HRDC domain-like 19 d1yt3a2 99.7 100 Fold:SAM domain-like Superfamily:HRDC-like Family:RNase D C-terminal domains 20 d1wuda1 99.4 21 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 21 c2rrdA_ not modelled 99.3 14 PDB header:dna binding protein Chain: A: PDB Molecule:hrdc domain from bloom syndrome protein; PDBTitle: structure of hrdc domain from human bloom syndrome protein, blm 22 c2rhfA_ not modelled 99.3 21 PDB header:hydrolase Chain: A: PDB Molecule:dna helicase recq; PDBTitle: d. radiodurans recq hrdc domain 3 23 d2e1fa1 not modelled 99.2 16 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 24 d1x9ma1 not modelled 98.8 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 25 d1d8ba_ not modelled 98.8 15 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 26 d1wlja_ not modelled 98.4 13 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 27 d2hhva2 not modelled 98.3 14 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:DNA polymerase I 28 c2p1jB_ not modelled 98.2 21 PDB header:transferase Chain: B: PDB Molecule:dna polymerase iii polc-type; PDBTitle: crystal structure of a polc-type dna polymerase iii2 exonuclease domain from thermotoga maritima 29 d1qtma2 not modelled 98.2 11 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:DNA polymerase I 30 c2is3B_ not modelled 98.0 20 PDB header:hydrolase Chain: B: PDB Molecule:ribonuclease t; PDBTitle: crystal structure of escherichia coli rnase t 31 d2f96a1 not modelled 98.0 20 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 32 d2d5ra1 not modelled 98.0 13 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:CAF1-like ribonuclease 33 d1uoca_ not modelled 97.9 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:CAF1-like ribonuclease 34 d1d5aa1 not modelled 97.8 15 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 35 d1kfsa2 not modelled 97.8 13 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:DNA polymerase I 36 d1tgoa1 not modelled 97.8 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 37 d1qhta1 not modelled 97.8 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 38 d2guia1 not modelled 97.8 14 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 39 d1y97a1 not modelled 97.7 21 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 40 d1wn7a1 not modelled 97.6 15 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 41 d3b6oa1 not modelled 97.5 18 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 42 c2p51A_ not modelled 97.5 18 PDB header:hydrolase, gene regulation Chain: A: PDB Molecule:spcc18.06c protein; PDBTitle: crystal structure of the s. pombe pop2p deadenylation2 subunit 43 c3d45B_ not modelled 97.5 18 PDB header:hydrolase Chain: B: PDB Molecule:poly(a)-specific ribonuclease parn; PDBTitle: crystal structure of mouse parn in complex with m7gpppg 44 c3ikmD_ not modelled 97.5 19 PDB header:transferase Chain: D: PDB Molecule:dna polymerase subunit gamma-1; PDBTitle: crystal structure of human mitochondrial dna polymerase2 holoenzyme 45 d2qxfa1 not modelled 97.4 19 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 46 c3u6fA_ not modelled 97.2 21 PDB header:hydrolase/dna Chain: A: PDB Molecule:three prime repair exonuclease 1; PDBTitle: mouse trex1 d200n mutant 47 d1j9aa_ not modelled 96.4 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 48 c2a1sC_ not modelled 95.8 14 PDB header:hydrolase Chain: C: PDB Molecule:poly(a)-specific ribonuclease parn; PDBTitle: crystal structure of native parn nuclease domain 49 d1s5ja1 not modelled 95.7 20 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 50 c2vwkA_ not modelled 95.3 15 PDB header:dna replication Chain: A: PDB Molecule:dna polymerase; PDBTitle: uracil recognition in archaeal dna polymerases captured by2 x-ray crystallography. v93q polymerase variant 51 c3iayA_ not modelled 94.8 18 PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase delta catalytic subunit; PDBTitle: ternary complex of dna polymerase delta 52 d2igia1 not modelled 94.5 12 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 53 c1d5aA_ not modelled 93.6 16 PDB header:transferase Chain: A: PDB Molecule:protein (dna polymerase); PDBTitle: crystal structure of an archaebacterial dna polymerase2 d.tok. deposition of second native structure at 2.43 angstrom 54 c3cm6A_ not modelled 93.6 18 PDB header:hydrolase, apoptosis Chain: A: PDB Molecule:cell death-related nuclease 4; PDBTitle: crystal structure of cell-death related nuclease 4 (crn-4)2 bound with er 55 c3tr8A_ not modelled 92.9 14 PDB header:hydrolase Chain: A: PDB Molecule:oligoribonuclease; PDBTitle: structure of an oligoribonuclease (orn) from coxiella burnetii 56 c2gbzA_ not modelled 92.4 15 PDB header:hydrolase Chain: A: PDB Molecule:oligoribonuclease; PDBTitle: the crystal structure of xc847 from xanthomonas campestris: a 3-52 oligoribonuclease of dnaq fold family with a novel opposingly-shifted3 helix 57 d1w0ha_ not modelled 91.5 16 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 58 d1ih7a1 not modelled 90.4 19 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 59 d1q8ia1 not modelled 89.4 19 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 60 c2xriA_ not modelled 89.4 12 PDB header:hydrolase Chain: A: PDB Molecule:eri1 exoribonuclease 3; PDBTitle: crystal structure of human eri1 exoribonuclease 3 61 d1x9ma2 not modelled 88.8 15 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:DNA polymerase I 62 c1zbhA_ not modelled 81.7 19 PDB header:hydrolase/rna Chain: A: PDB Molecule:3'-5' exonuclease eri1; PDBTitle: 3'-end specific recognition of histone mrna stem-loop by 3'-2 exonuclease 63 c1s5jA_ not modelled 81.5 17 PDB header:transferase Chain: A: PDB Molecule:dna polymerase i; PDBTitle: insight in dna replication: the crystal structure of dna2 polymerase b1 from the archaeon sulfolobus solfataricus 64 c1q8iA_ not modelled 79.1 18 PDB header:transferase Chain: A: PDB Molecule:dna polymerase ii; PDBTitle: crystal structure of escherichia coli dna polymerase ii 65 c2gv9B_ not modelled 77.7 17 PDB header:transferase Chain: B: PDB Molecule:dna polymerase; PDBTitle: crystal structure of the herpes simplex virus type 1 dna polymerase 66 c2dtuA_ not modelled 76.3 16 PDB header:transferase/dna Chain: A: PDB Molecule:dna polymerase; PDBTitle: crystal structure of the beta hairpin loop deletion variant2 of rb69 gp43 in complex with dna containing an abasic site3 analog 67 d1noya_ not modelled 73.3 14 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 68 c2ex3I_ not modelled 51.4 10 PDB header:transferase/replication Chain: I: PDB Molecule:dna polymerase; PDBTitle: bacteriophage phi29 dna polymerase bound to terminal protein 69 c1zbuB_ not modelled 36.8 16 PDB header:hydrolase Chain: B: PDB Molecule:3'-5' exonuclease eri1; PDBTitle: crystal structure of full-length 3'-exonuclease 70 c2vxdA_ not modelled 31.4 26 PDB header:nuclear protein Chain: A: PDB Molecule:nucleophosmin; PDBTitle: the structure of the c-terminal domain of nucleophosmin 71 d1sgva2 not modelled 25.0 22 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB 72 d1akha_ not modelled 23.6 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 73 d2py5a1 not modelled 22.9 9 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 74 d1wh5a_ not modelled 20.8 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 75 d1le8a_ not modelled 17.3 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 76 d1mh3a1 not modelled 16.0 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 77 c2k53A_ not modelled 13.9 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:a3dk08 protein; PDBTitle: nmr solution structure of a3dk08 protein from clostridium2 thermocellum: northeast structural genomics consortium3 target cmr9 78 d1qtma1 not modelled 13.2 23 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 79 d1y6ia2 not modelled 13.2 14 Fold:GUN4-like Superfamily:GUN4-like Family:GUN4-like 80 c2p0tA_ not modelled 13.2 36 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0307 protein pspto_4464; PDBTitle: structural genomics, the crystal structure of a conserved putative2 protein from pseudomonas syringae pv. tomato str. dc3000 81 d2p0ta1 not modelled 13.2 36 Fold:PSPTO4464-like Superfamily:PSPTO4464-like Family:PSPTO4464-like 82 c2eqaA_ not modelled 12.3 24 PDB header:rna binding protein Chain: A: PDB Molecule:hypothetical protein st1526; PDBTitle: crystal structure of the hypothetical sua5 protein from2 sulfolobus tokodaii 83 c2k5eA_ not modelled 10.9 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of putative uncharacterized protein2 gsu1278 from methanocaldococcus jannaschii, northeast3 structural genomics consortium (nesg) target gsr195 84 c2da4A_ not modelled 10.7 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein dkfzp686k21156; PDBTitle: solution structure of the homeobox domain of the2 hypothetical protein, dkfzp686k21156 85 d1f43a_ not modelled 10.5 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 86 d1z3xa2 not modelled 10.3 19 Fold:GUN4-like Superfamily:GUN4-like Family:GUN4-like 87 c1sgvA_ not modelled 10.2 22 PDB header:lyase Chain: A: PDB Molecule:trna pseudouridine synthase b; PDBTitle: structure of trna psi55 pseudouridine synthase (trub) 88 c3narA_ not modelled 9.7 26 PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 1; PDBTitle: crystal structure of zhx1 hd4 (zinc-fingers and homeoboxes protein 1,2 homeodomain 4) 89 c2px0D_ not modelled 9.1 11 PDB header:biosynthetic protein Chain: D: PDB Molecule:flagellar biosynthesis protein flhf; PDBTitle: crystal structure of flhf complexed with gmppnp/mg(2+) 90 c2da1A_ not modelled 8.8 19 PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding protein; PDBTitle: solution structure of the first homeobox domain of at-2 binding transcription factor 1 (atbf1) 91 c2da5A_ not modelled 8.8 16 PDB header:dna binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 3; PDBTitle: solution structure of the second homeobox domain of zinc2 fingers and homeoboxes protein 3 (triple homeobox 13 protein) 92 d1p7ia_ not modelled 8.4 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 93 d2ecca1 not modelled 8.4 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 94 d1b26a2 not modelled 8.3 11 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 95 c3a03A_ not modelled 8.2 17 PDB header:gene regulation Chain: A: PDB Molecule:t-cell leukemia homeobox protein 2; PDBTitle: crystal structure of hox11l1 homeodomain 96 d1s7ea1 not modelled 8.0 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 97 c3aoeC_ not modelled 7.8 9 PDB header:oxidoreductase Chain: C: PDB Molecule:glutamate dehydrogenase; PDBTitle: crystal structure of hetero-hexameric glutamate dehydrogenase from2 thermus thermophilus (leu bound form) 98 c1y6iA_ not modelled 7.1 17 PDB header:ligand binding protein Chain: A: PDB Molecule:mg-chelatase cofactor gun4; PDBTitle: synechocystis gun4 99 c2da2A_ not modelled 7.0 19 PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding protein; PDBTitle: solution structure of the second homeobox domain of at-2 binding transcription factor 1 (atbf1)

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