Secondary structure and disorder prediction

1

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10

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20

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30

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40

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50

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60

Sequence

M

A

V

R

G

I

N

K

V

I

L

V

G

R

L

G

K

D

P

E

V

R

Y

I

P

N

G

G

A

V

A

N

L

Q

V

A

T

S

E

S

W

R

D

K

Q

T

G

E

M

R

E

Q

T

E

W

H

R

V

V

L

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

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70

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80

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90

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100

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110

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120

Sequence

F

G

K

L

A

E

V

A

G

E

C

L

R

K

G

A

Q

V

Y

I

E

G

Q

L

R

T

R

S

W

E

D

N

G

I

T

R

Y

V

T

E

I

L

V

K

T

T

G

T

M

Q

M

L

V

R

A

A

G

A

Q

T

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

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130

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140

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150

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160

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170

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.

Sequence

Q

P

E

E

G

Q

Q

F

S

G

Q

P

Q

P

E

P

Q

A

E

A

G

T

K

K

G

G

A

K

T

K

G

R

G

R

K

A

A

Q

P

E

P

Q

P

Q

P

P

E

G

D

D

Y

G

F

S

D

D

I

P

F

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

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?

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 1qvc chain A Region: 2 - 145 Aligned: 144 Modelled: 144 Confidence: 100.0% Identity: 62% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 3tqy chain A Region: 2 - 110 Aligned: 109 Modelled: 108 Confidence: 100.0% Identity: 61% PDB header:transferase Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: structure of a single-stranded dna-binding protein (ssb), from2 coxiella burnetii Phyre2 PDB 2ihe chain A Region: 3 - 116 Aligned: 113 Modelled: 114 Confidence: 100.0% Identity: 33% PDB header:dna binding protein Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of wild-type single-stranded dna binding protein2 from thermus aquaticus Phyre2 PDB 1eyg chain A Region: 2 - 112 Aligned: 111 Modelled: 111 Confidence: 100.0% Identity: 78% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 2ihf chain A Region: 1 - 115 Aligned: 113 Modelled: 114 Confidence: 100.0% Identity: 36% PDB header:dna binding protein Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of deletion mutant delta 228-252 r190a of the2 single-stranded dna binding protein from thermus aquaticus Phyre2 PDB 1eqq chain D Region: 2 - 116 Aligned: 115 Modelled: 115 Confidence: 100.0% Identity: 76% PDB header:replication/rna Chain: D: PDB Molecule:single stranded dna binding protein; PDBTitle: single stranded dna binding protein and ssdna complex Phyre2 PDB 2vw9 chain B Region: 6 - 109 Aligned: 103 Modelled: 104 Confidence: 100.0% Identity: 38% PDB header:dna-binding protein Chain: B: PDB Molecule:single-stranded dna binding protein; PDBTitle: single stranded dna binding protein complex from2 helicobacter pylori Phyre2 PDB 1ue1 chain A Region: 5 - 120 Aligned: 112 Modelled: 116 Confidence: 100.0% Identity: 33% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 3pgz chain B Region: 3 - 112 Aligned: 110 Modelled: 110 Confidence: 100.0% Identity: 51% PDB header:dna binding protein Chain: B: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of a single strand binding protein (ssb) from2 bartonella henselae Phyre2 PDB 1se8 chain A Region: 3 - 103 Aligned: 99 Modelled: 101 Confidence: 99.9% Identity: 34% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 1se8 chain A Region: 3 - 103 Aligned: 99 Modelled: 101 Confidence: 99.9% Identity: 34% PDB header:dna binding protein Chain: A: PDB Molecule:single-strand binding protein; PDBTitle: structure of single-stranded dna-binding protein (ssb) from d.2 radiodurans Phyre2 PDB 3ull chain A Region: 1 - 109 Aligned: 104 Modelled: 108 Confidence: 99.9% Identity: 30% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 3eiv chain B Region: 1 - 120 Aligned: 110 Modelled: 120 Confidence: 99.9% Identity: 35% PDB header:dna binding protein Chain: B: PDB Molecule:single-stranded dna-binding protein 2; PDBTitle: crystal structure of single-stranded dna-binding protein2 from streptomyces coelicolor Phyre2 PDB 1ue7 chain A Region: 5 - 124 Aligned: 106 Modelled: 120 Confidence: 99.9% Identity: 32% PDB header:dna binding protein Chain: A: PDB Molecule:single-strand binding protein; PDBTitle: crystal structure of the single-stranded dna-binding2 protein from mycobacterium tuberculosis Phyre2 PDB 1v1q chain A Region: 6 - 111 Aligned: 101 Modelled: 106 Confidence: 99.9% Identity: 12% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 1z9f chain A Region: 1 - 110 Aligned: 88 Modelled: 110 Confidence: 99.9% Identity: 41% PDB header:dna binding protein Chain: A: PDB Molecule:single-strand binding protein; PDBTitle: crystal structure of single stranded dna-binding protein (tm0604) from2 thermotoga maritima at 2.60 a resolution Phyre2 PDB 3lgj chain A Region: 6 - 105 Aligned: 88 Modelled: 100 Confidence: 99.9% Identity: 45% PDB header:dna binding protein Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of single-stranded binding protein (ssb) from2 bartonella henselae Phyre2 PDB 3koj chain A Region: 5 - 108 Aligned: 85 Modelled: 103 Confidence: 99.9% Identity: 27% PDB header:dna binding protein Chain: A: PDB Molecule:uncharacterized protein ycf41; PDBTitle: crystal structure of the ssb domain of q5n255_synp6 protein2 from synechococcus sp. northeast structural genomics3 consortium target snr59a. Phyre2 PDB 3k8a chain A Region: 1 - 110 Aligned: 99 Modelled: 108 Confidence: 99.8% Identity: 20% PDB header:dna binding protein Chain: A: PDB Molecule:putative primosomal replication protein; PDBTitle: neisseria gonorrhoeae prib Phyre2 PDB 1txy chain A Region: 7 - 89 Aligned: 81 Modelled: 81 Confidence: 99.8% Identity: 15% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 1 d1qvca_ 2 c3tqyA_ 3 c2iheA_ 4 d1eyga_ 5 c2ihfA_ 6 c1eqqD_ 7 c2vw9B_ 8 d1ue1a_ 9 c3pgzB_ 10 d1se8a_ 11 c1se8A_ 12 d3ulla_ 13 c3eivB_ 14 c1ue7A_ 15 d1v1qa_ 16 c1z9fA_ 17 c3lgjA_ 18 c3kojA_ 19 c3k8aA_ 20 d1txya_ 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 d1qvca_ 100.0 62 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 2 c3tqyA_ 100.0 61 PDB header:transferase Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: structure of a single-stranded dna-binding protein (ssb), from2 coxiella burnetii 3 c2iheA_ 100.0 33 PDB header:dna binding protein Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of wild-type single-stranded dna binding protein2 from thermus aquaticus 4 d1eyga_ 100.0 78 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 5 c2ihfA_ 100.0 36 PDB header:dna binding protein Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of deletion mutant delta 228-252 r190a of the2 single-stranded dna binding protein from thermus aquaticus 6 c1eqqD_ 100.0 76 PDB header:replication/rna Chain: D: PDB Molecule:single stranded dna binding protein; PDBTitle: single stranded dna binding protein and ssdna complex 7 c2vw9B_ 100.0 38 PDB header:dna-binding protein Chain: B: PDB Molecule:single-stranded dna binding protein; PDBTitle: single stranded dna binding protein complex from2 helicobacter pylori 8 d1ue1a_ 100.0 33 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 9 c3pgzB_ 100.0 51 PDB header:dna binding protein Chain: B: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of a single strand binding protein (ssb) from2 bartonella henselae 10 d1se8a_ 99.9 34 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 11 c1se8A_ 99.9 34 PDB header:dna binding protein Chain: A: PDB Molecule:single-strand binding protein; PDBTitle: structure of single-stranded dna-binding protein (ssb) from d.2 radiodurans 12 d3ulla_ 99.9 30 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 13 c3eivB_ 99.9 35 PDB header:dna binding protein Chain: B: PDB Molecule:single-stranded dna-binding protein 2; PDBTitle: crystal structure of single-stranded dna-binding protein2 from streptomyces coelicolor 14 c1ue7A_ 99.9 32 PDB header:dna binding protein Chain: A: PDB Molecule:single-strand binding protein; PDBTitle: crystal structure of the single-stranded dna-binding2 protein from mycobacterium tuberculosis 15 d1v1qa_ 99.9 12 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 16 c1z9fA_ 99.9 41 PDB header:dna binding protein Chain: A: PDB Molecule:single-strand binding protein; PDBTitle: crystal structure of single stranded dna-binding protein (tm0604) from2 thermotoga maritima at 2.60 a resolution 17 c3lgjA_ 99.9 45 PDB header:dna binding protein Chain: A: PDB Molecule:single-stranded dna-binding protein; PDBTitle: crystal structure of single-stranded binding protein (ssb) from2 bartonella henselae 18 c3kojA_ 99.9 27 PDB header:dna binding protein Chain: A: PDB Molecule:uncharacterized protein ycf41; PDBTitle: crystal structure of the ssb domain of q5n255_synp6 protein2 from synechococcus sp. northeast structural genomics3 consortium target snr59a. 19 c3k8aA_ 99.8 20 PDB header:dna binding protein Chain: A: PDB Molecule:putative primosomal replication protein; PDBTitle: neisseria gonorrhoeae prib 20 d1txya_ 99.8 15 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 21 c3fhwB_ not modelled 99.8 16 PDB header:dna binding protein Chain: B: PDB Molecule:primosomal replication protein n; PDBTitle: crystal structure of the protein prib from bordetella parapertussis.2 northeast structural genomics consortium target bpr162. 22 c3en2A_ not modelled 99.8 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:probable primosomal replication protein n; PDBTitle: three-dimensional structure of the protein prib from2 ralstonia solanacearum at the resolution 2.3a. northeast3 structural genomics consortium target rsr213c. 23 c3stbC_ not modelled 98.2 22 PDB header:rna binding protein/immune system Chain: C: PDB Molecule:rna-editing complex protein mp42; PDBTitle: a complex of two editosome proteins and two nanobodies 24 c3k81D_ not modelled 98.0 24 PDB header:immune system, rna binding protein Chain: D: PDB Molecule:mp18 rna editing complex protein; PDBTitle: structure of the central interaction protein from the trypanosoma2 brucei editosome in complex with single domain antibodies 25 c3e0eA_ not modelled 97.3 20 PDB header:replication Chain: A: PDB Molecule:replication protein a; PDBTitle: crystal structure of a domain of replication protein a from2 methanococcus maripaludis. northeast structural genomics3 targe mrr110b 26 c3f2cA_ not modelled 96.2 19 PDB header:transferase/dna Chain: A: PDB Molecule:geobacillus kaustophilus dna polc; PDBTitle: dna polymerase polc from geobacillus kaustophilus complex with dna,2 dgtp and mn 27 c3dm3A_ not modelled 95.4 17 PDB header:replication Chain: A: PDB Molecule:replication factor a; PDBTitle: crystal structure of a domain of a replication factor a2 protein, from methanocaldococcus jannaschii. northeast3 structural genomics target mjr118e 28 c2k50A_ not modelled 94.3 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:replication factor a related protein; PDBTitle: solution nmr structure of the replication factor a related2 protein from methanobacterium thermoautotrophicum.3 northeast structural genomics target tr91a. 29 d1eova1 not modelled 94.1 17 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 30 c1ynxA_ not modelled 93.7 21 PDB header:dna binding protein Chain: A: PDB Molecule:replication factor-a protein 1; PDBTitle: solution structure of dna binding domain a (dbd-a) of2 s.cerevisiae replication protein a (rpa) 31 c1fguA_ not modelled 93.7 12 PDB header:replication Chain: A: PDB Molecule:replication protein a 70 kda dna-binding subunit; PDBTitle: ssdna-binding domain of the large subunit of replication2 protein a 32 d1o7ia_ not modelled 92.7 28 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 33 d1jmca1 not modelled 92.0 15 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 34 d1l0wa1 not modelled 91.7 20 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 35 d1c0aa1 not modelled 91.4 20 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 36 c2k75A_ not modelled 90.3 21 PDB header:dna binding protein Chain: A: PDB Molecule:uncharacterized protein ta0387; PDBTitle: solution nmr structure of the ob domain of ta0387 from2 thermoplasma acidophilum. northeast structural genomics3 consortium target tar80b. 37 d1gm5a2 not modelled 89.5 11 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:RecG "wedge" domain 38 d1b8aa1 not modelled 89.4 22 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 39 c2xgtB_ not modelled 87.5 19 PDB header:ligase Chain: B: PDB Molecule:asparaginyl-trna synthetase, cytoplasmic; PDBTitle: asparaginyl-trna synthetase from brugia malayi complexed2 with the sulphamoyl analogue of asparaginyl-adenylate 40 c3kf6A_ not modelled 84.0 21 PDB header:structural protein Chain: A: PDB Molecule:protein stn1; PDBTitle: crystal structure of s. pombe stn1-ten1 complex 41 d1jmca2 not modelled 82.3 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 42 c3i7fA_ not modelled 82.1 15 PDB header:ligase Chain: A: PDB Molecule:aspartyl-trna synthetase; PDBTitle: aspartyl trna synthetase from entamoeba histolytica 43 d1bbua1 not modelled 78.9 12 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 44 c1efwA_ not modelled 78.3 20 PDB header:ligase/rna Chain: A: PDB Molecule:aspartyl-trna synthetase; PDBTitle: crystal structure of aspartyl-trna synthetase from thermus2 thermophilus complexed to trnaasp from escherichia coli 45 c1asyA_ not modelled 77.2 19 PDB header:complex (aminoacyl-trna synthase/trna) Chain: A: PDB Molecule:aspartyl-trna synthetase; PDBTitle: class ii aminoacyl transfer rna synthetases: crystal2 structure of yeast aspartyl-trna synthetase complexed with3 trna asp 46 d1wjja_ not modelled 75.7 15 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 47 c2hqlB_ not modelled 75.1 21 PDB header:dna binding protein Chain: B: PDB Molecule:hypothetical protein mg376 homolog; PDBTitle: crystal structure of a small single-stranded dna binding2 protein from mycoplasma pneumoniae 48 d1e1oa1 not modelled 73.6 12 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 49 c2pi2A_ not modelled 73.0 19 PDB header:replication, dna binding protein Chain: A: PDB Molecule:replication protein a 32 kda subunit; PDBTitle: full-length replication protein a subunits rpa14 and rpa32 50 c3m4qA_ not modelled 70.9 18 PDB header:ligase Chain: A: PDB Molecule:asparaginyl-trna synthetase, putative; PDBTitle: entamoeba histolytica asparaginyl-trna synthetase (asnrs) 51 c2vl6C_ not modelled 69.3 17 PDB header:dna binding protein Chain: C: PDB Molecule:minichromosome maintenance protein mcm; PDBTitle: structural analysis of the sulfolobus solfataricus mcm2 protein n-terminal domain 52 c1b8aB_ not modelled 68.5 22 PDB header:ligase Chain: B: PDB Molecule:protein (aspartyl-trna synthetase); PDBTitle: aspartyl-trna synthetase 53 d1n9wa1 not modelled 65.8 21 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 54 c1eqrC_ not modelled 65.1 20 PDB header:ligase Chain: C: PDB Molecule:aspartyl-trna synthetase; PDBTitle: crystal structure of free aspartyl-trna synthetase from2 escherichia coli 55 c1wydB_ not modelled 64.1 19 PDB header:ligase Chain: B: PDB Molecule:hypothetical aspartyl-trna synthetase; PDBTitle: crystal structure of aspartyl-trna synthetase from sulfolobus tokodaii 56 d2pi2a1 not modelled 62.0 17 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 57 c1ltlE_ not modelled 60.6 31 PDB header:replication Chain: E: PDB Molecule:dna replication initiator (cdc21/cdc54); PDBTitle: the dodecamer structure of mcm from archaeal m.2 thermoautotrophicum 58 c1gm5A_ not modelled 58.1 12 PDB header:helicase Chain: A: PDB Molecule:recg; PDBTitle: structure of recg bound to three-way dna junction 59 c3kf8C_ not modelled 52.4 19 PDB header:structural protein Chain: C: PDB Molecule:protein stn1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex 60 d1vqoj1 not modelled 51.0 25 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 61 d1ltla_ not modelled 48.0 31 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:DNA replication initiator (cdc21/cdc54) N-terminal domain 62 c4a1aI_ not modelled 45.1 25 PDB header:ribosome Chain: I: PDB Molecule:60s ribosomal protein l13a; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 3. 63 c2zkrj_ not modelled 44.8 25 PDB header:ribosomal protein/rna Chain: J: PDB Molecule:rna expansion segment es15 part ii; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 64 d1j3aa_ not modelled 44.8 35 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 65 c3izcK_ not modelled 43.1 30 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 66 c3d5bN_ not modelled 41.0 42 PDB header:ribosome Chain: N: PDB Molecule:50s ribosomal protein l13; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of one 70s ribosome. the entire crystal3 structure contains two 70s ribosomes as described in remark 400. 67 d2zjrg1 not modelled 40.6 33 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 68 c3cf5G_ not modelled 40.6 33 PDB header:ribosome/antibiotic Chain: G: PDB Molecule:50s ribosomal protein l13; PDBTitle: thiopeptide antibiotic thiostrepton bound to the large ribosomal2 subunit of deinococcus radiodurans 69 c3bjuB_ not modelled 39.3 18 PDB header:ligase Chain: B: PDB Molecule:lysyl-trna synthetase; PDBTitle: crystal structure of tetrameric form of human lysyl-trna2 synthetase 70 d2j01n1 not modelled 39.2 42 Fold:Ribosomal protein L13 Superfamily:Ribosomal protein L13 Family:Ribosomal protein L13 71 c3jywM_ not modelled 38.1 30 PDB header:ribosome Chain: M: PDB Molecule:60s ribosomal protein l16(a); PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution 72 d1fnda1 not modelled 37.3 17 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 73 c3e9hB_ not modelled 34.4 15 PDB header:ligase Chain: B: PDB Molecule:lysyl-trna synthetase; PDBTitle: lysyl-trna synthetase from bacillus stearothermophilus2 complexed with l-lysylsulfamoyl adenosine 74 c3iz5K_ not modelled 33.4 30 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein l13a (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 75 c1x55A_ not modelled 32.1 22 PDB header:ligase Chain: A: PDB Molecule:asparaginyl-trna synthetase; PDBTitle: crystal structure of asparaginyl-trna synthetase from pyrococcus2 horikoshii complexed with asparaginyl-adenylate analogue 76 d1xjva1 not modelled 31.6 11 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 77 c2ftcH_ not modelled 31.5 47 PDB header:ribosome Chain: H: PDB Molecule:39s ribosomal protein l13, mitochondrial; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 78 c1xjvA_ not modelled 29.5 12 PDB header:transcription/dna Chain: A: PDB Molecule:protection of telomeres 1; PDBTitle: crystal structure of human pot1 bound to telomeric single-2 stranded dna (ttagggttag) 79 c3bboL_ not modelled 28.6 32 PDB header:ribosome Chain: L: PDB Molecule:ribosomal protein l13; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 80 d1jb7a1 not modelled 27.4 12 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 81 c2kenA_ not modelled 26.9 9 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved protein; PDBTitle: solution nmr structure of the ob domain (residues 67-166)2 of mm0293 from methanosarcina mazei. northeast structural3 genomics consortium target mar214a. 82 c3f9vA_ not modelled 25.4 15 PDB header:hydrolase Chain: A: PDB Molecule:minichromosome maintenance protein mcm; PDBTitle: crystal structure of a near full-length archaeal mcm: functional2 insights for an aaa+ hexameric helicase 83 d1xjva2 not modelled 19.8 20 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 84 c1s1iM_ not modelled 19.7 30 PDB header:ribosome Chain: M: PDB Molecule:60s ribosomal protein l16-a; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. 85 c1e22A_ not modelled 19.4 13 PDB header:ligase Chain: A: PDB Molecule:lysyl-trna synthetase; PDBTitle: lysyl-trna synthetase (lysu) hexagonal form complexed with2 lysine and the non-hydrolysable atp analogue amp-pcp 86 d1zcea1 not modelled 18.7 11 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 87 d1krta_ not modelled 18.0 14 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 88 d1sm4a1 not modelled 16.4 22 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 89 c1n9wA_ not modelled 16.1 21 PDB header:biosynthetic protein Chain: A: PDB Molecule:aspartyl-trna synthetase 2; PDBTitle: crystal structure of the non-discriminating and archaeal-2 type aspartyl-trna synthetase from thermus thermophilus 90 c2k4mA_ not modelled 15.1 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0146 protein mth_1000; PDBTitle: solution nmr structure of m. thermoautotrophicum protein2 mth_1000, northeast structural genomics consortium target3 tr8 91 d2ar1a1 not modelled 15.0 16 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 92 d2gbsa1 not modelled 14.5 16 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 93 d1qzga_ not modelled 14.4 17 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 94 d1qfza1 not modelled 14.0 15 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 95 d1htwa_ not modelled 13.9 41 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:YjeE-like 96 d1gawa1 not modelled 13.8 20 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 97 c3eopB_ not modelled 13.0 11 PDB header:unknown function Chain: B: PDB Molecule:thymocyte nuclear protein 1; PDBTitle: crystal structure of the duf55 domain of human thymocyte nuclear2 protein 1 98 d2bmwa1 not modelled 12.7 20 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 99 d2evea1 not modelled 12.6 11 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like

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