Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AGE0
DateThu Jan 5 11:28:52 GMT 2012
Unique Job ID83be1877447a88af

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1qvca_
Top template information
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
Confidence and coverage
Confidence:100.0% Coverage: 81%
145 residues ( 81% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVL
Secondary structure 
SS confidence 
Disorder  ??????
??
??????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  FGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGG
Secondary structure 
SS confidence 
Disorder 
?
??
?
????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170........
Sequence  APAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNEPPMDFDDDIPF
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

RankAligned region

PDB 1qvc chain A

3D model

Region: 2 - 146
Aligned: 145
Modelled: 145
Confidence: 100.0%
Identity: 100%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2

PDB 1eyg chain A

3D model

Region: 2 - 113
Aligned: 112
Modelled: 112
Confidence: 100.0%
Identity: 100%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2

PDB 3tqy chain A

3D model

Region: 3 - 111
Aligned: 109
Modelled: 109
Confidence: 100.0%
Identity: 68%
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

3D model

Region: 3 - 115
Aligned: 111
Modelled: 113
Confidence: 100.0%
Identity: 32%
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 1eqq chain D

3D model

Region: 2 - 117
Aligned: 116
Modelled: 116
Confidence: 100.0%
Identity: 100%
PDB header:replication/rna
Chain: D: PDB Molecule:single stranded dna binding protein;
PDBTitle: single stranded dna binding protein and ssdna complex

Phyre2

PDB 2ihf chain A

3D model

Region: 1 - 116
Aligned: 113
Modelled: 115
Confidence: 100.0%
Identity: 34%
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 2vw9 chain B

3D model

Region: 6 - 110
Aligned: 104
Modelled: 105
Confidence: 100.0%
Identity: 39%
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 3pgz chain B

3D model

Region: 3 - 113
Aligned: 111
Modelled: 111
Confidence: 99.9%
Identity: 56%
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 1ue1 chain A

3D model

Region: 5 - 121
Aligned: 113
Modelled: 117
Confidence: 99.9%
Identity: 32%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2

PDB 3ull chain A

3D model

Region: 1 - 110
Aligned: 105
Modelled: 109
Confidence: 99.9%
Identity: 33%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2

PDB 3eiv chain B

3D model

Region: 1 - 121
Aligned: 111
Modelled: 119
Confidence: 99.9%
Identity: 30%
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 1se8 chain A

3D model

Region: 3 - 104
Aligned: 99
Modelled: 102
Confidence: 99.9%
Identity: 35%
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 1se8 chain A

3D model

Region: 3 - 104
Aligned: 99
Modelled: 102
Confidence: 99.9%
Identity: 35%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2

PDB 1ue7 chain A

3D model

Region: 5 - 125
Aligned: 106
Modelled: 121
Confidence: 99.9%
Identity: 33%
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

3D model

Region: 1 - 110
Aligned: 101
Modelled: 110
Confidence: 99.9%
Identity: 14%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2

PDB 3lgj chain A

3D model

Region: 6 - 106
Aligned: 89
Modelled: 101
Confidence: 99.9%
Identity: 51%
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 1z9f chain A

3D model

Region: 1 - 111
Aligned: 88
Modelled: 111
Confidence: 99.9%
Identity: 48%
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 3koj chain A

3D model

Region: 5 - 109
Aligned: 85
Modelled: 104
Confidence: 99.8%
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

3D model

Region: 1 - 111
Aligned: 99
Modelled: 109
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

3D model

Region: 7 - 97
Aligned: 89
Modelled: 89
Confidence: 99.8%
Identity: 15%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Single strand DNA-binding domain, SSB

Phyre2
1
d1qvca_
2
d1eyga_
3
c3tqyA_
4
c2iheA_
5
c1eqqD_
6
c2ihfA_
7
c2vw9B_
8
c3pgzB_
9
d1ue1a_
10
d3ulla_
11
c3eivB_
12
c1se8A_
13
d1se8a_
14
c1ue7A_
15
d1v1qa_
16
c3lgjA_
17
c1z9fA_
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
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80
81
82
83
84
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99



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1qvca_
100.0 100 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
2d1eyga_
100.0 100 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
3c3tqyA_
100.0 68 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
4c2iheA_
100.0 32 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
5c1eqqD_
100.0 100 PDB header:replication/rna
Chain: D: PDB Molecule:single stranded dna binding protein;
PDBTitle: single stranded dna binding protein and ssdna complex
6c2ihfA_
100.0 34 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
7c2vw9B_
100.0 39 PDB header:dna-binding protein
Chain: B: PDB Molecule:single-stranded dna binding protein;
PDBTitle: single stranded dna binding protein complex from2 helicobacter pylori
8c3pgzB_
99.9 56 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
9d1ue1a_
99.9 32 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
10d3ulla_
99.9 33 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
11c3eivB_
99.9 30 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
12c1se8A_
99.9 35 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
13d1se8a_
99.9 35 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
14c1ue7A_
99.9 33 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
15d1v1qa_
99.9 14 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
16c3lgjA_
99.9 51 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
17c1z9fA_
99.9 48 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
18c3kojA_
99.8 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.
19c3k8aA_
99.8 20 PDB header:dna binding protein
Chain: A: PDB Molecule:putative primosomal replication protein;
PDBTitle: neisseria gonorrhoeae prib
20d1txya_
99.8 15 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
21c3fhwB_
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.
22c3en2A_
not modelled 99.7 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.
23c3stbC_
not modelled 98.1 24 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
24c3k81D_
not modelled 98.1 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
25c3e0eA_
not modelled 96.9 19 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
26c3f2cA_
not modelled 95.5 18 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
27c3dm3A_
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
28c2k50A_
not modelled 94.5 13 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.
29c1ynxA_
not modelled 93.1 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)
30c1fguA_
not modelled 92.2 11 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
31d1jmca1
not modelled 90.7 14 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
32d1o7ia_
not modelled 90.6 23 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
33d1gm5a2
not modelled 89.1 12 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:RecG "wedge" domain
34c2k75A_
not modelled 87.9 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.
35d1jmca2
not modelled 84.6 19 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
36d1c0aa1
not modelled 77.4 19 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
37c2xgtB_
not modelled 76.4 18 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
38c2hqlB_
not modelled 76.2 24 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
39c3kf6A_
not modelled 75.9 23 PDB header:structural protein
Chain: A: PDB Molecule:protein stn1;
PDBTitle: crystal structure of s. pombe stn1-ten1 complex
40d1eova1
not modelled 75.6 13 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
41c2vl6C_
not modelled 74.7 19 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
42d1b8aa1
not modelled 74.3 16 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
43d1wjja_
not modelled 70.8 10 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
44d1bbua1
not modelled 70.2 13 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
45d1e1oa1
not modelled 66.6 13 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
46d1l0wa1
not modelled 62.6 19 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
47c1ltlE_
not modelled 61.7 22 PDB header:replication
Chain: E: PDB Molecule:dna replication initiator (cdc21/cdc54);
PDBTitle: the dodecamer structure of mcm from archaeal m.2 thermoautotrophicum
48c1eqrC_
not modelled 53.7 19 PDB header:ligase
Chain: C: PDB Molecule:aspartyl-trna synthetase;
PDBTitle: crystal structure of free aspartyl-trna synthetase from2 escherichia coli
49c1gm5A_
not modelled 52.8 12 PDB header:helicase
Chain: A: PDB Molecule:recg;
PDBTitle: structure of recg bound to three-way dna junction
50d1ltla_
not modelled 49.8 22 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:DNA replication initiator (cdc21/cdc54) N-terminal domain
51c3m4qA_
not modelled 45.4 17 PDB header:ligase
Chain: A: PDB Molecule:asparaginyl-trna synthetase, putative;
PDBTitle: entamoeba histolytica asparaginyl-trna synthetase (asnrs)
52c1wydB_
not modelled 45.0 22 PDB header:ligase
Chain: B: PDB Molecule:hypothetical aspartyl-trna synthetase;
PDBTitle: crystal structure of aspartyl-trna synthetase from sulfolobus tokodaii
53c2pi2A_
not modelled 44.3 18 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
54d1vqoj1
not modelled 41.9 25 Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
55c3d5bN_
not modelled 41.2 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.
56c3kf8C_
not modelled 39.8 19 PDB header:structural protein
Chain: C: PDB Molecule:protein stn1;
PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex
57d2j01n1
not modelled 39.7 42 Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
58c3i7fA_
not modelled 39.6 11 PDB header:ligase
Chain: A: PDB Molecule:aspartyl-trna synthetase;
PDBTitle: aspartyl trna synthetase from entamoeba histolytica
59c3cf5G_
not modelled 39.4 35 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
60d2zjrg1
not modelled 39.4 35 Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
61c2zkrj_
not modelled 38.0 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
62d1j3aa_
not modelled 36.0 35 Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
63c4a1aI_
not modelled 34.8 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.
64c1b8aB_
not modelled 33.8 17 PDB header:ligase
Chain: B: PDB Molecule:protein (aspartyl-trna synthetase);
PDBTitle: aspartyl-trna synthetase
65c3izcK_
not modelled 33.6 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
66c2ftcH_
not modelled 33.4 53 PDB header:ribosome
Chain: H: PDB Molecule:39s ribosomal protein l13, mitochondrial;
PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome
67d2pi2a1
not modelled 32.2 18 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
68d1n9wa1
not modelled 31.6 21 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
69c3bjuB_
not modelled 31.3 13 PDB header:ligase
Chain: B: PDB Molecule:lysyl-trna synthetase;
PDBTitle: crystal structure of tetrameric form of human lysyl-trna2 synthetase
70d1qzga_
not modelled 30.9 20 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
71c3jywM_
not modelled 29.9 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
72c3bboL_
not modelled 29.6 26 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
73c1xjvA_
not modelled 27.2 13 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)
74d1krta_
not modelled 26.5 11 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Anticodon-binding domain
75c3iz5K_
not modelled 26.4 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
76d1fnda1
not modelled 25.7 20 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:Ferredoxin reductase FAD-binding domain-like
77c1e22A_
not modelled 25.7 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
78c1jb7A_
not modelled 25.0 10 PDB header:dna-binding protein/dna
Chain: A: PDB Molecule:telomere-binding protein alpha subunit;
PDBTitle: dna g-quartets in a 1.86 a resolution structure of an oxytricha nova2 telomeric protein-dna complex
79c1ph4A_
not modelled 25.0 10 PDB header:dna binding protein/dna
Chain: A: PDB Molecule:telomere-binding protein alpha subunit;
PDBTitle: crystal structure of the oxytricha nova telomere end-binding protein2 complexed with noncognate ssdna ggggttttggcg
80c2l3sA_
not modelled 24.3 11 PDB header:structural protein
Chain: A: PDB Molecule:autoinhibited crk protein;
PDBTitle: structure of the autoinhibited crk
81d1jb7a1
not modelled 20.4 10 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
82c1asyA_
not modelled 19.8 18 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
83d1gawa1
not modelled 19.1 24 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:Ferredoxin reductase FAD-binding domain-like
84c1efwA_
not modelled 19.1 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
85d1xjva1
not modelled 18.7 13 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
86d1htwa_
not modelled 18.5 41 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:YjeE-like
87d1zcea1
not modelled 17.4 11 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
88d1xjva2
not modelled 17.3 24 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
89d2isba1
not modelled 17.1 30 Fold:The "swivelling" beta/beta/alpha domain
Superfamily:FumA C-terminal domain-like
Family:FumA C-terminal domain-like
90c3f9vA_
not modelled 16.5 21 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
91c3e9hB_
not modelled 15.0 13 PDB header:ligase
Chain: B: PDB Molecule:lysyl-trna synthetase;
PDBTitle: lysyl-trna synthetase from bacillus stearothermophilus2 complexed with l-lysylsulfamoyl adenosine
92c3kf8D_
not modelled 14.7 26 PDB header:structural protein
Chain: D: PDB Molecule:protein ten1;
PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex
93d2ar1a1
not modelled 14.3 16 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
94d2gbsa1
not modelled 14.0 16 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
95c2kenA_
not modelled 13.8 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.
96c2wkdA_
not modelled 13.5 17 PDB header:dna binding protein
Chain: A: PDB Molecule:orf34p2;
PDBTitle: crystal structure of a double ile-to-met mutant of protein2 orf34 from lactococcus phage p2
97c1s1iM_
not modelled 13.0 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.
98c3eopB_
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
99d1c3ha_
not modelled 12.8 36 Fold:TNF-like
Superfamily:TNF-like
Family:TNF-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


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