Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP07395
DateThu Jan 5 11:00:19 GMT 2012
Unique Job ID0aa962234370b47f

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3pcoD_
Top template information
PDB header:ligase
Chain: D: PDB Molecule:phenylalanyl-trna synthetase, beta chain;
PDBTitle: crystal structure of e. coli phenylalanine-trna synthetase complexed2 with phenylalanine and amp
Confidence and coverage
Confidence:100.0% Coverage:100%
795 residues (100% 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  MKFSELWLREWVNPAIDSDALANQITMAGLEVDGVEPVAGSFHGVVVGEVVECAQHPNAD
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Disorder  ????























































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   .........70.........80.........90.........100.........110.........120
Sequence  KLRVTKVNVGGDRLLDIVCGAPNCRQGLRVAVATIGAVLPGDFKIKAAKLRGEPSEGMLC
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?



















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   .........130.........140.........150.........160.........170.........180
Sequence  SFSELGISDDHSGIIELPADAPIGTDIREYLKLDDNTIEISVTPNRADCLGIIGVARDVA
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?




































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   .........190.........200.........210.........220.........230.........240
Sequence  VLNQLPLVQPEIVPVGATIDDTLPITVEAPEACPRYLGRVVKGINVKAPTPLWMKEKLRR
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???
????







































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   .........250.........260.........270.........280.........290.........300
Sequence  CGIRSIDAVVDVTNYVLLELGQPMHAFDKDRIEGGIVVRMAKEGETLVLLDGTEAKLNAD
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   .........310.........320.........330.........340.........350.........360
Sequence  TLVIADHNKALAMGGIFGGEHSGVNDETQNVLLECAFFSPLSITGRARRHGLHTDASHRY
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   .........370.........380.........390.........400.........410.........420
Sequence  ERGVDPALQHKAMERATRLLIDICGGEAGPVIDITNEATLPKRATITLRRSKLDRLIGHH
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   .........430.........440.........450.........460.........470.........480
Sequence  IADEQVTDILRRLGCEVTEGKDEWQAVAPSWRFDMEIEEDLVEEVARVYGYNNIPDEPVQ
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   .........490.........500.........510.........520.........530.........540
Sequence  ASLIMGTHREADLSLKRVKTLLNDKGYQEVITYSFVDPKVQQMIHPGVEALLLPSPISVE
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??








??
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   .........550.........560.........570.........580.........590.........600
Sequence  MSAMRLSLWTGLLATVVYNQNRQQNRVRIFESGLRFVPDTQAPLGIRQDLMLAGVICGNR
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   .........610.........620.........630.........640.........650.........660
Sequence  YEEHWNLAKETVDFYDLKGDLESVLDLTGKLNEVEFRAEANPALHPGQSAAIYLKGERIG
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   .........670.........680.........690.........700.........710.........720
Sequence  FVGVVHPELERKLDLNGRTLVFELEWNKLADRVVPQAREISRFPANRRDIAVVVAENVPA
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   .........730.........740.........750.........760.........770.........780
Sequence  ADILSECKKVGVNQVVGVNLFDVYRGKGVAEGYKSLAISLILQDTSRTLEEEEIAATVAK
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???
?












?
???









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   .........790.....
Sequence  CVEALKERFQASLRD
Secondary structure 



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??

??
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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 3pco chain D

3D model

Region: 1 - 795
Aligned: 795
Modelled: 795
Confidence: 100.0%
Identity: 100%
PDB header:ligase
Chain: D: PDB Molecule:phenylalanyl-trna synthetase, beta chain;
PDBTitle: crystal structure of e. coli phenylalanine-trna synthetase complexed2 with phenylalanine and amp

Phyre2

PDB 2rhs chain B

3D model

Region: 1 - 794
Aligned: 773
Modelled: 794
Confidence: 100.0%
Identity: 35%
PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: phers from staphylococcus haemolyticus- rational protein2 engineering and inhibitor studies

Phyre2

PDB 2akw chain B

3D model

Region: 1 - 794
Aligned: 771
Modelled: 794
Confidence: 100.0%
Identity: 37%
PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: crystal structure of t.thermophilus phenylalanyl-trna synthetase2 complexed with p-cl-phenylalanine

Phyre2

PDB 3l4g chain L

3D model

Region: 94 - 690
Aligned: 561
Modelled: 577
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: L: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: crystal structure of homo sapiens cytoplasmic phenylalanyl-trna2 synthetase

Phyre2

PDB 2cxi chain A

3D model

Region: 2 - 471
Aligned: 335
Modelled: 339
Confidence: 100.0%
Identity: 19%
PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: crystal structure of an n-terminal fragment of the phenylalanyl-trna2 synthetase beta-subunit from pyrococcus horikoshii

Phyre2

PDB 3cmq chain A

3D model

Region: 458 - 794
Aligned: 335
Modelled: 337
Confidence: 100.0%
Identity: 17%
PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase, mitochondrial;
PDBTitle: crystal structure of human mitochondrial phenylalanine trna2 synthetase

Phyre2

PDB 1jjc chain B domain 6

3D model

Region: 195 - 398
Aligned: 203
Modelled: 204
Confidence: 100.0%
Identity: 44%
Fold: PheT/TilS domain
Superfamily: PheT/TilS domain
Family: B3/B4 domain of PheRS, PheT

Phyre2

PDB 1jjc chain B domain 5

3D model

Region: 474 - 704
Aligned: 205
Modelled: 231
Confidence: 100.0%
Identity: 32%
Fold: Class II aaRS and biotin synthetases
Superfamily: Class II aaRS and biotin synthetases
Family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain

Phyre2

PDB 3ica chain B

3D model

Region: 487 - 689
Aligned: 203
Modelled: 203
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: the crystal structure of the beta subunit of a phenylalanyl-trna2 synthetase from porphyromonas gingivalis w83

Phyre2

PDB 3ig2 chain B

3D model

Region: 491 - 689
Aligned: 193
Modelled: 199
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: the crystal structure of a putative phenylalanyl-trna synthetase2 (phers) beta chain domain from bacteroides fragilis to 2.1a

Phyre2

PDB 3bu2 chain B

3D model

Region: 18 - 149
Aligned: 128
Modelled: 131
Confidence: 100.0%
Identity: 41%
PDB header:rna binding protein
Chain: B: PDB Molecule:putative trna-binding protein;
PDBTitle: crystal structure of a trna-binding protein from2 staphylococcus saprophyticus subsp. saprophyticus.3 northeast structural genomics consortium target syr77

Phyre2

PDB 2rhq chain A

3D model

Region: 461 - 709
Aligned: 236
Modelled: 249
Confidence: 100.0%
Identity: 17%
PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase alpha chain;
PDBTitle: phers from staphylococcus haemolyticus- rational protein2 engineering and inhibitor studies

Phyre2

PDB 1jjc chain B domain 3

3D model

Region: 43 - 152
Aligned: 107
Modelled: 110
Confidence: 100.0%
Identity: 37%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Myf domain

Phyre2

PDB 1jjc chain B domain 4

3D model

Region: 696 - 794
Aligned: 98
Modelled: 99
Confidence: 99.9%
Identity: 36%
Fold: Ferredoxin-like
Superfamily: Anticodon-binding domain of PheRS
Family: Anticodon-binding domain of PheRS

Phyre2

PDB 2e8g chain B

3D model

Region: 44 - 145
Aligned: 91
Modelled: 101
Confidence: 99.9%
Identity: 38%
PDB header:rna binding protein
Chain: B: PDB Molecule:hypothetical protein ph0536;
PDBTitle: the structure of protein from p. horikoshii at 1.7 angstrom2 resolution

Phyre2

PDB 1b7y chain B domain 4

3D model

Region: 696 - 788
Aligned: 93
Modelled: 93
Confidence: 99.9%
Identity: 35%
Fold: Ferredoxin-like
Superfamily: Anticodon-binding domain of PheRS
Family: Anticodon-binding domain of PheRS

Phyre2

PDB 2cwp chain A

3D model

Region: 30 - 147
Aligned: 108
Modelled: 117
Confidence: 99.9%
Identity: 25%
PDB header:ligase
Chain: A: PDB Molecule:metrs related protein;
PDBTitle: crystal structure of metrs related protein from pyrococcus horikoshii

Phyre2

PDB 1gd7 chain A

3D model

Region: 44 - 147
Aligned: 97
Modelled: 104
Confidence: 99.9%
Identity: 15%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Myf domain

Phyre2

PDB 1pyb chain A

3D model

Region: 44 - 147
Aligned: 95
Modelled: 104
Confidence: 99.9%
Identity: 20%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Myf domain

Phyre2

PDB 1pxf chain A

3D model

Region: 44 - 147
Aligned: 97
Modelled: 103
Confidence: 99.9%
Identity: 29%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Myf domain

Phyre2
1

c3pcoD_
2

c2rhsB_
3

c2akwB_
4

c3l4gL_
5

c2cxiA_
6

c3cmqA_
7

d1jjcb6
8

d1jjcb5
9

c3icaB_
10

c3ig2B_
11

c3bu2B_
12

c2rhqA_
13

d1jjcb3
14

d1jjcb4
15

c2e8gB_
16

d1b7yb4
17

c2cwpA_
18

d1gd7a_
19

d1pyba_
20

d1pxfa_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3pcoD_



100.0 100 PDB header:ligase
Chain: D: PDB Molecule:phenylalanyl-trna synthetase, beta chain;
PDBTitle: crystal structure of e. coli phenylalanine-trna synthetase complexed2 with phenylalanine and amp
2c2rhsB_



100.0 35 PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: phers from staphylococcus haemolyticus- rational protein2 engineering and inhibitor studies
3c2akwB_



100.0 37 PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: crystal structure of t.thermophilus phenylalanyl-trna synthetase2 complexed with p-cl-phenylalanine
4c3l4gL_



100.0 20 PDB header:ligase
Chain: L: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: crystal structure of homo sapiens cytoplasmic phenylalanyl-trna2 synthetase
5c2cxiA_



100.0 19 PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: crystal structure of an n-terminal fragment of the phenylalanyl-trna2 synthetase beta-subunit from pyrococcus horikoshii
6c3cmqA_



100.0 17 PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase, mitochondrial;
PDBTitle: crystal structure of human mitochondrial phenylalanine trna2 synthetase
7d1jjcb6



100.0 44 Fold:PheT/TilS domain
Superfamily:PheT/TilS domain
Family:B3/B4 domain of PheRS, PheT
8d1jjcb5



100.0 32 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
9c3icaB_



100.0 20 PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: the crystal structure of the beta subunit of a phenylalanyl-trna2 synthetase from porphyromonas gingivalis w83
10c3ig2B_



100.0 20 PDB header:ligase
Chain: B: PDB Molecule:phenylalanyl-trna synthetase beta chain;
PDBTitle: the crystal structure of a putative phenylalanyl-trna synthetase2 (phers) beta chain domain from bacteroides fragilis to 2.1a
11c3bu2B_



100.0 41 PDB header:rna binding protein
Chain: B: PDB Molecule:putative trna-binding protein;
PDBTitle: crystal structure of a trna-binding protein from2 staphylococcus saprophyticus subsp. saprophyticus.3 northeast structural genomics consortium target syr77
12c2rhqA_



100.0 17 PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase alpha chain;
PDBTitle: phers from staphylococcus haemolyticus- rational protein2 engineering and inhibitor studies
13d1jjcb3



100.0 37 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
14d1jjcb4



99.9 36 Fold:Ferredoxin-like
Superfamily:Anticodon-binding domain of PheRS
Family:Anticodon-binding domain of PheRS
15c2e8gB_



99.9 38 PDB header:rna binding protein
Chain: B: PDB Molecule:hypothetical protein ph0536;
PDBTitle: the structure of protein from p. horikoshii at 1.7 angstrom2 resolution
16d1b7yb4



99.9 35 Fold:Ferredoxin-like
Superfamily:Anticodon-binding domain of PheRS
Family:Anticodon-binding domain of PheRS
17c2cwpA_



99.9 25 PDB header:ligase
Chain: A: PDB Molecule:metrs related protein;
PDBTitle: crystal structure of metrs related protein from pyrococcus horikoshii
18d1gd7a_



99.9 15 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
19d1pyba_



99.9 20 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
20d1pxfa_



99.9 29 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
21d1mkha_



not modelled 99.8 27 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
22d1jjcb1



not modelled 99.8 45 Fold:Putative DNA-binding domain
Superfamily:Putative DNA-binding domain
Family:Domains B1 and B5 of PheRS-beta, PheT
23c2q2iA_



not modelled 99.8 16 PDB header:chaperone
Chain: A: PDB Molecule:secretion chaperone;
PDBTitle: crystal structure of the protein secretion chaperone csaa from2 agrobacterium tumefaciens.
24d1jjcb2



not modelled 99.8 41 Fold:Putative DNA-binding domain
Superfamily:Putative DNA-binding domain
Family:Domains B1 and B5 of PheRS-beta, PheT
25d1fl0a_



not modelled 99.8 27 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
26d1jjca_



not modelled 99.8 22 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
27c1b70A_



not modelled 99.8 21 PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase;
PDBTitle: phenylalanyl trna synthetase complexed with phenylalanine
28d1ntga_



not modelled 99.8 25 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Myf domain
29c2nzoD_



not modelled 99.8 13 PDB header:chaperone
Chain: D: PDB Molecule:protein csaa;
PDBTitle: crystal structure of a secretion chaperone csaa from bacillus subtilis2 in the space group p 32 2 1
30c2du4B_



not modelled 99.7 14 PDB header:ligase/rna
Chain: B: PDB Molecule:o-phosphoseryl-trna synthetase;
PDBTitle: crystal structure of archaeoglobus fulgidus o-phosphoseryl-2 trna synthetase complexed with trnacys
31c3l4gI_



not modelled 99.7 16 PDB header:ligase
Chain: I: PDB Molecule:phenylalanyl-trna synthetase alpha chain;
PDBTitle: crystal structure of homo sapiens cytoplasmic phenylalanyl-trna2 synthetase
32c2du7C_



not modelled 99.7 20 PDB header:ligase
Chain: C: PDB Molecule:o-phosphoseryl-trna synthetase;
PDBTitle: crystal structure of methanococcus jannacshii o-phosphoseryl-trna2 synthetase
33c3pcoC_



not modelled 99.7 17 PDB header:ligase
Chain: C: PDB Molecule:phenylalanyl-trna synthetase, alpha subunit;
PDBTitle: crystal structure of e. coli phenylalanine-trna synthetase complexed2 with phenylalanine and amp
34c2zimA_



not modelled 99.5 10 PDB header:ligase
Chain: A: PDB Molecule:pyrrolysyl-trna synthetase;
PDBTitle: pyrrolysyl-trna synthetase bound to adenylated pyrrolysine and2 pyrophosphate
35c2znjB_



not modelled 99.3 14 PDB header:ligase
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of pyrrolysyl-trna synthetase from2 desulfitobacterium hafniense
36d1kmma2



not modelled 97.7 14 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
37c2el9B_



not modelled 97.6 14 PDB header:ligase
Chain: B: PDB Molecule:histidyl-trna synthetase;
PDBTitle: crystal structure of e.coli histidyl-trna synthetase2 complexed with a histidyl-adenylate analogue
38c3hj7A_



not modelled 97.5 22 PDB header:ligase
Chain: A: PDB Molecule:trna(ile)-lysidine synthase;
PDBTitle: crystal structure of tils c-terminal domain
39d1wu7a2



not modelled 97.5 11 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
40c3netB_



not modelled 97.4 13 PDB header:ligase
Chain: B: PDB Molecule:histidyl-trna synthetase;
PDBTitle: crystal structure of histidyl-trna synthetase from nostoc sp. pcc 7120
41c3od1A_



not modelled 97.4 9 PDB header:transferase
Chain: A: PDB Molecule:atp phosphoribosyltransferase regulatory subunit;
PDBTitle: the crystal structure of an atp phosphoribosyltransferase regulatory2 subunit/histidyl-trna synthetase from bacillus halodurans c
42c3hriF_



not modelled 97.4 9 PDB header:ligase
Chain: F: PDB Molecule:histidyl-trna synthetase;
PDBTitle: histidyl-trna synthetase (apo) from trypanosoma brucei
43c1wu7A_



not modelled 97.4 11 PDB header:ligase
Chain: A: PDB Molecule:histidyl-trna synthetase;
PDBTitle: crystal structure of histidyl-trna synthetase from2 thermoplasma acidophilum
44c3racA_



not modelled 97.4 12 PDB header:ligase
Chain: A: PDB Molecule:histidine-trna ligase;
PDBTitle: crystal strucutre of histidine--trna ligase subunit from2 alicyclobacillus acidocaldarius subsp. acidocaldarius dsm 446.
45c3g1zB_



not modelled 97.2 13 PDB header:ligase
Chain: B: PDB Molecule:putative lysyl-trna synthetase;
PDBTitle: structure of idp01693/yjea, a potential t-rna synthetase from2 salmonella typhimurium
46c1z7nB_



not modelled 97.2 15 PDB header:transferase
Chain: B: PDB Molecule:atp phosphoribosyltransferase regulatory subunit;
PDBTitle: atp phosphoribosyl transferase (hiszg atp-prtase) from2 lactococcus lactis with bound prpp substrate
47c1nyqA_



not modelled 97.2 14 PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase 1;
PDBTitle: structure of staphylococcus aureus threonyl-trna synthetase2 complexed with an analogue of threonyl adenylate
48c1adyA_



not modelled 97.1 14 PDB header:trna synthetase
Chain: A: PDB Molecule:histidyl-trna synthetase;
PDBTitle: histidyl-trna synthetase in complex with histidyl-adenylate
49d1h4vb2



not modelled 97.1 15 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
50d1l0wa3



not modelled 97.0 14 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
51c2i4lC_



not modelled 97.0 10 PDB header:ligase
Chain: C: PDB Molecule:proline-trna ligase;
PDBTitle: rhodopseudomonas palustris prolyl-trna synthetase
52d1c0aa3



not modelled 96.9 9 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
53c2j3mA_



not modelled 96.6 9 PDB header:ligase
Chain: A: PDB Molecule:prolyl-trna synthetase;
PDBTitle: prolyl-trna synthetase from enterococcus faecalis complexed2 with atp, manganese and prolinol
54d1nyra4



not modelled 96.6 14 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
55d1nnha_



not modelled 96.5 12 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
56d1e1oa2



not modelled 96.5 18 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
57c1qf6A_



not modelled 96.4 13 PDB header:ligase/rna
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: structure of e. coli threonyl-trna synthetase complexed with its2 cognate trna
58d1b8aa2



not modelled 96.3 15 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
59c2dq3A_



not modelled 96.3 14 PDB header:ligase
Chain: A: PDB Molecule:seryl-trna synthetase;
PDBTitle: crystal structure of aq_298
60d1bbua2



not modelled 96.2 17 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
61c1e22A_



not modelled 96.1 17 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
62c3e9hB_



not modelled 96.0 18 PDB header:ligase
Chain: B: PDB Molecule:lysyl-trna synthetase;
PDBTitle: lysyl-trna synthetase from bacillus stearothermophilus2 complexed with l-lysylsulfamoyl adenosine
63c3a2kB_



not modelled 95.9 22 PDB header:ligase/rna
Chain: B: PDB Molecule:trna(ile)-lysidine synthase;
PDBTitle: crystal structure of tils complexed with trna
64c1fyfB_



not modelled 95.8 12 PDB header:ligase
Chain: B: PDB Molecule:threonyl-trna synthetase;
PDBTitle: crystal structure of a truncated form of threonyl-trna2 synthetase complexed with a seryl adenylate analog
65d1seta2



not modelled 95.8 12 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
66d1eova2



not modelled 95.8 15 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
67c1sryB_



not modelled 95.7 12 PDB header:ligase(synthetase)
Chain: B: PDB Molecule:seryl-trna synthetase;
PDBTitle: refined crystal structure of the seryl-trna synthetase from2 thermus thermophilus at 2.5 angstroms resolution
68c1qe0B_



not modelled 95.6 13 PDB header:ligase
Chain: B: PDB Molecule:histidyl-trna synthetase;
PDBTitle: crystal structure of apo s. aureus histidyl-trna synthetase
69d1z7ma1



not modelled 95.6 14 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
70c2dq0A_



not modelled 95.5 11 PDB header:ligase
Chain: A: PDB Molecule:seryl-trna synthetase;
PDBTitle: crystal structure of seryl-trna synthetase from pyrococcus2 horikoshii complexed with a seryl-adenylate analog
71d1nj8a3



not modelled 95.5 13 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
72d1qf6a4



not modelled 95.5 12 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
73c1atiA_



not modelled 95.4 9 PDB header:protein biosynthesis
Chain: A: PDB Molecule:glycyl-trna synthetase;
PDBTitle: crystal structure of glycyl-trna synthetase from thermus thermophilus
74c3bjuB_



not modelled 95.4 15 PDB header:ligase
Chain: B: PDB Molecule:lysyl-trna synthetase;
PDBTitle: crystal structure of tetrameric form of human lysyl-trna2 synthetase
75c1efwA_



not modelled 94.9 16 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
76c3a32A_



not modelled 94.7 13 PDB header:ligase
Chain: A: PDB Molecule:probable threonyl-trna synthetase 1;
PDBTitle: crystal structure of putative threonyl-trna synthetase2 thrrs-1 from aeropyrum pernix
77d1nj1a3



not modelled 94.4 15 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
78c1ggmB_



not modelled 94.3 8 PDB header:ligase
Chain: B: PDB Molecule:protein (glycyl-trna synthetase);
PDBTitle: glycyl-trna synthetase from thermus thermophilus complexed with2 glycyl-adenylate
79c1nj8C_



not modelled 94.2 12 PDB header:ligase
Chain: C: PDB Molecule:proline-trna synthetase;
PDBTitle: crystal structure of prolyl-trna synthetase from2 methanocaldococcus janaschii
80c1eqrC_



not modelled 93.8 9 PDB header:ligase
Chain: C: PDB Molecule:aspartyl-trna synthetase;
PDBTitle: crystal structure of free aspartyl-trna synthetase from2 escherichia coli
81d1qe0a2



not modelled 93.7 13 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
82d1hc7a2



not modelled 93.6 11 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
83c1x55A_



not modelled 93.5 13 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
84c3lssA_



not modelled 93.4 13 PDB header:ligase
Chain: A: PDB Molecule:seryl-trna synthetase;
PDBTitle: trypanosoma brucei seryl-trna synthetase in complex with atp
85c3qo8A_



not modelled 93.3 13 PDB header:ligase
Chain: A: PDB Molecule:seryl-trna synthetase, cytoplasmic;
PDBTitle: crystal structure of seryl-trna synthetase from candida albicans
86c1wydB_



not modelled 93.0 18 PDB header:ligase
Chain: B: PDB Molecule:hypothetical aspartyl-trna synthetase;
PDBTitle: crystal structure of aspartyl-trna synthetase from sulfolobus tokodaii
87c1wleB_



not modelled 92.7 12 PDB header:ligase
Chain: B: PDB Molecule:seryl-trna synthetase;
PDBTitle: crystal structure of mammalian mitochondrial seryl-trna2 synthetase complexed with seryl-adenylate
88c3mf2B_



not modelled 92.5 9 PDB header:ligase
Chain: B: PDB Molecule:bll0957 protein;
PDBTitle: crystal structure of class ii aars homologue (bll0957) complexed with2 amp
89c1nj2A_



not modelled 91.4 15 PDB header:ligase
Chain: A: PDB Molecule:proline-trna synthetase;
PDBTitle: crystal structure of prolyl-trna synthetase from methanothermobacter2 thermautotrophicus
90c1asyA_



not modelled 91.1 15 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
91c1b8aB_



not modelled 91.0 15 PDB header:ligase
Chain: B: PDB Molecule:protein (aspartyl-trna synthetase);
PDBTitle: aspartyl-trna synthetase
92c3errB_



not modelled 90.9 11 PDB header:ligase
Chain: B: PDB Molecule:fusion protein of microtubule binding domain from
PDBTitle: microtubule binding domain from mouse cytoplasmic dynein as2 a fusion with seryl-trna synthetase
93c2xgtB_



not modelled 87.2 11 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
94c1h4tD_



not modelled 86.7 12 PDB header:aminoacyl-trna synthetase
Chain: D: PDB Molecule:prolyl-trna synthetase;
PDBTitle: prolyl-trna synthetase from thermus thermophilus complexed2 with l-proline
95d1usya_



not modelled 86.1 4 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
96c3m4qA_



not modelled 83.2 15 PDB header:ligase
Chain: A: PDB Molecule:asparaginyl-trna synthetase, putative;
PDBTitle: entamoeba histolytica asparaginyl-trna synthetase (asnrs)
97d1b76a2



not modelled 82.2 8 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
98c2cj9A_



not modelled 80.3 15 PDB header:ligase
Chain: A: PDB Molecule:seryl-trna synthetase;
PDBTitle: crystal structure of methanosarcina barkeri seryl-trna2 synthetase complexed with an analog of seryladenylate
99c3mpbA_



not modelled 77.6 32 PDB header:isomerase
Chain: A: PDB Molecule:sugar isomerase;
PDBTitle: z5688 from e. coli o157:h7 bound to fructose
100c1ni5A_



not modelled 77.0 19 PDB header:cell cycle
Chain: A: PDB Molecule:putative cell cycle protein mesj;
PDBTitle: structure of the mesj pp-atpase from escherichia coli
101c2l1nA_



not modelled 75.6 25 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: solution nmr structure of the protein yp_399305.1
102c3ialB_



not modelled 74.0 9 PDB header:ligase
Chain: B: PDB Molecule:prolyl-trna synthetase;
PDBTitle: giardia lamblia prolyl-trna synthetase in complex with prolyl-2 adenylate
103c3i7fA_



not modelled 73.8 16 PDB header:ligase
Chain: A: PDB Molecule:aspartyl-trna synthetase;
PDBTitle: aspartyl trna synthetase from entamoeba histolytica
104d1atia2



not modelled 70.2 6 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
105c3kf6A_



not modelled 54.9 19 PDB header:structural protein
Chain: A: PDB Molecule:protein stn1;
PDBTitle: crystal structure of s. pombe stn1-ten1 complex
106c2pmfA_



not modelled 47.0 17 PDB header:ligase
Chain: A: PDB Molecule:glycyl-trna synthetase;
PDBTitle: the crystal structure of a human glycyl-trna synthetase mutant
107d1cg2a1



not modelled 45.9 28 Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:Bacterial dinuclear zinc exopeptidases
108d3d3ra1



not modelled 42.5 15 Fold:OB-fold
Superfamily:HupF/HypC-like
Family:HupF/HypC-like
109d1j99a_



not modelled 40.5 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:PAPS sulfotransferase
110d1sb6a_



not modelled 39.9 32 Fold:Ferredoxin-like
Superfamily:HMA, heavy metal-associated domain
Family:HMA, heavy metal-associated domain
111c1t6sB_



not modelled 39.3 10 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of a conserved hypothetical protein from chlorobium2 tepidum
112d2pjqa1



not modelled 36.9 29 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
113d1ni5a3



not modelled 36.5 18 Fold:PheT/TilS domain
Superfamily:PheT/TilS domain
Family:tRNA-Ile-lysidine synthetase, TilS, C-terminal domain
114d2rcfa1



not modelled 36.4 14 Fold:OB-fold
Superfamily:EutN/CcmL-like
Family:EutN/CcmL-like
115d1t6sa1



not modelled 36.3 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ScpB/YpuH-like
116d1sv6a_



not modelled 36.2 19 Fold:FAH
Superfamily:FAH
Family:FAH
117c3gw7A_



not modelled 35.9 28 PDB header:hydrolase
Chain: A: PDB Molecule:uncharacterized protein yedj;
PDBTitle: crystal structure of a metal-dependent phosphohydrolase2 with conserved hd domain (yedj) from escherichia coli in3 complex with nickel ions. northeast structural genomics4 consortium target er63
118d1whza_



not modelled 35.1 26 Fold:dsRBD-like
Superfamily:YcfA/nrd intein domain
Family:YcfA-like
119c1cg2D_



not modelled 34.6 25 PDB header:metallocarboxypeptidase
Chain: D: PDB Molecule:carboxypeptidase g2;
PDBTitle: carboxypeptidase g2
120c3d3rA_



not modelled 33.9 15 PDB header:chaperone
Chain: A: PDB Molecule:hydrogenase assembly chaperone hypc/hupf;
PDBTitle: crystal structure of the hydrogenase assembly chaperone hypc/hupf2 family protein from shewanella oneidensis mr-1

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