Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP00957
DateThu Jan 5 10:57:20 GMT 2012
Unique Job IDbe922b2a1da9a3c5

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2zzfA_
Top template information
PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of alanyl-trna synthetase without2 oligomerization domain
Confidence and coverage
Confidence:100.0% Coverage: 70%
610 residues ( 70% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
859 residues ( 98%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSKSTAEIRQAFLDFFHSKGHQVVASSSLVPHNDPTLLFTNAGMNQFKDVFLGLDKRNYS
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Disorder  ????


















































????
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   .........70.........80.........90.........100.........110.........120
Sequence  RATTSQRCVRAGGKHNDLENVGYTARHHTFFEMLGNFSFGDYFKHDAIQFAWELLTSEKW
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   .........130.........140.........150.........160.........170.........180
Sequence  FALPKERLWVTVYESDDEAYEIWEKEVGIPRERIIRIGDNKGAPYASDNFWQMGDTGPCG
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   .........190.........200.........210.........220.........230.........240
Sequence  PCTEIFYDHGDHIWGGPPGSPEEDGDRYIEIWNIVFMQFNRQADGTMEPLPKPSVDTGMG
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???????


??

















??????












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   .........250.........260.........270.........280.........290.........300
Sequence  LERIAAVLQHVNSNYDIDLFRTLIQAVAKVTGATDLSNKSLRVIADHIRSCAFLIADGVM
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??
























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   .........310.........320.........330.........340.........350.........360
Sequence  PSNENRGYVLRRIIRRAVRHGNMLGAKETFFYKLVGPLIDVMGSAGEDLKRQQAQVEQVL
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Disorder  ??
?


















?
?

































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   .........370.........380.........390.........400.........410.........420
Sequence  KTEEEQFARTLERGLALLDEELAKLSGDTLDGETAFRLYDTYGFPVDLTADVCRERNIKV
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   .........430.........440.........450.........460.........470.........480
Sequence  DEAGFEAAMEEQRRRAREASGFGADYNAMIRVDSASEFKGYDHLELNGKVTALFVDGKAV
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?
?????????

































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   .........490.........500.........510.........520.........530.........540
Sequence  DAINAGQEAVVVLDQTPFYAESGGQVGDKGELKGANFSFAVEDTQKYGQAIGHIGKLAAG
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?
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   .........550.........560.........570.........580.........590.........600
Sequence  SLKVGDAVQADVDEARRARIRLNHSATHLMHAALRQVLGTHVSQKGSLVNDKVLRFDFSH
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   .........610.........620.........630.........640.........650.........660
Sequence  NEAMKPEEIRAVEDLVNTQIRRNLPIETNIMDLEAAKAKGAMALFGEKYDERVRVLSMGD
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   .........670.........680.........690.........700.........710.........720
Sequence  FSTELCGGTHASRTGDIGLFRIISESGTAAGVRRIEAVTGEGAIATVHADSDRLSEVAHL
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???
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   .........730.........740.........750.........760.........770.........780
Sequence  LKGDSNNLADKVRSVLERTRQLEKELQQLKEQAAAQESANLSSKAIDVNGVKLLVSELSG
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   .........790.........800.........810.........820.........830.........840
Sequence  VEPKMLRTMVDDLKNQLGSTIIVLATVVEGKVSLIAGVSKDVTDRVKAGELIGMVAQQVG
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?
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   .........850.........860.........870......
Sequence  GKGGGRPDMAQAGGTDAAALPAALASVKGWVSAKLQ
Secondary structure 











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Disorder  ????





























??
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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 2zzf chain A

3D model

Region: 2 - 701
Aligned: 610
Modelled: 639
Confidence: 100.0%
Identity: 31%
PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of alanyl-trna synthetase without2 oligomerization domain

Phyre2

PDB 2ztg chain A

3D model

Region: 2 - 702
Aligned: 611
Modelled: 633
Confidence: 100.0%
Identity: 31%
PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase lacking the c-terminal dimerization domain in3 complex with ala-sa

Phyre2

PDB 3hxx chain A

3D model

Region: 2 - 441
Aligned: 440
Modelled: 440
Confidence: 100.0%
Identity: 99%
PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of catalytic fragment of e. coli alars in complex2 with amppcp

Phyre2

PDB 1yfs chain B

3D model

Region: 2 - 465
Aligned: 442
Modelled: 463
Confidence: 100.0%
Identity: 55%
PDB header:ligase
Chain: B: PDB Molecule:alanyl-trna synthetase;
PDBTitle: the crystal structure of alanyl-trna synthetase in complex2 with l-alanine

Phyre2

PDB 1riq chain A domain 2

3D model

Region: 2 - 255
Aligned: 236
Modelled: 252
Confidence: 100.0%
Identity: 64%
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 1j5w chain A

3D model

Region: 6 - 326
Aligned: 235
Modelled: 259
Confidence: 100.0%
Identity: 23%
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 3rf1 chain B

3D model

Region: 64 - 323
Aligned: 219
Modelled: 236
Confidence: 100.0%
Identity: 23%
PDB header:ligase
Chain: B: PDB Molecule:glycyl-trna synthetase alpha subunit;
PDBTitle: the crystal structure of glycyl-trna synthetase subunit alpha from2 campylobacter jejuni subsp. jejuni nctc 11168

Phyre2

PDB 1riq chain A domain 1

3D model

Region: 256 - 464
Aligned: 205
Modelled: 209
Confidence: 100.0%
Identity: 41%
Fold: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
Superfamily: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
Family: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)

Phyre2

PDB 3kew chain A

3D model

Region: 478 - 704
Aligned: 214
Modelled: 227
Confidence: 100.0%
Identity: 24%
PDB header:transferase
Chain: A: PDB Molecule:dhha1 domain protein;
PDBTitle: crystal structure of probable alanyl-trna-synthase from clostridium2 perfringens

Phyre2

PDB 2e1b chain A

3D model

Region: 454 - 697
Aligned: 206
Modelled: 212
Confidence: 100.0%
Identity: 30%
PDB header:ligase, hydrolase
Chain: A: PDB Molecule:216aa long hypothetical alanyl-trna synthetase;
PDBTitle: crystal structure of the alax-m trans-editing enzyme from2 pyrococcus horikoshii

Phyre2

PDB 2e1b chain A domain 2

3D model

Region: 553 - 698
Aligned: 126
Modelled: 127
Confidence: 100.0%
Identity: 25%
Fold: RRF/tRNA synthetase additional domain-like
Superfamily: ThrRS/AlaRS common domain
Family: AlaX-like

Phyre2

PDB 1v4p chain A

3D model

Region: 560 - 697
Aligned: 138
Modelled: 138
Confidence: 100.0%
Identity: 25%
Fold: RRF/tRNA synthetase additional domain-like
Superfamily: ThrRS/AlaRS common domain
Family: AlaX-like

Phyre2

PDB 2zvf chain G

3D model

Region: 700 - 875
Aligned: 169
Modelled: 176
Confidence: 99.9%
Identity: 23%
PDB header:ligase
Chain: G: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase c-terminal dimerization domain

Phyre2

PDB 1nyr chain A domain 3

3D model

Region: 559 - 719
Aligned: 159
Modelled: 161
Confidence: 99.9%
Identity: 24%
Fold: RRF/tRNA synthetase additional domain-like
Superfamily: ThrRS/AlaRS common domain
Family: Threonyl-tRNA synthetase (ThrRS), second 'additional' domain

Phyre2

PDB 1nyq chain A

3D model

Region: 524 - 716
Aligned: 187
Modelled: 192
Confidence: 99.9%
Identity: 22%
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

Phyre2

PDB 1tke chain A domain 2

3D model

Region: 553 - 699
Aligned: 143
Modelled: 147
Confidence: 99.9%
Identity: 20%
Fold: RRF/tRNA synthetase additional domain-like
Superfamily: ThrRS/AlaRS common domain
Family: Threonyl-tRNA synthetase (ThrRS), second 'additional' domain

Phyre2

PDB 1tke chain A

3D model

Region: 524 - 699
Aligned: 170
Modelled: 176
Confidence: 99.9%
Identity: 15%
PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase complexed with serine

Phyre2

PDB 1qf6 chain A

3D model

Region: 491 - 716
Aligned: 217
Modelled: 225
Confidence: 99.9%
Identity: 15%
PDB header:ligase/rna
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: structure of e. coli threonyl-trna synthetase complexed with its2 cognate trna

Phyre2

PDB 3g98 chain B

3D model

Region: 764 - 872
Aligned: 109
Modelled: 109
Confidence: 99.8%
Identity: 33%
PDB header:ligase
Chain: B: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of the c-ala domain from aquifex aeolicus2 alanyl-trna synthetase

Phyre2

PDB 2e1b chain A domain 1

3D model

Region: 454 - 552
Aligned: 81
Modelled: 86
Confidence: 99.5%
Identity: 33%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Translation proteins
Family: AlaX-M N-terminal domain-like

Phyre2
1

c2zzfA_
2

c2ztgA_
3

c3hxxA_
4

c1yfsB_
5

d1riqa2
6

d1j5wa_
7

c3rf1B_
8

d1riqa1
9

c3kewA_
10

c2e1bA_
11

d2e1ba2
12

d1v4pa_
13

c2zvfG_
14

d1nyra3
15

c1nyqA_
16

d1tkea2
17

c1tkeA_
18

c1qf6A_
19

c3g98B_
20

d2e1ba1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2zzfA_



100.0 31 PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of alanyl-trna synthetase without2 oligomerization domain
2c2ztgA_



100.0 31 PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase lacking the c-terminal dimerization domain in3 complex with ala-sa
3c3hxxA_



100.0 99 PDB header:ligase
Chain: A: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of catalytic fragment of e. coli alars in complex2 with amppcp
4c1yfsB_



100.0 55 PDB header:ligase
Chain: B: PDB Molecule:alanyl-trna synthetase;
PDBTitle: the crystal structure of alanyl-trna synthetase in complex2 with l-alanine
5d1riqa2



100.0 64 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
6d1j5wa_



100.0 23 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
7c3rf1B_



100.0 23 PDB header:ligase
Chain: B: PDB Molecule:glycyl-trna synthetase alpha subunit;
PDBTitle: the crystal structure of glycyl-trna synthetase subunit alpha from2 campylobacter jejuni subsp. jejuni nctc 11168
8d1riqa1



100.0 41 Fold:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
Superfamily:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
Family:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)
9c3kewA_



100.0 24 PDB header:transferase
Chain: A: PDB Molecule:dhha1 domain protein;
PDBTitle: crystal structure of probable alanyl-trna-synthase from clostridium2 perfringens
10c2e1bA_



100.0 30 PDB header:ligase, hydrolase
Chain: A: PDB Molecule:216aa long hypothetical alanyl-trna synthetase;
PDBTitle: crystal structure of the alax-m trans-editing enzyme from2 pyrococcus horikoshii
11d2e1ba2



100.0 25 Fold:RRF/tRNA synthetase additional domain-like
Superfamily:ThrRS/AlaRS common domain
Family:AlaX-like
12d1v4pa_



100.0 25 Fold:RRF/tRNA synthetase additional domain-like
Superfamily:ThrRS/AlaRS common domain
Family:AlaX-like
13c2zvfG_



99.9 23 PDB header:ligase
Chain: G: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase c-terminal dimerization domain
14d1nyra3



99.9 24 Fold:RRF/tRNA synthetase additional domain-like
Superfamily:ThrRS/AlaRS common domain
Family:Threonyl-tRNA synthetase (ThrRS), second 'additional' domain
15c1nyqA_



99.9 22 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
16d1tkea2



99.9 20 Fold:RRF/tRNA synthetase additional domain-like
Superfamily:ThrRS/AlaRS common domain
Family:Threonyl-tRNA synthetase (ThrRS), second 'additional' domain
17c1tkeA_



99.9 15 PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase complexed with serine
18c1qf6A_



99.9 15 PDB header:ligase/rna
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: structure of e. coli threonyl-trna synthetase complexed with its2 cognate trna
19c3g98B_



99.8 33 PDB header:ligase
Chain: B: PDB Molecule:alanyl-trna synthetase;
PDBTitle: crystal structure of the c-ala domain from aquifex aeolicus2 alanyl-trna synthetase
20d2e1ba1



99.5 33 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Translation proteins
Family:AlaX-M N-terminal domain-like
21c1ir6A_



not modelled 95.4 18 PDB header:hydrolase
Chain: A: PDB Molecule:exonuclease recj;
PDBTitle: crystal structure of exonuclease recj bound to manganese
22d1ir6a_



not modelled 95.4 18 Fold:DHH phosphoesterases
Superfamily:DHH phosphoesterases
Family:Exonuclease RecJ
23d1h4vb2



not modelled 90.4 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
24c2rhqA_



not modelled 86.1 17 PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase alpha chain;
PDBTitle: phers from staphylococcus haemolyticus- rational protein2 engineering and inhibitor studies
25c3devB_



not modelled 85.3 11 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:sh1221;
PDBTitle: crystal structure of sh1221 protein from staphylococcus haemolyticus,2 northeast structural genomics consortium target shr87
26c2znjB_



not modelled 84.8 19 PDB header:ligase
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of pyrrolysyl-trna synthetase from2 desulfitobacterium hafniense
27c2zxrA_



not modelled 83.2 20 PDB header:hydrolase
Chain: A: PDB Molecule:single-stranded dna specific exonuclease recj;
PDBTitle: crystal structure of recj in complex with mg2+ from thermus2 thermophilus hb8
28c3pcoC_



not modelled 78.0 18 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
29c1z7nB_



not modelled 75.0 18 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
30c1b70A_



not modelled 74.7 29 PDB header:ligase
Chain: A: PDB Molecule:phenylalanyl-trna synthetase;
PDBTitle: phenylalanyl trna synthetase complexed with phenylalanine
31d1jjca_



not modelled 73.6 29 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
32c3l4gI_



not modelled 72.9 22 PDB header:ligase
Chain: I: PDB Molecule:phenylalanyl-trna synthetase alpha chain;
PDBTitle: crystal structure of homo sapiens cytoplasmic phenylalanyl-trna2 synthetase
33d1c0aa3



not modelled 72.8 26 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
34c1e22A_



not modelled 72.4 30 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
35d1eova2



not modelled 71.9 30 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
36c3t5sA_



not modelled 71.5 21 PDB header:immune system
Chain: A: PDB Molecule:macrophage migration inhibitory factor;
PDBTitle: structure of macrophage migration inhibitory factor from giardia2 lamblia
37d1l0wa3



not modelled 70.5 27 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
38c1efwA_



not modelled 69.5 26 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
39c2kw7A_



not modelled 69.4 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved domain protein;
PDBTitle: solution nmr structure of the n-terminal domain of protein pg_03612 from p.gingivalis, northeast structural genomics consortium target3 pgr37a
40c2du7C_



not modelled 69.1 29 PDB header:ligase
Chain: C: PDB Molecule:o-phosphoseryl-trna synthetase;
PDBTitle: crystal structure of methanococcus jannacshii o-phosphoseryl-trna2 synthetase
41c3g1zB_



not modelled 67.4 18 PDB header:ligase
Chain: B: PDB Molecule:putative lysyl-trna synthetase;
PDBTitle: structure of idp01693/yjea, a potential t-rna synthetase from2 salmonella typhimurium
42c3bjuB_



not modelled 67.1 39 PDB header:ligase
Chain: B: PDB Molecule:lysyl-trna synthetase;
PDBTitle: crystal structure of tetrameric form of human lysyl-trna2 synthetase
43c1n9wA_



not modelled 66.5 22 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
44d1nj8a3



not modelled 66.3 20 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
45c1eqrC_



not modelled 65.6 26 PDB header:ligase
Chain: C: PDB Molecule:aspartyl-trna synthetase;
PDBTitle: crystal structure of free aspartyl-trna synthetase from2 escherichia coli
46d1qf6a4



not modelled 64.6 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
47c3rrkA_



not modelled 63.7 15 PDB header:proton transport
Chain: A: PDB Molecule:v-type atpase 116 kda subunit;
PDBTitle: crystal structure of the cytoplasmic n-terminal domain of subunit i,2 homolog of subunit a, of v-atpase
48c1asyA_



not modelled 63.0 30 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
49d1b8aa2



not modelled 63.0 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
50c1wydB_



not modelled 62.9 39 PDB header:ligase
Chain: B: PDB Molecule:hypothetical aspartyl-trna synthetase;
PDBTitle: crystal structure of aspartyl-trna synthetase from sulfolobus tokodaii
51c3e9hB_



not modelled 62.8 33 PDB header:ligase
Chain: B: PDB Molecule:lysyl-trna synthetase;
PDBTitle: lysyl-trna synthetase from bacillus stearothermophilus2 complexed with l-lysylsulfamoyl adenosine
52c2zimA_



not modelled 62.8 21 PDB header:ligase
Chain: A: PDB Molecule:pyrrolysyl-trna synthetase;
PDBTitle: pyrrolysyl-trna synthetase bound to adenylated pyrrolysine and2 pyrophosphate
53c1b8aB_



not modelled 62.7 27 PDB header:ligase
Chain: B: PDB Molecule:protein (aspartyl-trna synthetase);
PDBTitle: aspartyl-trna synthetase
54c3fwtA_



not modelled 62.3 24 PDB header:cytokine
Chain: A: PDB Molecule:macrophage migration inhibitory factor-like
PDBTitle: crystal structure of leishmania major mif2
55c3dmaA_



not modelled 61.6 9 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:exopolyphosphatase-related protein;
PDBTitle: crystal structure of an exopolyphosphatase-related protein2 from bacteroides fragilis. northeast structural genomics3 target bfr192
56c2xczA_



not modelled 61.2 10 PDB header:immune system
Chain: A: PDB Molecule:possible atls1-like light-inducible protein;
PDBTitle: crystal structure of macrophage migration inhibitory factor2 homologue from prochlorococcus marinus
57c3m4qA_



not modelled 60.8 26 PDB header:ligase
Chain: A: PDB Molecule:asparaginyl-trna synthetase, putative;
PDBTitle: entamoeba histolytica asparaginyl-trna synthetase (asnrs)
58d1dpta_



not modelled 60.6 24 Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:MIF-related
59d1nnha_



not modelled 60.4 27 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
60c1x55A_



not modelled 60.3 30 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
61d1hfoa_



not modelled 60.3 15 Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:MIF-related
62d1n9wa2



not modelled 60.1 21 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
63c3b64A_



not modelled 59.9 14 PDB header:cytokine
Chain: A: PDB Molecule:macrophage migration inhibitory factor-like
PDBTitle: macrophage migration inhibitory factor (mif) from2 /leishmania major
64d1uiza_



not modelled 59.9 21 Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:MIF-related
65c2os5C_



not modelled 57.7 17 PDB header:cytokine
Chain: C: PDB Molecule:acemif;
PDBTitle: macrophage migration inhibitory factor from ancylostoma ceylanicum
66c3i7fA_



not modelled 57.0 32 PDB header:ligase
Chain: A: PDB Molecule:aspartyl-trna synthetase;
PDBTitle: aspartyl trna synthetase from entamoeba histolytica
67c2xgtB_



not modelled 56.8 36 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
68c2du4B_



not modelled 56.2 38 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
69d2gdga1



not modelled 55.8 15 Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:MIF-related
70d1gd0a_



not modelled 55.5 12 Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:MIF-related
71c3gacD_



not modelled 52.6 10 PDB header:cytokine
Chain: D: PDB Molecule:macrophage migration inhibitory factor-like
PDBTitle: structure of mif with hpp
72d1bbua2



not modelled 52.1 23 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
73d1e2wa2



not modelled 51.6 20 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
74c2i7uA_



not modelled 50.8 24 PDB header:de novo protein/ligand binding protein
Chain: A: PDB Molecule:four-alpha-helix bundle;
PDBTitle: structural and dynamical analysis of a four-alpha-helix2 bundle with designed anesthetic binding pockets
75d2di4a1



not modelled 49.6 19 Fold:FtsH protease domain-like
Superfamily:FtsH protease domain-like
Family:FtsH protease domain-like
76d1wu7a2



not modelled 49.5 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
77d1fima_



not modelled 48.8 17 Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:MIF-related
78d1hnja2



not modelled 46.4 16 Fold:Thiolase-like
Superfamily:Thiolase-like
Family:Chalcone synthase-like
79d1u6ea2



not modelled 44.8 9 Fold:Thiolase-like
Superfamily:Thiolase-like
Family:Chalcone synthase-like
80d1jt6a1



not modelled 44.2 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
81c2di4B_



not modelled 43.7 18 PDB header:hydrolase
Chain: B: PDB Molecule:cell division protein ftsh homolog;
PDBTitle: crystal structure of the ftsh protease domain
82d1ub7a2



not modelled 42.1 19 Fold:Thiolase-like
Superfamily:Thiolase-like
Family:Chalcone synthase-like
83d1e1oa2



not modelled 41.7 25 Fold:Class II aaRS and biotin synthetases
Superfamily:Class II aaRS and biotin synthetases
Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
84d1u9pa1



not modelled 39.8 25 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
85c1i5pA_



not modelled 39.0 12 PDB header:toxin
Chain: A: PDB Molecule:pesticidial crystal protein cry2aa;
PDBTitle: insecticidal crystal protein cry2aa
86c3mf2B_



not modelled 38.3 13 PDB header:ligase
Chain: B: PDB Molecule:bll0957 protein;
PDBTitle: crystal structure of class ii aars homologue (bll0957) complexed with2 amp
87d1tvca2



not modelled 38.2 29 Fold:Ferredoxin reductase-like, C-terminal NADP-linked domain
Superfamily:Ferredoxin reductase-like, C-terminal NADP-linked domain
Family:Aromatic dioxygenase reductase-like
88c1rb6C_



not modelled 37.0 37 PDB header:dna binding protein
Chain: C: PDB Molecule:general control protein gcn4;
PDBTitle: antiparallel trimer of gcn4-leucine zipper core mutant as2 n16a tetragonal form
89c1swiA_



not modelled 37.0 37 PDB header:leucine zipper
Chain: A: PDB Molecule:gcn4p1;
PDBTitle: gcn4-leucine zipper core mutant as n16a complexed with2 benzene
90c3gwaA_



not modelled 36.7 19 PDB header:transferase
Chain: A: PDB Molecule:3-oxoacyl-(acyl-carrier-protein) synthase iii;
PDBTitle: 1.6 angstrom crystal structure of 3-oxoacyl-(acyl-carrier-protein)2 synthase iii
91c1ij3B_



not modelled 36.7 37 PDB header:transcription
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position
92c1ij2C_



not modelled 36.3 38 PDB header:transcription
Chain: C: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position
93c1rb1A_



not modelled 36.2 34 PDB header:dna binding protein
Chain: A: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
94c3k7zB_



not modelled 36.2 34 PDB header:dna binding protein
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
95c1rb1B_



not modelled 36.2 34 PDB header:dna binding protein
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
96c3k7zA_



not modelled 36.2 34 PDB header:dna binding protein
Chain: A: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
97c2o7hF_



not modelled 35.9 30 PDB header:transcription
Chain: F: PDB Molecule:general control protein gcn4;
PDBTitle: crystal structure of trimeric coiled coil gcn4 leucine zipper
98c1ij3C_



not modelled 35.8 34 PDB header:transcription
Chain: C: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position
99d1myka_



not modelled 35.3 25 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
100d1baza_



not modelled 34.5 25 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
101c3izbO_



not modelled 34.2 8 PDB header:ribosome
Chain: O: PDB Molecule:40s ribosomal protein rps13 (s15p);
PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
102d1vp7a_



not modelled 34.0 26 Fold:Spectrin repeat-like
Superfamily:XseB-like
Family:XseB-like
103d1j98a_



not modelled 34.0 13 Fold:LuxS/MPP-like metallohydrolase
Superfamily:LuxS/MPP-like metallohydrolase
Family:Autoinducer-2 production protein LuxS
104c1ij2B_



not modelled 33.7 38 PDB header:transcription
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position
105d2oa5a1



not modelled 33.7 9 Fold:BLRF2-like
Superfamily:BLRF2-like
Family:BLRF2-like
106c2zc2A_



not modelled 33.4 22 PDB header:replication
Chain: A: PDB Molecule:dnad-like replication protein;
PDBTitle: crystal structure of dnad-like replication protein from2 streptococcus mutans ua159, gi 24377835, residues 127-199
107d2i09a2



not modelled 33.2 25 Fold:DeoB insert domain-like
Superfamily:DeoB insert domain-like
Family:DeoB insert domain-like
108d1bdta_



not modelled 33.1 25 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
109d1z7ma1



not modelled 32.2 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
110d1ljma_



not modelled 32.2 41 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily:p53-like transcription factors
Family:RUNT domain
111d1eaqa_



not modelled 31.8 41 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily:p53-like transcription factors
Family:RUNT domain
112d1wlza1



not modelled 31.4 13 Fold:EF Hand-like
Superfamily:EF-hand
Family:EF-hand modules in multidomain proteins
113d1mylb_



not modelled 31.3 28 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
114d1zunb1



not modelled 31.2 26 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Translation proteins
Family:Elongation factors
115d1myla_



not modelled 30.0 25 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
116c1emzA_



not modelled 29.7 44 PDB header:viral protein
Chain: A: PDB Molecule:envelope glycoprotein e1;
PDBTitle: solution structure of fragment (350-370) of the2 transmembrane domain of hepatitis c envelope glycoprotein3 e1
117c1wlzD_



not modelled 29.6 12 PDB header:unknown function
Chain: D: PDB Molecule:cap-binding protein complex interacting protein
PDBTitle: crystal structure of djbp fragment which was obtained by2 limited proteolysis
118c2qnxA_



not modelled 29.5 13 PDB header:transferase
Chain: A: PDB Molecule:3-oxoacyl-[acyl-carrier-protein] synthase 3;
PDBTitle: crystal structure of the complex between the mycobacterium beta-2 ketoacyl-acyl carrier protein synthase iii (fabh) and 11-3 [(decyloxycarbonyl)dithio]-undecanoic acid
119c3couA_



not modelled 28.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:nucleoside diphosphate-linked moiety x motif 16;
PDBTitle: crystal structure of human nudix motif 16 (nudt16)
120c2w83C_



not modelled 28.1 21 PDB header:protein transport
Chain: C: PDB Molecule:c-jun-amino-terminal kinase-interacting protein
PDBTitle: crystal structure of the arf6 gtpase in complex with a2 specific effector, jip4

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