Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP30870
DateThu Jan 5 11:46:43 GMT 2012
Unique Job IDf5ee813292741547

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3k7dA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:glutamate-ammonia-ligase adenylyltransferase;
PDBTitle: c-terminal (adenylylation) domain of e.coli glutamine synthetase2 adenylyltransferase
Confidence and coverage
Confidence:100.0% Coverage: 53%
497 residues ( 53% 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.
913 residues ( 97%) 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  MKPLSSPLQQYWQTVVERLPEPLAEESLSAQAKSVLTFSDFVQDSVIAHPEWLTELESQP
Secondary structure 
SS confidence 
Disorder  ?????
??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  PQADEWQHYAAWLQEALCNVSDEAGLMRELRLFRRRIMVRIAWAQTLALVTEESILQQLS
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  YLAETLIVAARDWLYDACCREWGTPCNAQGEAQPLLILGMGKLGGGELNFSSDIDLIFAW
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  PEHGCTQGGRRELDNAQFFTRMGQRLIKVLDQPTQDGFVYRVDMRLRPFGESGPLVLSFA
Secondary structure 
SS confidence 
Disorder 
?????????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  ALEDYYQEQGRDWERYAMVKARIMGDSEGVYANELRAMLRPFVFRRYIDFSVIQSLRNMK
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  GMIAREVRRRGLTDNIKLGAGGIREIEFIVQVFQLIRGGREPSLQSRSLLPTLSAIAELH
Secondary structure 
SS confidence 
Disorder 
?????????????
?
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  LLSENDAEQLRVAYLFLRRLENLLQSINDEQTQTLPSDELNRARLAWAMDFADWPQLTGA
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  LTAHMTNVRRVFNELIGDDESETQEESLSEQWRELWQDALQEDDTTPVLAHLSEDDRKQV
Secondary structure 
SS confidence 
Disorder 
????
????
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  LTLIADFRKELDKRTIGPRGRQVLDHLMPHLLSDVCAREDAAVTLSRITALLVGIVTRTT
Secondary structure 
SS confidence 
Disorder 
???????
??
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  YLELLSEFPAALKHLISLCAASPMIASQLARYPLLLDELLDPNTLYQPTATDAYRDELRQ
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  YLLRVPEDDEEQQLEALRQFKQAQLLRIAAADIAGTLPVMKVSDHLTWLAEAMIDAVVQQ
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  AWVQMVARYGKPNHLNEREGRGFAVVGYGKLGGWELGYSSDLDLIFLHDCPMDAMTDGER
Secondary structure 
SS confidence 
Disorder 
??????
?
?????????
Disorder confidence 
 
   .........730.........740.........750.........760.........770.........780
Sequence  EIDGRQFYLRLAQRIMHLFSTRTSSGILYEVDARLRPSGAAGMLVTSAEAFADYQKNEAW
Secondary structure 
SS confidence 
Disorder  ?
?
Disorder confidence 
 
   .........790.........800.........810.........820.........830.........840
Sequence  TWEHQALVRARVVYGDPQLTAHFDAVRREIMTLPREGKTLQTEVREMREKMRAHLGNKHR
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........850.........860.........870.........880.........890.........900
Sequence  DRFDIKADEGGITDIEFITQYLVLRYAHEKPKLTRWSDNVRILELLAQNDIMEEQEAMAL
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 
   .........910.........920.........930.........940......
Sequence  TRAYTTLRDELHHLALQELPGHVSEDCFTAERELVRASWQKWLVEE
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 3k7d chain A

3D model

Region: 449 - 945
Aligned: 497
Modelled: 497
Confidence: 100.0%
Identity: 100%
PDB header:transferase
Chain: A: PDB Molecule:glutamate-ammonia-ligase adenylyltransferase;
PDBTitle: c-terminal (adenylylation) domain of e.coli glutamine synthetase2 adenylyltransferase

Phyre2

PDB 1v4a chain A

3D model

Region: 1 - 437
Aligned: 429
Modelled: 435
Confidence: 100.0%
Identity: 97%
PDB header:transferase
Chain: A: PDB Molecule:glutamate-ammonia-ligase adenylyltransferase;
PDBTitle: structure of the n-terminal domain of escherichia coli2 glutamine synthetase adenylyltransferase

Phyre2

PDB 1v4a chain A domain 2

3D model

Region: 2 - 286
Aligned: 277
Modelled: 285
Confidence: 100.0%
Identity: 97%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: GlnE-like domain

Phyre2

PDB 1v4a chain A domain 1

3D model

Region: 287 - 437
Aligned: 151
Modelled: 151
Confidence: 100.0%
Identity: 97%
Fold: Four-helical up-and-down bundle
Superfamily: Nucleotidyltransferase substrate binding subunit/domain
Family: Glutamine synthase adenylyltransferase GlnE, domain 2

Phyre2

PDB 1kny chain A domain 2

3D model

Region: 656 - 714
Aligned: 50
Modelled: 59
Confidence: 95.7%
Identity: 22%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Kanamycin nucleotidyltransferase (KNTase), N-terminal domain

Phyre2

PDB 1kny chain A

3D model

Region: 656 - 715
Aligned: 51
Modelled: 60
Confidence: 95.0%
Identity: 22%
PDB header:transferase
Chain: A: PDB Molecule:kanamycin nucleotidyltransferase;
PDBTitle: kanamycin nucleotidyltransferase

Phyre2

PDB 2rff chain A

3D model

Region: 152 - 187
Aligned: 36
Modelled: 34
Confidence: 93.7%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:putative nucleotidyltransferase;
PDBTitle: crystal structure of a putative nucleotidyltransferase2 (np_343093.1) from sulfolobus solfataricus at 1.40 a3 resolution

Phyre2

PDB 1no5 chain A

3D model

Region: 157 - 183
Aligned: 27
Modelled: 27
Confidence: 91.0%
Identity: 26%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Catalytic subunit of bi-partite nucleotidyltransferase

Phyre2

PDB 1wot chain A

3D model

Region: 157 - 185
Aligned: 29
Modelled: 29
Confidence: 89.1%
Identity: 31%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Catalytic subunit of bi-partite nucleotidyltransferase

Phyre2

PDB 3c66 chain B

3D model

Region: 93 - 206
Aligned: 102
Modelled: 105
Confidence: 87.3%
Identity: 15%
PDB header:transferase
Chain: B: PDB Molecule:poly(a) polymerase;
PDBTitle: yeast poly(a) polymerase in complex with fip1 residues 80-105

Phyre2

PDB 1q78 chain A

3D model

Region: 654 - 737
Aligned: 72
Modelled: 84
Confidence: 86.5%
Identity: 14%
PDB header:transferase
Chain: A: PDB Molecule:poly(a) polymerase alpha;
PDBTitle: crystal structure of poly(a) polymerase in complex with 3'-2 datp and magnesium chloride

Phyre2

PDB 1ylq chain A domain 1

3D model

Region: 157 - 182
Aligned: 26
Modelled: 26
Confidence: 85.1%
Identity: 27%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Catalytic subunit of bi-partite nucleotidyltransferase

Phyre2

PDB 3jz0 chain B

3D model

Region: 651 - 711
Aligned: 46
Modelled: 46
Confidence: 76.8%
Identity: 20%
PDB header:transferase/antibiotic
Chain: B: PDB Molecule:lincosamide nucleotidyltransferase;
PDBTitle: linb complexed with clindamycin and ampcpp

Phyre2

PDB 3o7k chain A

3D model

Region: 550 - 690
Aligned: 84
Modelled: 95
Confidence: 69.4%
Identity: 21%
PDB header:lyase
Chain: A: PDB Molecule:ohcu decarboxylase;
PDBTitle: crystal structure of 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline2 decarboxylase from klebsiella pneumoniae

Phyre2

PDB 1q79 chain A domain 2

3D model

Region: 654 - 735
Aligned: 70
Modelled: 82
Confidence: 66.9%
Identity: 14%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Poly(A) polymerase, PAP, N-terminal domain

Phyre2

PDB 1kdh chain A

3D model

Region: 103 - 215
Aligned: 79
Modelled: 91
Confidence: 60.8%
Identity: 13%
PDB header:transferase/dna
Chain: A: PDB Molecule:terminal deoxynucleotidyltransferase short
PDBTitle: binary complex of murine terminal deoxynucleotidyl2 transferase with a primer single stranded dna

Phyre2

PDB 2o70 chain A domain 1

3D model

Region: 550 - 690
Aligned: 109
Modelled: 141
Confidence: 57.8%
Identity: 18%
Fold: UraD-like
Superfamily: UraD-Like
Family: UraD-like

Phyre2

PDB 2q66 chain A domain 2

3D model

Region: 619 - 737
Aligned: 105
Modelled: 119
Confidence: 57.2%
Identity: 12%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: Poly(A) polymerase, PAP, N-terminal domain

Phyre2

PDB 3hvz chain B

3D model

Region: 175 - 236
Aligned: 58
Modelled: 62
Confidence: 55.9%
Identity: 12%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the tgs domain of the clolep_03100 protein from2 clostridium leptum, northeast structural genomics consortium target3 qlr13a

Phyre2

PDB 1sz1 chain A

3D model

Region: 157 - 210
Aligned: 44
Modelled: 54
Confidence: 54.5%
Identity: 20%
PDB header:transferase/rna
Chain: A: PDB Molecule:trna nucleotidyltransferase;
PDBTitle: mechanism of cca-adding enzymes specificity revealed by crystal2 structures of ternary complexes

Phyre2
1
c3k7dA_
2
c1v4aA_
3
d1v4aa2
4
d1v4aa1
5
d1knya2
6
c1knyA_
7
c2rffA_
8
d1no5a_
9
d1wota_
10
c3c66B_
11
c1q78A_
12
d1ylqa1
13
c3jz0B_
14
c3o7kA_
15
d1q79a2
16
c1kdhA_
17
d2o70a1
18
d2q66a2
19
c3hvzB_
20
c1sz1A_
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
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80
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84
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3k7dA_
100.0 100 PDB header:transferase
Chain: A: PDB Molecule:glutamate-ammonia-ligase adenylyltransferase;
PDBTitle: c-terminal (adenylylation) domain of e.coli glutamine synthetase2 adenylyltransferase
2c1v4aA_
100.0 97 PDB header:transferase
Chain: A: PDB Molecule:glutamate-ammonia-ligase adenylyltransferase;
PDBTitle: structure of the n-terminal domain of escherichia coli2 glutamine synthetase adenylyltransferase
3d1v4aa2
100.0 97 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:GlnE-like domain
4d1v4aa1
100.0 97 Fold:Four-helical up-and-down bundle
Superfamily:Nucleotidyltransferase substrate binding subunit/domain
Family:Glutamine synthase adenylyltransferase GlnE, domain 2
5d1knya2
95.7 22 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Kanamycin nucleotidyltransferase (KNTase), N-terminal domain
6c1knyA_
95.0 22 PDB header:transferase
Chain: A: PDB Molecule:kanamycin nucleotidyltransferase;
PDBTitle: kanamycin nucleotidyltransferase
7c2rffA_
93.7 19 PDB header:transferase
Chain: A: PDB Molecule:putative nucleotidyltransferase;
PDBTitle: crystal structure of a putative nucleotidyltransferase2 (np_343093.1) from sulfolobus solfataricus at 1.40 a3 resolution
8d1no5a_
91.0 26 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Catalytic subunit of bi-partite nucleotidyltransferase
9d1wota_
89.1 31 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Catalytic subunit of bi-partite nucleotidyltransferase
10c3c66B_
87.3 15 PDB header:transferase
Chain: B: PDB Molecule:poly(a) polymerase;
PDBTitle: yeast poly(a) polymerase in complex with fip1 residues 80-105
11c1q78A_
86.5 14 PDB header:transferase
Chain: A: PDB Molecule:poly(a) polymerase alpha;
PDBTitle: crystal structure of poly(a) polymerase in complex with 3'-2 datp and magnesium chloride
12d1ylqa1
85.1 27 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Catalytic subunit of bi-partite nucleotidyltransferase
13c3jz0B_
76.8 20 PDB header:transferase/antibiotic
Chain: B: PDB Molecule:lincosamide nucleotidyltransferase;
PDBTitle: linb complexed with clindamycin and ampcpp
14c3o7kA_
69.4 21 PDB header:lyase
Chain: A: PDB Molecule:ohcu decarboxylase;
PDBTitle: crystal structure of 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline2 decarboxylase from klebsiella pneumoniae
15d1q79a2
66.9 14 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Poly(A) polymerase, PAP, N-terminal domain
16c1kdhA_
60.8 13 PDB header:transferase/dna
Chain: A: PDB Molecule:terminal deoxynucleotidyltransferase short
PDBTitle: binary complex of murine terminal deoxynucleotidyl2 transferase with a primer single stranded dna
17d2o70a1
57.8 18 Fold:UraD-like
Superfamily:UraD-Like
Family:UraD-like
18d2q66a2
57.2 12 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Poly(A) polymerase, PAP, N-terminal domain
19c3hvzB_
55.9 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the tgs domain of the clolep_03100 protein from2 clostridium leptum, northeast structural genomics consortium target3 qlr13a
20c1sz1A_
54.5 20 PDB header:transferase/rna
Chain: A: PDB Molecule:trna nucleotidyltransferase;
PDBTitle: mechanism of cca-adding enzymes specificity revealed by crystal2 structures of ternary complexes
21d1r89a2
not modelled 49.5 18 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:Archaeal tRNA CCA-adding enzyme catalytic domain
22d2fmpa3
not modelled 47.1 10 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:DNA polymerase beta-like
23d1d5ya2
not modelled 47.1 23 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
24c3r66A_
not modelled 44.0 13 PDB header:viral protein/antiviral protein
Chain: A: PDB Molecule:non-structural protein 1;
PDBTitle: crystal structure of human isg15 in complex with ns1 n-terminal region2 from influenza virus b, northeast structural genomics consortium3 target ids hx6481, hr2873, and or2
25d2bcqa3
not modelled 43.9 17 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:DNA polymerase beta-like
26d2vana2
not modelled 42.0 13 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:DNA polymerase beta-like
27d1xeqa1
not modelled 39.7 13 Fold:S15/NS1 RNA-binding domain
Superfamily:S15/NS1 RNA-binding domain
Family:N-terminal, RNA-binding domain of nonstructural protein NS1
28d1jqra_
not modelled 39.6 33 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:DNA polymerase beta-like
29c2kmmA_
not modelled 36.4 13 PDB header:hydrolase
Chain: A: PDB Molecule:guanosine-3',5'-bis(diphosphate) 3'-
PDBTitle: solution nmr structure of the tgs domain of pg1808 from2 porphyromonas gingivalis. northeast structural genomics3 consortium target pgr122a (418-481)
30d1bl0a2
not modelled 34.8 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:AraC type transcriptional activator
31d1phna_
not modelled 33.1 16 Fold:Globin-like
Superfamily:Globin-like
Family:Phycocyanin-like phycobilisome proteins
32c2q0dA_
not modelled 30.9 15 PDB header:transferase
Chain: A: PDB Molecule:rna uridylyl transferase;
PDBTitle: terminal uridylyl transferase 4 from trypanosoma brucei2 with bound atp
33d1jmsa4
not modelled 29.8 14 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:DNA polymerase beta-like
34c3ng3A_
not modelled 29.5 25 PDB header:lyase
Chain: A: PDB Molecule:deoxyribose-phosphate aldolase;
PDBTitle: crystal structure of deoxyribose phosphate aldolase from mycobacterium2 avium 104 in a schiff base with an unknown aldehyde
35d1vi7a1
not modelled 28.1 35 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:YigZ N-terminal domain-like
36c2dt5A_
not modelled 25.2 28 PDB header:dna binding protein
Chain: A: PDB Molecule:at-rich dna-binding protein;
PDBTitle: crystal structure of ttha1657 (at-rich dna-binding protein) from2 thermus thermophilus hb8
37c1nomA_
not modelled 24.6 14 PDB header:nucleotidyltransferase
Chain: A: PDB Molecule:dna polymerase beta;
PDBTitle: dna polymerase beta (pol b) (e.c.2.7.7.7), 31-kd domain; soaked in the2 presence of mncl2 (5 millimolar)
38d2dt5a2
not modelled 23.8 28 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Transcriptional repressor Rex, C-terminal domain
39d2cvea1
not modelled 23.6 44 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:YigZ N-terminal domain-like
40c3f2eA_
not modelled 23.3 19 PDB header:viral protein
Chain: A: PDB Molecule:sirv coat protein;
PDBTitle: crystal structure of yellowstone sirv coat protein c-2 terminus
41d2b8ta1
not modelled 22.4 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Type II thymidine kinase
42d1o0ya_
not modelled 22.4 22 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
43c3hiyA_
not modelled 21.8 14 PDB header:transferase
Chain: A: PDB Molecule:minor editosome-associated tutase;
PDBTitle: minor editosome-associated tutase 1 with bound utp and mg
44d1cpca_
not modelled 21.4 14 Fold:Globin-like
Superfamily:Globin-like
Family:Phycocyanin-like phycobilisome proteins
45d1qmga2
not modelled 20.6 23 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
46c3ngjC_
not modelled 20.4 22 PDB header:lyase
Chain: C: PDB Molecule:deoxyribose-phosphate aldolase;
PDBTitle: crystal structure of a putative deoxyribose-phosphate aldolase from2 entamoeba histolytica
47c3nybA_
not modelled 18.2 11 PDB header:transferase/rna binding protein
Chain: A: PDB Molecule:poly(a) rna polymerase protein 2;
PDBTitle: structure and function of the polymerase core of tramp, a rna2 surveillance complex
48c2ihmA_
not modelled 18.1 14 PDB header:transferase/dna
Chain: A: PDB Molecule:dna polymerase mu;
PDBTitle: polymerase mu in ternary complex with gapped 11mer dna2 duplex and bound incoming nucleotide
49c2b8tA_
not modelled 17.9 15 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: crystal structure of thymidine kinase from u.urealyticum in2 complex with thymidine
50d1pvea_
not modelled 17.2 13 Fold:XPC-binding domain
Superfamily:XPC-binding domain
Family:XPC-binding domain
51d1r8ka_
not modelled 16.6 23 Fold:Isocitrate/Isopropylmalate dehydrogenase-like
Superfamily:Isocitrate/Isopropylmalate dehydrogenase-like
Family:PdxA-like
52d1sfla_
not modelled 16.5 16 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
53c8iczA_
not modelled 16.1 11 PDB header:transferase/dna
Chain: A: PDB Molecule:protein (dna polymerase beta (e.c.2.7.7.7));
PDBTitle: dna polymerase beta (pol b) (e.c.2.7.7.7) complexed with2 seven base pairs of dna; soaked in the presence of of datp3 (1 millimolar), mncl2 (5 millimolar), and lithium sulfate4 (75 millimolar)
54c2bcuA_
not modelled 15.7 22 PDB header:transferase, lyase/dna
Chain: A: PDB Molecule:dna polymerase lambda;
PDBTitle: dna polymerase lambda in complex with a dna duplex2 containing an unpaired damp and a t:t mismatch
55c2a4aB_
not modelled 15.5 18 PDB header:lyase
Chain: B: PDB Molecule:deoxyribose-phosphate aldolase;
PDBTitle: deoxyribose-phosphate aldolase from p. yoelii
56c1ug9A_
not modelled 15.3 23 PDB header:hydrolase
Chain: A: PDB Molecule:glucodextranase;
PDBTitle: crystal structure of glucodextranase from arthrobacter globiformis i42
57c2xvcA_
not modelled 15.3 38 PDB header:cell cycle
Chain: A: PDB Molecule:escrt-iii;
PDBTitle: molecular and structural basis of escrt-iii recruitment to2 membranes during archaeal cell division
58c2jq5A_
not modelled 14.9 17 PDB header:structural genomics
Chain: A: PDB Molecule:sec-c motif;
PDBTitle: solution structure of rpa3114, a sec-c motif containing2 protein from rhodopseudomonas palustris; northeast3 structural genomics consortium target rpt5 / ontario4 center for structural proteomics target rp3097
59c1tltB_
not modelled 14.9 22 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative oxidoreductase (virulence factor mvim homolog);
PDBTitle: crystal structure of a putative oxidoreductase (virulence factor mvim2 homolog)
60d1ha7a_
not modelled 14.8 13 Fold:Globin-like
Superfamily:Globin-like
Family:Phycocyanin-like phycobilisome proteins
61d1qt1a_
not modelled 14.6 25 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
62c2j96B_
not modelled 14.5 13 PDB header:photosynthesis
Chain: B: PDB Molecule:phycoerythrocyanin alpha chain;
PDBTitle: the e-configuration of alfa-phycoerythrocyanin
63d1mzha_
not modelled 14.4 28 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
64c1yybA_
not modelled 13.3 24 PDB header:apoptosis
Chain: A: PDB Molecule:programmed cell death protein 5;
PDBTitle: solution structure of 1-26 fragment of human programmed2 cell death 5 protein
65c3l9cA_
not modelled 13.1 31 PDB header:lyase
Chain: A: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: the crystal structure of smu.777 from streptococcus mutans ua159
66c3pq1A_
not modelled 13.1 11 PDB header:transferase
Chain: A: PDB Molecule:poly(a) rna polymerase;
PDBTitle: crystal structure of human mitochondrial poly(a) polymerase (papd1)
67c2gf5A_
not modelled 13.0 14 PDB header:apoptosis
Chain: A: PDB Molecule:fadd protein;
PDBTitle: structure of intact fadd (mort1)
68c2oczA_
not modelled 12.9 15 PDB header:lyase
Chain: A: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: the structure of a putative 3-dehydroquinate dehydratase from2 streptococcus pyogenes.
69c1vh6A_
not modelled 12.8 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:flagellar protein flis;
PDBTitle: crystal structure of a flagellar protein
70d1vh6a_
not modelled 12.8 10 Fold:Four-helical up-and-down bundle
Superfamily:Flagellar export chaperone FliS
Family:Flagellar export chaperone FliS
71c3oa3A_
not modelled 12.7 26 PDB header:lyase
Chain: A: PDB Molecule:aldolase;
PDBTitle: crystal structure of a putative deoxyribose-phosphate aldolase from2 coccidioides immitis
72d1oqya3
not modelled 12.7 17 Fold:XPC-binding domain
Superfamily:XPC-binding domain
Family:XPC-binding domain
73c1yveK_
not modelled 12.6 23 PDB header:oxidoreductase
Chain: K: PDB Molecule:acetohydroxy acid isomeroreductase;
PDBTitle: acetohydroxy acid isomeroreductase complexed with nadph,2 magnesium and inhibitor ipoha (n-hydroxy-n-3 isopropyloxamate)
74c2g5xA_
not modelled 12.5 3 PDB header:hydrolase
Chain: A: PDB Molecule:ribosome-inactivating protein;
PDBTitle: crystal structure of lychnin a type 1 ribosome inactivating2 protein (rip)
75d1sc6a1
not modelled 12.5 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
76c1wr1B_
not modelled 12.4 22 PDB header:signaling protein
Chain: B: PDB Molecule:ubiquitin-like protein dsk2;
PDBTitle: the complex sturcture of dsk2p uba with ubiquitin
77c2of5A_
not modelled 12.4 17 PDB header:apoptosis
Chain: A: PDB Molecule:death domain-containing protein cradd;
PDBTitle: oligomeric death domain complex
78c1wxpA_
not modelled 12.3 13 PDB header:transport protein
Chain: A: PDB Molecule:tho complex subunit 1;
PDBTitle: solution structure of the death domain of nuclear matrix2 protein p84
79d1gqna_
not modelled 12.1 9 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
80c1f7uA_
not modelled 11.8 19 PDB header:ligase/rna
Chain: A: PDB Molecule:arginyl-trna synthetase;
PDBTitle: crystal structure of the arginyl-trna synthetase complexed with the2 trna(arg) and l-arg
81d2fi0a1
not modelled 11.8 17 Fold:SP0561-like
Superfamily:SP0561-like
Family:SP0561-like
82c3iwfA_
not modelled 11.7 15 PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator rpir family;
PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a
83c1hlvA_
not modelled 11.7 14 PDB header:dna binding protein/dna
Chain: A: PDB Molecule:major centromere autoantigen b;
PDBTitle: crystal structure of cenp-b(1-129) complexed with the cenp-2 b box dna
84d2f4mb1
not modelled 11.6 13 Fold:XPC-binding domain
Superfamily:XPC-binding domain
Family:XPC-binding domain
85d1qm4a2
not modelled 11.6 18 Fold:S-adenosylmethionine synthetase
Superfamily:S-adenosylmethionine synthetase
Family:S-adenosylmethionine synthetase
86d1p1xa_
not modelled 11.5 25 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
87d1hlva2
not modelled 11.4 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
88d1qp8a1
not modelled 11.4 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
89c1x3wB_
not modelled 11.3 24 PDB header:hydrolase
Chain: B: PDB Molecule:uv excision repair protein rad23;
PDBTitle: structure of a peptide:n-glycanase-rad23 complex
90d1np3a2
not modelled 11.2 43 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
91d1kn1a_
not modelled 11.2 5 Fold:Globin-like
Superfamily:Globin-like
Family:Phycocyanin-like phycobilisome proteins
92c2ytuA_
not modelled 11.1 15 PDB header:signaling protein
Chain: A: PDB Molecule:friend leukemia integration 1 transcription
PDBTitle: solution structure of the sam_pnt-domain of the human2 friend leukemiaintegration 1 transcription factor
93d1jboa_
not modelled 11.0 17 Fold:Globin-like
Superfamily:Globin-like
Family:Phycocyanin-like phycobilisome proteins
94d1mxaa2
not modelled 10.9 24 Fold:S-adenosylmethionine synthetase
Superfamily:S-adenosylmethionine synthetase
Family:S-adenosylmethionine synthetase
95d1dxya1
not modelled 10.6 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
96c2cveA_
not modelled 10.6 75 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ttha1053;
PDBTitle: crystal structure of a conserved hypothetical protein tt1547 from2 thermus thermophilus hb8
97c2vq3B_
not modelled 10.6 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:metalloreductase steap3;
PDBTitle: crystal structure of the membrane proximal oxidoreductase2 domain of human steap3, the dominant ferric reductase of3 the erythroid transferrin cycle
98c3d19E_
not modelled 10.4 16 PDB header:structural genomics, unknown function
Chain: E: PDB Molecule:conserved metalloprotein;
PDBTitle: crystal structure of a conserved metalloprotein from bacillus cereus
99c3l2iB_
not modelled 10.4 25 PDB header:lyase
Chain: B: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: 1.85 angstrom crystal structure of the 3-dehydroquinate dehydratase2 (arod) from salmonella typhimurium lt2.

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