Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AD65
DateThu Jan 5 11:20:07 GMT 2012
Unique Job IDbcfa28ca46bf27f6

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3oc2A_
Top template information
PDB header:penicillin-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of penicillin-binding protein 3 from pseudomonas2 aeruginosa
Confidence and coverage
Confidence:100.0% Coverage: 77%
485 residues ( 77% 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.
581 residues ( 92%) 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  MKLQNSFRDYTAESALFVRRALVAFLGILLLTGVLIANLYNLQIVRFTDYQTRSNENRIK
Secondary structure 
SS confidence 
Disorder  ???????????
???
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  LVPIAPSRGIIYDRNGIPLALNRTIYQIEMMPEKVDNVQQTLDALRSVVDLTDDDIAAFR
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  KERARSHRFTSIPVKTNLTEVQVARFAVNQYRFPGVEVKGYKRRYYPYGSALTHVIGYVS
Secondary structure 
SS confidence 
Disorder 
????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  KINDKDVERLNNDGKLANYAATHDIGKLGIERYYEDVLHGQTGYEEVEVNNRGRVIRQLK
Secondary structure 
SS confidence 
Disorder 
????????
?
??????
?????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  EVPPQAGHDIYLTLDLKLQQYIETLLAGSRAAVVVTDPRTGGVLALVSTPSYDPNLFVDG
Secondary structure 
SS confidence 
Disorder  ????
?
??
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  ISSKDYSALLNDPNTPLVNRATQGVYPPASTVKPYVAVSALSAGVITRNTTLFDPGWWQL
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  PGSEKRYRDWKKWGHGRLNVTRSLEESADTFFYQVAYDMGIDRLSEWMGKFGYGHYTGID
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  LAEERSGNMPTREWKQKRFKKPWYQGDTIPVGIGQGYWTATPIQMSKALMILINDGIVKV
Secondary structure 
SS confidence 
Disorder 
??
???????
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  PHLLMSTAEDGKQVPWVQPHEPPVGDIHSGYWELAKDGMYGVANRPNGTAHKYFASAPYK
Secondary structure 
SS confidence 
Disorder 
?????
???
???????
???
?
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  IAAKSGTAQVFGLKANETYNAHKIAERLRDHKLMTAFAPYNNPQVAVAMILENGGAGPAV
Secondary structure 
SS confidence 
Disorder 
???????????
???
Disorder confidence 
 
   .........610.........620.........630...
Sequence  GTLMRQILDHIMLGDNNTDLPAENPAVAAAEDH
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 3oc2 chain A

3D model

Region: 56 - 624
Aligned: 485
Modelled: 528
Confidence: 100.0%
Identity: 28%
PDB header:penicillin-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of penicillin-binding protein 3 from pseudomonas2 aeruginosa

Phyre2

PDB 3pbq chain A

3D model

Region: 59 - 626
Aligned: 480
Modelled: 517
Confidence: 100.0%
Identity: 27%
PDB header:hydrolase/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of pbp3 complexed with imipenem

Phyre2

PDB 1pmd chain A

3D model

Region: 68 - 632
Aligned: 521
Modelled: 521
Confidence: 100.0%
Identity: 19%
PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:peptidoglycan synthesis multifunctional enzyme;
PDBTitle: penicillin-binding protein 2x (pbp-2x)

Phyre2

PDB 1mwu chain A

3D model

Region: 40 - 618
Aligned: 521
Modelled: 560
Confidence: 100.0%
Identity: 25%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:penicillin-binding protein 2a;
PDBTitle: structure of methicillin acyl-penicillin binding protein 2a2 from methicillin resistant staphylococcus aureus strain3 27r at 2.60 a resolution.

Phyre2

PDB 2wad chain B

3D model

Region: 61 - 616
Aligned: 505
Modelled: 517
Confidence: 100.0%
Identity: 26%
PDB header:peptide binding protein
Chain: B: PDB Molecule:penicillin-binding protein 2b;
PDBTitle: penicillin-binding protein 2b (pbp-2b) from streptococcus2 pneumoniae (strain 5204)

Phyre2

PDB 3ue3 chain A

3D model

Region: 61 - 626
Aligned: 422
Modelled: 467
Confidence: 100.0%
Identity: 26%
PDB header:transferase
Chain: A: PDB Molecule:septum formation, penicillin binding protein 3,
PDBTitle: crystal structure of acinetobacter baumanni pbp3

Phyre2

PDB 1qmf chain A

3D model

Region: 63 - 627
Aligned: 428
Modelled: 448
Confidence: 100.0%
Identity: 23%
PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:penicillin-binding protein 2x;
PDBTitle: penicillin-binding protein 2x (pbp-2x) acyl-enzyme complex

Phyre2

PDB 3equ chain B

3D model

Region: 59 - 627
Aligned: 412
Modelled: 443
Confidence: 100.0%
Identity: 29%
PDB header:biosynthetic protein
Chain: B: PDB Molecule:penicillin-binding protein 2;
PDBTitle: crystal structure of penicillin-binding protein 2 from neisseria2 gonorrhoeae

Phyre2

PDB 3lo7 chain A

3D model

Region: 161 - 612
Aligned: 374
Modelled: 397
Confidence: 100.0%
Identity: 28%
PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein a;
PDBTitle: crystal structure of pbpa from mycobacterium tuberculosis

Phyre2

PDB 1pyy chain A domain 4

3D model

Region: 253 - 628
Aligned: 346
Modelled: 365
Confidence: 100.0%
Identity: 19%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 1rp5 chain A domain 4

3D model

Region: 253 - 628
Aligned: 344
Modelled: 365
Confidence: 100.0%
Identity: 19%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 1vqq chain A domain 3

3D model

Region: 254 - 619
Aligned: 326
Modelled: 350
Confidence: 100.0%
Identity: 25%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 3dwk chain C

3D model

Region: 65 - 631
Aligned: 503
Modelled: 516
Confidence: 100.0%
Identity: 17%
PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer

Phyre2

PDB 3udi chain A

3D model

Region: 70 - 623
Aligned: 449
Modelled: 469
Confidence: 100.0%
Identity: 21%
PDB header:penicillin-binding protein/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 1a;
PDBTitle: crystal structure of acinetobacter baumannii pbp1a in complex with2 penicillin g

Phyre2

PDB 2c5w chain B domain 1

3D model

Region: 240 - 631
Aligned: 339
Modelled: 351
Confidence: 100.0%
Identity: 17%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 2olv chain A

3D model

Region: 70 - 632
Aligned: 504
Modelled: 520
Confidence: 100.0%
Identity: 15%
PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein 2;
PDBTitle: structural insight into the transglycosylation step of bacterial cell2 wall biosynthesis : donor ligand complex

Phyre2

PDB 3fwl chain A

3D model

Region: 122 - 623
Aligned: 408
Modelled: 411
Confidence: 100.0%
Identity: 18%
PDB header:transferase, hydrolase
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: crystal structure of the full-length transglycosylase pbp1b2 from escherichia coli

Phyre2

PDB 1k25 chain A domain 4

3D model

Region: 253 - 628
Aligned: 313
Modelled: 336
Confidence: 100.0%
Identity: 20%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 2bg1 chain A

3D model

Region: 245 - 629
Aligned: 310
Modelled: 318
Confidence: 100.0%
Identity: 21%
PDB header:peptidoglycan
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: active site restructuring regulates ligand recognition in2 classa penicillin-binding proteins (pbps)

Phyre2

PDB 2jci chain A

3D model

Region: 246 - 629
Aligned: 309
Modelled: 317
Confidence: 100.0%
Identity: 21%
PDB header:drug-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: structural insights into the catalytic mechanism and the2 role of streptococcus pneumoniae pbp1b

Phyre2
1
c3oc2A_
2
c3pbqA_
3
c1pmdA_
4
c1mwuA_
5
c2wadB_
6
c3ue3A_
7
c1qmfA_
8
c3equB_
9
c3lo7A_
10
d1pyya4
11
d1rp5a4
12
d1vqqa3
13
c3dwkC_
14
c3udiA_
15
d2c5wb1
16
c2olvA_
17
c3fwlA_
18
d1k25a4
19
c2bg1A_
20
c2jciA_
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24
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3oc2A_
100.0 28 PDB header:penicillin-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of penicillin-binding protein 3 from pseudomonas2 aeruginosa
2c3pbqA_
100.0 27 PDB header:hydrolase/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of pbp3 complexed with imipenem
3c1pmdA_
100.0 19 PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:peptidoglycan synthesis multifunctional enzyme;
PDBTitle: penicillin-binding protein 2x (pbp-2x)
4c1mwuA_
100.0 25 PDB header:biosynthetic protein
Chain: A: PDB Molecule:penicillin-binding protein 2a;
PDBTitle: structure of methicillin acyl-penicillin binding protein 2a2 from methicillin resistant staphylococcus aureus strain3 27r at 2.60 a resolution.
5c2wadB_
100.0 26 PDB header:peptide binding protein
Chain: B: PDB Molecule:penicillin-binding protein 2b;
PDBTitle: penicillin-binding protein 2b (pbp-2b) from streptococcus2 pneumoniae (strain 5204)
6c3ue3A_
100.0 26 PDB header:transferase
Chain: A: PDB Molecule:septum formation, penicillin binding protein 3,
PDBTitle: crystal structure of acinetobacter baumanni pbp3
7c1qmfA_
100.0 23 PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:penicillin-binding protein 2x;
PDBTitle: penicillin-binding protein 2x (pbp-2x) acyl-enzyme complex
8c3equB_
100.0 29 PDB header:biosynthetic protein
Chain: B: PDB Molecule:penicillin-binding protein 2;
PDBTitle: crystal structure of penicillin-binding protein 2 from neisseria2 gonorrhoeae
9c3lo7A_
100.0 28 PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein a;
PDBTitle: crystal structure of pbpa from mycobacterium tuberculosis
10d1pyya4
100.0 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
11d1rp5a4
100.0 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
12d1vqqa3
100.0 25 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
13c3dwkC_
100.0 17 PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer
14c3udiA_
100.0 21 PDB header:penicillin-binding protein/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 1a;
PDBTitle: crystal structure of acinetobacter baumannii pbp1a in complex with2 penicillin g
15d2c5wb1
100.0 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
16c2olvA_
100.0 15 PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein 2;
PDBTitle: structural insight into the transglycosylation step of bacterial cell2 wall biosynthesis : donor ligand complex
17c3fwlA_
100.0 18 PDB header:transferase, hydrolase
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: crystal structure of the full-length transglycosylase pbp1b2 from escherichia coli
18d1k25a4
100.0 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
19c2bg1A_
100.0 21 PDB header:peptidoglycan
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: active site restructuring regulates ligand recognition in2 classa penicillin-binding proteins (pbps)
20c2jciA_
100.0 21 PDB header:drug-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: structural insights into the catalytic mechanism and the2 role of streptococcus pneumoniae pbp1b
21d2bg1a1
not modelled 100.0 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
22d2olua2
not modelled 100.0 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
23c2iwdA_
not modelled 100.0 16 PDB header:antibiotic resistance
Chain: A: PDB Molecule:methicillin resistance mecr1 protein;
PDBTitle: oxacilloyl-acylated mecr1 extracellular antibiotic-sensor2 domain.
24d1m6ka_
not modelled 100.0 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
25d1k55a_
not modelled 100.0 22 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
26d1k38a_
not modelled 100.0 26 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
27c3hbrD_
not modelled 100.0 22 PDB header:hydrolase
Chain: D: PDB Molecule:oxa-48;
PDBTitle: crystal structure of oxa-48 beta-lactamase
28d1nrfa_
not modelled 100.0 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
29c3if6C_
not modelled 100.0 26 PDB header:hydrolase
Chain: C: PDB Molecule:oxa-46 oxacillinase;
PDBTitle: crystal structure of oxa-46 beta-lactamase from p.2 aeruginosa
30d1xa1a_
not modelled 100.0 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
31c2jc7A_
not modelled 100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase oxa-24;
PDBTitle: the crystal structure of the carbapenemase oxa-24 reveals2 new insights into the mechanism of carbapenem-hydrolysis
32d1vqqa2
not modelled 100.0 26 Fold:Penicillin binding protein dimerisation domain
Superfamily:Penicillin binding protein dimerisation domain
Family:Penicillin binding protein dimerisation domain
33c2wuqB_
not modelled 100.0 21 PDB header:transcription
Chain: B: PDB Molecule:beta-lactamase regulatory protein blab;
PDBTitle: crystal structure of blab protein from streptomyces cacaoi
34c2qpnA_
not modelled 100.0 20 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase ges-1;
PDBTitle: ges-1 beta-lactamase
35d1g6aa_
not modelled 100.0 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
36d1iysa_
not modelled 100.0 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
37c2xftA_
not modelled 100.0 12 PDB header:hydrolase
Chain: A: PDB Molecule:orf12;
PDBTitle: structural and mechanistic studies on a cephalosporin esterase from2 the clavulanic acid biosynthesis pathway
38d1e25a_
not modelled 99.9 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
39d1dy6a_
not modelled 99.9 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
40c2ov5A_
not modelled 99.9 18 PDB header:hydrolase
Chain: A: PDB Molecule:carbapenemase;
PDBTitle: crystal structure of the kpc-2 carbapenemase
41c2wuqA_
not modelled 99.9 21 PDB header:transcription
Chain: A: PDB Molecule:beta-lactamase regulatory protein blab;
PDBTitle: crystal structure of blab protein from streptomyces cacaoi
42d1o7ea_
not modelled 99.9 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
43d2cc1a1
not modelled 99.9 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
44d1m40a_
not modelled 99.9 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
45c3dw0B_
not modelled 99.9 16 PDB header:hydrolase
Chain: B: PDB Molecule:class a carbapenemase kpc-2;
PDBTitle: crystal structure of the class a carbapenemase kpc-2 at 1.62 angstrom resolution
46d1bsga_
not modelled 99.9 14 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
47d1buea_
not modelled 99.9 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
48c3lezA_
not modelled 99.9 18 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of a halotolerant bacterial beta-lactamase
49d1djaa_
not modelled 99.9 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
50c2j7vA_
not modelled 99.9 21 PDB header:hydrolase
Chain: A: PDB Molecule:tll2115 protein;
PDBTitle: structure of pbp-a
51d1n9ba_
not modelled 99.9 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
52c1w7fB_
not modelled 99.9 18 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of the class a beta-lactamase bs32 inhibited with isocitrate
53d1pyya3
not modelled 99.9 24 Fold:Penicillin binding protein dimerisation domain
Superfamily:Penicillin binding protein dimerisation domain
Family:Penicillin binding protein dimerisation domain
54d1k25a3
not modelled 99.9 29 Fold:Penicillin binding protein dimerisation domain
Superfamily:Penicillin binding protein dimerisation domain
Family:Penicillin binding protein dimerisation domain
55c2v20A_
not modelled 99.8 19 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase tem;
PDBTitle: structure of a tem-1 beta-lactamase insertant2 allosterically regulated by kanamycin and anions. complex3 with sulfate.
56d1hzoa_
not modelled 99.8 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
57c3qhyA_
not modelled 99.8 19 PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: structural, thermodynamic and kinetic analysis of the picomolar2 binding affinity interaction of the beta-lactamase inhibitor protein-3 ii (blip-ii) with class a beta-lactamases
58c3cg5A_
not modelled 99.8 21 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of the covalent adduct formed between tb2 b-lactamase and clavulanate
59c1i2sA_
not modelled 99.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: beta-lactamase from bacillus licheniformis bs3
60d1i2sa_
not modelled 99.8 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
61c3p09B_
not modelled 99.7 13 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of beta-lactamase from francisella tularensis
62d1alqa_
not modelled 99.7 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
63c3p09A_
not modelled 99.6 13 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of beta-lactamase from francisella tularensis
64d1es5a_
not modelled 99.4 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
65d1xp4a2
not modelled 99.4 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
66c3cjmA_
not modelled 99.3 15 PDB header:hydrolase
Chain: A: PDB Molecule:putative beta-lactamase;
PDBTitle: crystal structure of putative beta-lactamase (np_815223.1) from2 enterococcus faecalis v583 at 1.50 a resolution
67c2bcfA_
not modelled 99.2 19 PDB header:hydrolase
Chain: A: PDB Molecule:probable d-alanyl-d-alanine carboxypeptidase
PDBTitle: crystal structure of a evolved putative penicillin-binding2 protein homolog, rv2911, from mycobacterium tuberculosis.
68d3beca2
not modelled 99.1 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
69d1tvfa2
not modelled 98.9 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
70d1w79a1
not modelled 98.8 23 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
71c1z6fA_
not modelled 98.8 21 PDB header:hydrolase
Chain: A: PDB Molecule:penicillin-binding protein 5;
PDBTitle: crystal structure of penicillin-binding protein 5 from e. coli in2 complex with a boronic acid inhibitor
72c1xp4C_
not modelled 98.6 19 PDB header:hydrolase
Chain: C: PDB Molecule:d-alanyl-d-alanine carboxypeptidase;
PDBTitle: crystal structure of a peptidoglycan synthesis regulatory2 factor (pbp3) from streptococcus pneumoniae
73c1tvfA_
not modelled 98.5 16 PDB header:penicillin binding
Chain: A: PDB Molecule:penicillin binding protein 4;
PDBTitle: crystal structure of penicillin-binding protein 4 (pbp4)2 from staphylococcus aureus
74c3it9B_
not modelled 98.5 21 PDB header:hydrolase
Chain: B: PDB Molecule:d-alanyl-d-alanine carboxypeptidase dacc;
PDBTitle: crystal structure of penicillin-binding protein 6 (pbp6)2 from e. coli in apo state
75c3a3jA_
not modelled 98.4 19 PDB header:hydrolase
Chain: A: PDB Molecule:pbp5;
PDBTitle: crystal structures of penicillin binding protein 5 from2 haemophilus influenzae
76c2wzzA_
not modelled 98.3 12 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: amp-c beta-lactamase (pseudomonas aeruginosa)in complex2 with compound m-03
77c3humB_
not modelled 98.3 18 PDB header:hydrolase/antibiotics
Chain: B: PDB Molecule:penicillin-binding protein 4;
PDBTitle: crystal structure of penicillin binding protein 4 from2 staphylococcus aureus col in complex with cefotaxime
78c3mfdB_
not modelled 98.2 18 PDB header:hydrolase
Chain: B: PDB Molecule:d-alanyl-d-alanine carboxypeptidase dacb;
PDBTitle: the structure of the beta-lactamase superfamily domain of d-alanyl-d-2 alanine carboxypeptidase from bacillus subtilis
79d1rgya_
not modelled 98.2 14 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
80d1onha_
not modelled 98.0 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
81d1yqsa1
not modelled 98.0 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
82d1u60a_
not modelled 97.9 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Glutaminase
83c3ss4C_
not modelled 97.9 16 PDB header:hydrolase
Chain: C: PDB Molecule:glutaminase c;
PDBTitle: crystal structure of mouse glutaminase c, phosphate-bound form
84c2qmiH_
not modelled 97.9 19 PDB header:hydrolase
Chain: H: PDB Molecule:pbp related beta-lactamase;
PDBTitle: structure of the octameric penicillin-binding protein2 homologue from pyrococcus abyssi
85c2dfwA_
not modelled 97.9 15 PDB header:hydrolase
Chain: A: PDB Molecule:salt-tolerant glutaminase;
PDBTitle: crystal structure of a major fragment of the salt-tolerant2 glutaminase from micrococcus luteus k-3
86c3uo9B_
not modelled 97.8 17 PDB header:hydrolase/hydrolase inhibitor
Chain: B: PDB Molecule:glutaminase kidney isoform, mitochondrial;
PDBTitle: crystal structure of human gac in complex with glutamate and bptes
87c1zkjA_
not modelled 97.8 15 PDB header:hydrolase
Chain: A: PDB Molecule:extended-spectrum beta-lactamase;
PDBTitle: structural basis for the extended substrate spectrum of cmy-2 10, a plasmid-encoded class c beta-lactamase
88c3ih9A_
not modelled 97.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:salt-tolerant glutaminase;
PDBTitle: crystal structure analysis of mglu in its tris form
89d1w5da1
not modelled 97.7 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
90d2hdsa1
not modelled 97.7 13 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
91c2pbyB_
not modelled 97.7 15 PDB header:hydrolase
Chain: B: PDB Molecule:glutaminase;
PDBTitle: probable glutaminase from geobacillus kaustophilus hta426
92c3czdA_
not modelled 97.6 16 PDB header:hydrolase
Chain: A: PDB Molecule:glutaminase kidney isoform;
PDBTitle: crystal structure of human glutaminase in complex with l-glutamate
93d2olua1
not modelled 97.0 16 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:PBP transglycosylase domain-like
94c2qz6A_
not modelled 96.9 9 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: first crystal structure of a psychrophile class c beta-2 lactamase
95c3a3eB_
not modelled 96.8 27 PDB header:hydrolase
Chain: B: PDB Molecule:penicillin-binding protein 4;
PDBTitle: crystal structure of penicillin binding protein 4 (dacb)2 from haemophilus influenzae, complexed with novel beta-3 lactam (cmv)
96d1ci9a_
not modelled 96.7 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
97d2dcfa1
not modelled 96.6 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
98c3ozhA_
not modelled 96.3 13 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase/d-alanine carboxypeptidase;
PDBTitle: crystal structure of beta-lactamase/d-alanine carboxypeptidase from2 yersinia pestis
99d2ex2a1
not modelled 96.2 38 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
100c1ei5A_
not modelled 96.2 15 PDB header:hydrolase
Chain: A: PDB Molecule:d-aminopeptidase;
PDBTitle: crystal structure of a d-aminopeptidase from ochrobactrum2 anthropi
101c3o3vB_
not modelled 96.0 16 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of clbp peptidase domain
102d1mkia_
not modelled 95.9 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Glutaminase
103c3tg9A_
not modelled 95.7 14 PDB header:penicillin binding protein
Chain: A: PDB Molecule:penicillin-binding protein;
PDBTitle: the crystal structure of penicillin binding protein from bacillus2 halodurans
104d2drwa1
not modelled 95.6 13 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
105d1ei5a3
not modelled 93.7 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
106c3hleA_
not modelled 92.6 13 PDB header:transferase
Chain: A: PDB Molecule:transesterase;
PDBTitle: simvastatin synthase (lovd), from aspergillus terreus, s5 mutant, s76a2 mutant, complex with monacolin j acid
107d2oqoa1
not modelled 92.3 10 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:PBP transglycosylase domain-like
108c3i7jB_
not modelled 90.2 38 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase mb2281c;
PDBTitle: crystal structure of a beta-lactamase (mb2281c) from2 mycobacterium bovis, northeast structural genomics3 consortium target mbr246
109c3hzsA_
not modelled 89.3 11 PDB header:transferase
Chain: A: PDB Molecule:monofunctional glycosyltransferase;
PDBTitle: s. aureus monofunctional glycosyltransferase (mtga)in complex with2 moenomycin
110d1c8ua2
not modelled 40.3 29 Fold:Thioesterase/thiol ester dehydrase-isomerase
Superfamily:Thioesterase/thiol ester dehydrase-isomerase
Family:Acyl-CoA thioesterase
111d1zpsa1
not modelled 38.1 40 Fold:HisI-like
Superfamily:HisI-like
Family:HisI-like
112c3rd7A_
not modelled 34.3 24 PDB header:hydrolase
Chain: A: PDB Molecule:acyl-coa thioesterase;
PDBTitle: crystal structure of acyl-coa thioesterase from mycobacterium avium
113d2v8qe2
not modelled 22.9 18 Fold:CBS-domain pair
Superfamily:CBS-domain pair
Family:CBS-domain pair
114c2x5qA_
not modelled 22.9 34 PDB header:unknown function
Chain: A: PDB Molecule:sso1986;
PDBTitle: crystal structure of hypothetical protein sso1986 from2 sulfolobus solfataricus p2
115c3cjyA_
not modelled 22.6 19 PDB header:hydrolase
Chain: A: PDB Molecule:putative thioesterase;
PDBTitle: crystal structure of putative thioesterase (yp_496845.1) from2 novosphingobium aromaticivorans dsm 12444 at 1.70 a resolution
116c3rqbB_
not modelled 22.1 24 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of conserved protein of unknown function with hot2 dog fold from alicyclobacillus acidocaldarius
117c3bbjA_
not modelled 21.9 22 PDB header:hydrolase
Chain: A: PDB Molecule:putative thioesterase ii;
PDBTitle: crystal structure of a putative thioesterase ii (tfu_2367) from2 thermobifida fusca yx at 2.45 a resolution

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