Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP02918
DateThu Jan 5 10:57:34 GMT 2012
Unique Job ID936420c0e7476ea3

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3dwkC_
Top template information
PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer
Confidence and coverage
Confidence:100.0% Coverage: 68%
581 residues ( 68% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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


































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

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   .........130.........140.........150.........160.........170.........180
Sequence  ITQQLARNFFLSPERTLMRKIKEVFLAIRIEQLLTKDEILELYLNKIYLGYRAYGVGAAA
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   .........190.........200.........210.........220.........230.........240
Sequence  QVYFGKTVDQLTLNEMAVIAGLPKAPSTFNPLYSMDRAVARRNVVLSRMLDEGYITQQQF
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   .........250.........260.........270.........280.........290.........300
Sequence  DQTRTEAINANYHAPEIAFSAPYLSEMVRQEMYNRYGESAYEDGYRIYTTITRKVQQAAQ
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   .........310.........320.........330.........340.........350.........360
Sequence  QAVRNNVLDYDMRHGYRGPANVLWKVGESAWDNNKITDTLKALPTYGPLLPAAVTSANPQ
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???
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   .........370.........380.........390.........400.........410.........420
Sequence  QATAMLADGSTVALSMEGVRWARPYRSDTQQGPTPRKVTDVLQTGQQIWVRQVGDAWWLA
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   .........430.........440.........450.........460.........470.........480
Sequence  QVPEVNSALVSINPQNGAVMALVGGFDFNQSKFNRATQALRQVGSNIKPFLYTAAMDKGL
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Disorder  ??
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   .........490.........500.........510.........520.........530.........540
Sequence  TLASMLNDVPISRWDASAGSDWQPKNSPPQYAGPIRLRQGLGQSKNVVMVRAMRAMGVDY
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??

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   .........550.........560.........570.........580.........590.........600
Sequence  AAEYLQRFGFPAQNIVHTESLALGSASFTPMQVARGYAVMANGGFLVDPWFISKIENDQG
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   .........610.........620.........630.........640.........650.........660
Sequence  GVIFEAKPKVACPECDIPVIYGDTQKSNVLENNDVEDVAISREQQNVSVPMPQLEQANQA
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   .........670.........680.........690.........700.........710.........720
Sequence  LVAKTGAQEYAPHVINTPLAFLIKSALNTNIFGEPGWQGTGWRAGRDLQRRDIGGKTGTT
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   .........730.........740.........750.........760.........770.........780
Sequence  NSSKDAWFSGYGPGVVTSVWIGFDDHRRNLGHTTASGAIKDQISGYEGGAKSAQPAWDAY
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   .........790.........800.........810.........820.........830.........840
Sequence  MKAVLEGVPEQPLTPPPGIVTVNIDRSTGQLANGGNSREEYFIEGTQPTQQAVHEVGTTI
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   .........850
Sequence  IDNGEAQELF
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 3dwk chain C

3D model

Region: 43 - 819
Aligned: 581
Modelled: 600
Confidence: 100.0%
Identity: 29%
PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer

Phyre2

PDB 3fwl chain A

3D model

Region: 39 - 834
Aligned: 575
Modelled: 592
Confidence: 100.0%
Identity: 32%
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 2olv chain A

3D model

Region: 40 - 819
Aligned: 575
Modelled: 607
Confidence: 100.0%
Identity: 29%
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 3udi chain A

3D model

Region: 46 - 795
Aligned: 597
Modelled: 613
Confidence: 100.0%
Identity: 44%
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 2jci chain A

3D model

Region: 188 - 834
Aligned: 421
Modelled: 440
Confidence: 100.0%
Identity: 26%
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

PDB 2bg1 chain A

3D model

Region: 211 - 834
Aligned: 405
Modelled: 417
Confidence: 100.0%
Identity: 26%
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 2bg1 chain A domain 1

3D model

Region: 212 - 839
Aligned: 409
Modelled: 421
Confidence: 100.0%
Identity: 27%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 2c5w chain B domain 1

3D model

Region: 259 - 801
Aligned: 346
Modelled: 352
Confidence: 100.0%
Identity: 28%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 2wad chain B

3D model

Region: 49 - 789
Aligned: 523
Modelled: 554
Confidence: 100.0%
Identity: 18%
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 2olu chain A domain 2

3D model

Region: 256 - 819
Aligned: 369
Modelled: 381
Confidence: 100.0%
Identity: 23%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 1pmd chain A

3D model

Region: 50 - 797
Aligned: 488
Modelled: 490
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 3lo7 chain A

3D model

Region: 273 - 786
Aligned: 304
Modelled: 316
Confidence: 100.0%
Identity: 30%
PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein a;
PDBTitle: crystal structure of pbpa from mycobacterium tuberculosis

Phyre2

PDB 1qmf chain A

3D model

Region: 272 - 799
Aligned: 331
Modelled: 335
Confidence: 100.0%
Identity: 24%
PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:penicillin-binding protein 2x;
PDBTitle: penicillin-binding protein 2x (pbp-2x) acyl-enzyme complex

Phyre2

PDB 3pbq chain A

3D model

Region: 282 - 797
Aligned: 304
Modelled: 315
Confidence: 100.0%
Identity: 29%
PDB header:hydrolase/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of pbp3 complexed with imipenem

Phyre2

PDB 2olu chain A domain 1

3D model

Region: 42 - 256
Aligned: 198
Modelled: 215
Confidence: 100.0%
Identity: 38%
Fold: Lysozyme-like
Superfamily: Lysozyme-like
Family: PBP transglycosylase domain-like

Phyre2

PDB 3hzs chain A

3D model

Region: 50 - 246
Aligned: 196
Modelled: 197
Confidence: 100.0%
Identity: 36%
PDB header:transferase
Chain: A: PDB Molecule:monofunctional glycosyltransferase;
PDBTitle: s. aureus monofunctional glycosyltransferase (mtga)in complex with2 moenomycin

Phyre2

PDB 3equ chain B

3D model

Region: 282 - 795
Aligned: 298
Modelled: 312
Confidence: 100.0%
Identity: 26%
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 3oc2 chain A

3D model

Region: 282 - 792
Aligned: 293
Modelled: 305
Confidence: 100.0%
Identity: 29%
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 3ue3 chain A

3D model

Region: 282 - 795
Aligned: 298
Modelled: 312
Confidence: 100.0%
Identity: 27%
PDB header:transferase
Chain: A: PDB Molecule:septum formation, penicillin binding protein 3,
PDBTitle: crystal structure of acinetobacter baumanni pbp3

Phyre2

PDB 1rp5 chain A domain 4

3D model

Region: 290 - 799
Aligned: 317
Modelled: 321
Confidence: 100.0%
Identity: 22%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2
1

c3dwkC_
2

c3fwlA_
3

c2olvA_
4

c3udiA_
5

c2jciA_
6

c2bg1A_
7

d2bg1a1
8

d2c5wb1
9

c2wadB_
10

d2olua2
11

c1pmdA_
12

c3lo7A_
13

c1qmfA_
14

c3pbqA_
15

d2olua1
16

c3hzsA_
17

c3equB_
18

c3oc2A_
19

c3ue3A_
20

d1rp5a4
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3dwkC_



100.0 29 PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer
2c3fwlA_



100.0 32 PDB header:transferase, hydrolase
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: crystal structure of the full-length transglycosylase pbp1b2 from escherichia coli
3c2olvA_



100.0 29 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
4c3udiA_



100.0 44 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
5c2jciA_



100.0 26 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
6c2bg1A_



100.0 26 PDB header:peptidoglycan
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: active site restructuring regulates ligand recognition in2 classa penicillin-binding proteins (pbps)
7d2bg1a1



100.0 27 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
8d2c5wb1



100.0 28 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
9c2wadB_



100.0 18 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)
10d2olua2



100.0 23 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
11c1pmdA_



100.0 19 PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:peptidoglycan synthesis multifunctional enzyme;
PDBTitle: penicillin-binding protein 2x (pbp-2x)
12c3lo7A_



100.0 30 PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein a;
PDBTitle: crystal structure of pbpa from mycobacterium tuberculosis
13c1qmfA_



100.0 24 PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:penicillin-binding protein 2x;
PDBTitle: penicillin-binding protein 2x (pbp-2x) acyl-enzyme complex
14c3pbqA_



100.0 29 PDB header:hydrolase/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of pbp3 complexed with imipenem
15d2olua1



100.0 38 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:PBP transglycosylase domain-like
16c3hzsA_



100.0 36 PDB header:transferase
Chain: A: PDB Molecule:monofunctional glycosyltransferase;
PDBTitle: s. aureus monofunctional glycosyltransferase (mtga)in complex with2 moenomycin
17c3equB_



100.0 26 PDB header:biosynthetic protein
Chain: B: PDB Molecule:penicillin-binding protein 2;
PDBTitle: crystal structure of penicillin-binding protein 2 from neisseria2 gonorrhoeae
18c3oc2A_



100.0 29 PDB header:penicillin-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of penicillin-binding protein 3 from pseudomonas2 aeruginosa
19c3ue3A_



100.0 27 PDB header:transferase
Chain: A: PDB Molecule:septum formation, penicillin binding protein 3,
PDBTitle: crystal structure of acinetobacter baumanni pbp3
20d1rp5a4



100.0 22 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
21d2oqoa1



not modelled 100.0 57 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:PBP transglycosylase domain-like
22d1pyya4



not modelled 100.0 22 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
23d1vqqa3



not modelled 100.0 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
24c1mwuA_



not modelled 100.0 19 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.
25d1k25a4



not modelled 100.0 24 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
26c2iwdA_



not modelled 100.0 19 PDB header:antibiotic resistance
Chain: A: PDB Molecule:methicillin resistance mecr1 protein;
PDBTitle: oxacilloyl-acylated mecr1 extracellular antibiotic-sensor2 domain.
27d1k38a_



not modelled 100.0 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
28d1m6ka_



not modelled 100.0 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
29d1nrfa_



not modelled 100.0 22 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
30c3if6C_



not modelled 100.0 20 PDB header:hydrolase
Chain: C: PDB Molecule:oxa-46 oxacillinase;
PDBTitle: crystal structure of oxa-46 beta-lactamase from p.2 aeruginosa
31d1k55a_



not modelled 100.0 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
32c2jc7A_



not modelled 100.0 24 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
33d1xa1a_



not modelled 100.0 14 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
34c3hbrD_



not modelled 100.0 20 PDB header:hydrolase
Chain: D: PDB Molecule:oxa-48;
PDBTitle: crystal structure of oxa-48 beta-lactamase
35c2wuqB_



not modelled 99.9 16 PDB header:transcription
Chain: B: PDB Molecule:beta-lactamase regulatory protein blab;
PDBTitle: crystal structure of blab protein from streptomyces cacaoi
36d1g6aa_



not modelled 99.8 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
37c2qpnA_



not modelled 99.8 21 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase ges-1;
PDBTitle: ges-1 beta-lactamase
38d1dy6a_



not modelled 99.8 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
39c2xftA_



not modelled 99.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:orf12;
PDBTitle: structural and mechanistic studies on a cephalosporin esterase from2 the clavulanic acid biosynthesis pathway
40d1iysa_



not modelled 99.8 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
41c2wuqA_



not modelled 99.8 15 PDB header:transcription
Chain: A: PDB Molecule:beta-lactamase regulatory protein blab;
PDBTitle: crystal structure of blab protein from streptomyces cacaoi
42c2ov5A_



not modelled 99.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:carbapenemase;
PDBTitle: crystal structure of the kpc-2 carbapenemase
43d2cc1a1



not modelled 99.8 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
44c3dw0B_



not modelled 99.8 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
45c3lezA_



not modelled 99.7 18 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of a halotolerant bacterial beta-lactamase
46c2j7vA_



not modelled 99.7 18 PDB header:hydrolase
Chain: A: PDB Molecule:tll2115 protein;
PDBTitle: structure of pbp-a
47d1djaa_



not modelled 99.7 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
48d1buea_



not modelled 99.7 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
49d1e25a_



not modelled 99.7 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
50d1m40a_



not modelled 99.7 14 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
51d1o7ea_



not modelled 99.7 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
52d1n9ba_



not modelled 99.7 14 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
53c2v20A_



not modelled 99.6 14 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.
54d1bsga_



not modelled 99.6 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
55c1w7fB_



not modelled 99.6 18 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of the class a beta-lactamase bs32 inhibited with isocitrate
56c3qhyA_



not modelled 99.6 15 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
57d1hzoa_



not modelled 99.6 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
58d1alqa_



not modelled 99.5 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
59c3cg5A_



not modelled 99.4 18 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of the covalent adduct formed between tb2 b-lactamase and clavulanate
60c1i2sA_



not modelled 99.4 18 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: beta-lactamase from bacillus licheniformis bs3
61d1i2sa_



not modelled 99.4 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
62c3p09B_



not modelled 99.3 17 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of beta-lactamase from francisella tularensis
63c3p09A_



not modelled 99.1 16 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of beta-lactamase from francisella tularensis
64d1es5a_



not modelled 98.9 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
65c2bcfA_



not modelled 98.9 20 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.
66c3cjmA_



not modelled 98.9 18 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
67d3beca2



not modelled 98.6 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
68d1xp4a2



not modelled 98.5 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
69c3a3jA_



not modelled 98.5 17 PDB header:hydrolase
Chain: A: PDB Molecule:pbp5;
PDBTitle: crystal structures of penicillin binding protein 5 from2 haemophilus influenzae
70c3d0fA_



not modelled 98.4 26 PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding 1 transmembrane protein mrca;
PDBTitle: structure of the big_1156.2 domain of putative penicillin-binding2 protein mrca from nitrosomonas europaea atcc 19718
71c1z6fA_



not modelled 98.3 18 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
72c3it9B_



not modelled 98.2 15 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
73c1xp4C_



not modelled 98.1 16 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
74d1tvfa2



not modelled 98.0 12 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
75c1tvfA_



not modelled 97.9 13 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
76c3mfdB_



not modelled 97.9 14 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
77c3humB_



not modelled 97.8 12 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
78c3uo9B_



not modelled 97.3 18 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
79c3ih9A_



not modelled 97.2 19 PDB header:hydrolase
Chain: A: PDB Molecule:salt-tolerant glutaminase;
PDBTitle: crystal structure analysis of mglu in its tris form
80c2pbyB_



not modelled 97.2 17 PDB header:hydrolase
Chain: B: PDB Molecule:glutaminase;
PDBTitle: probable glutaminase from geobacillus kaustophilus hta426
81c2dfwA_



not modelled 97.1 17 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
82c3czdA_



not modelled 97.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:glutaminase kidney isoform;
PDBTitle: crystal structure of human glutaminase in complex with l-glutamate
83c3ss4C_



not modelled 96.9 18 PDB header:hydrolase
Chain: C: PDB Molecule:glutaminase c;
PDBTitle: crystal structure of mouse glutaminase c, phosphate-bound form
84d1u60a_



not modelled 96.8 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Glutaminase
85d1mkia_



not modelled 96.5 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Glutaminase
86c3a3eB_



not modelled 95.7 20 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)
87d2ex2a1



not modelled 95.3 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
88d1w5da1



not modelled 95.3 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
89d1w79a1



not modelled 95.2 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
90d1yqsa1



not modelled 94.7 23 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
91c3i7jB_



not modelled 94.7 23 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
92c2qmiH_



not modelled 94.2 19 PDB header:hydrolase
Chain: H: PDB Molecule:pbp related beta-lactamase;
PDBTitle: structure of the octameric penicillin-binding protein2 homologue from pyrococcus abyssi
93d2dcfa1



not modelled 93.8 22 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
94c3ozhA_



not modelled 90.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase/d-alanine carboxypeptidase;
PDBTitle: crystal structure of beta-lactamase/d-alanine carboxypeptidase from2 yersinia pestis
95c2qz6A_



not modelled 89.5 23 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: first crystal structure of a psychrophile class c beta-2 lactamase
96d1rgya_



not modelled 88.8 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
97c1zkjA_



not modelled 88.7 19 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
98d2drwa1



not modelled 88.3 25 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
99c3tg9A_



not modelled 83.6 18 PDB header:penicillin binding protein
Chain: A: PDB Molecule:penicillin-binding protein;
PDBTitle: the crystal structure of penicillin binding protein from bacillus2 halodurans
100c3hleA_



not modelled 82.4 18 PDB header:transferase
Chain: A: PDB Molecule:transesterase;
PDBTitle: simvastatin synthase (lovd), from aspergillus terreus, s5 mutant, s76a2 mutant, complex with monacolin j acid
101d1ci9a_



not modelled 82.0 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
102d1onha_



not modelled 81.2 26 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
103c2wzzA_



not modelled 76.7 19 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: amp-c beta-lactamase (pseudomonas aeruginosa)in complex2 with compound m-03
104d2hdsa1



not modelled 70.4 23 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
105c3o3vB_



not modelled 70.0 17 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of clbp peptidase domain
106d2ieaa3



not modelled 27.7 19 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
107c3zriA_



not modelled 27.2 7 PDB header:chaperone
Chain: A: PDB Molecule:clpb protein;
PDBTitle: n-domain of clpv from vibrio cholerae
108d1qvra1



not modelled 26.2 22 Fold:Double Clp-N motif
Superfamily:Double Clp-N motif
Family:Double Clp-N motif
109c2k77A_



not modelled 25.6 7 PDB header:chaperone, protein binding
Chain: A: PDB Molecule:negative regulator of genetic competence
PDBTitle: nmr solution structure of the bacillus subtilis clpc n-2 domain
110c2a6eF_



not modelled 25.3 28 PDB header:transferase
Chain: F: PDB Molecule:rna polymerase sigma factor rpod;
PDBTitle: crystal structure of the t. thermophilus rna polymerase2 holoenzyme
111d1vqqa2



not modelled 23.4 17 Fold:Penicillin binding protein dimerisation domain
Superfamily:Penicillin binding protein dimerisation domain
Family:Penicillin binding protein dimerisation domain
112c3fesB_



not modelled 22.2 5 PDB header:atp binding protein
Chain: B: PDB Molecule:atp-dependent clp endopeptidase;
PDBTitle: crystal structure of the atp-dependent clp protease clpc from2 clostridium difficile

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