Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP02919
DateThu Jan 5 10:57:35 GMT 2012
Unique Job ID615478855fc0318a

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3fwlA_
Top template information
PDB header:transferase, hydrolase
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: crystal structure of the full-length transglycosylase pbp1b2 from escherichia coli
Confidence and coverage
Confidence:100.0% Coverage: 84%
707 residues ( 84% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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





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??
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   .........70.........80.........90.........100.........110.........120
Sequence  GKRGWLWLLLKLAIVFAVLIAIYGVYLDQKIRSRIDGKVWQLPAAVYGRMVNLEPDMTIS
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Disorder  ??
































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   .........130.........140.........150.........160.........170.........180
Sequence  KNEMVKLLEATQYRQVSKMTRPGEFTVQANSIEMIRRPFDFPDSKEGQVRARLTFDGDHL
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   .........190.........200.........210.........220.........230.........240
Sequence  ATIVNMENNRQFGFFRLDPRLITMISSPNGEQRLFVPRSGFPDLLVDTLLATEDRHFYEH
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   .........250.........260.........270.........280.........290.........300
Sequence  DGISLYSIGRAVLANLTAGRTVQGASTLTQQLVKNLFLSSERSYWRKANEAYMALIMDAR
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   .........310.........320.........330.........340.........350.........360
Sequence  YSKDRILELYMNEVYLGQSGDNEIRGFPLASLYYFGRPVEELSLDQQALLVGMVKGASIY
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   .........370.........380.........390.........400.........410.........420
Sequence  NPWRNPKLALERRNLVLRLLQQQQIIDQELYDMLSARPLGVQPRGGVISPQPAFMQLVRQ
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   .........430.........440.........450.........460.........470.........480
Sequence  ELQAKLGDKVKDLSGVKIFTTFDSVAQDAAEKAAVEGIPALKKQRKLSDLETAIVVVDRF
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   .........490.........500.........510.........520.........530.........540
Sequence  SGEVRAMVGGSEPQFAGYNRAMQARRSIGSLAKPATYLTALSQPKIYRLNTWIADAPIAL
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   .........550.........560.........570.........580.........590.........600
Sequence  RQPNGQVWSPQNDDRRYSESGRVMLVDALTRSMNVPTVNLGMALGLPAVTETWIKLGVPK
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   .........610.........620.........630.........640.........650.........660
Sequence  DQLHPVPAMLLGALNLTPIEVAQAFQTIASGGNRAPLSALRSVIAEDGKVLYQSFPQAER
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   .........670.........680.........690.........700.........710.........720
Sequence  AVPAQAAYLTLWTMQQVVQRGTGRQLGAKYPNLHLAGKTGTTNNNVDTWFAGIDGSTVTI
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   .........730.........740.........750.........760.........770.........780
Sequence  TWVGRDNNQPTKLYGASGAMSIYQRYLANQTPTPLNLVPPEDIADMGVDYDGNFVCSGGM
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   .........790.........800.........810.........820.........830.........840
Sequence  RILPVWTSDPQSLCQQSEMQQQPSGNPFDQSSQPQQQPQQQPAQQEQKDSDGVAGWIKDM
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   ....
Sequence  FGSN
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 3fwl chain A

3D model

Region: 66 - 799
Aligned: 707
Modelled: 714
Confidence: 100.0%
Identity: 97%
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 3dwk chain C

3D model

Region: 187 - 783
Aligned: 575
Modelled: 597
Confidence: 100.0%
Identity: 27%
PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer

Phyre2

PDB 2olv chain A

3D model

Region: 185 - 781
Aligned: 566
Modelled: 597
Confidence: 100.0%
Identity: 26%
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: 190 - 761
Aligned: 490
Modelled: 509
Confidence: 100.0%
Identity: 35%
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: 339 - 797
Aligned: 418
Modelled: 434
Confidence: 100.0%
Identity: 19%
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: 362 - 842
Aligned: 434
Modelled: 444
Confidence: 100.0%
Identity: 20%
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: 367 - 842
Aligned: 429
Modelled: 439
Confidence: 100.0%
Identity: 19%
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: 409 - 765
Aligned: 346
Modelled: 357
Confidence: 100.0%
Identity: 27%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 2olu chain A domain 2

3D model

Region: 405 - 782
Aligned: 363
Modelled: 373
Confidence: 100.0%
Identity: 21%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 2wad chain B

3D model

Region: 203 - 749
Aligned: 504
Modelled: 534
Confidence: 100.0%
Identity: 17%
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 1pmd chain A

3D model

Region: 274 - 761
Aligned: 451
Modelled: 454
Confidence: 100.0%
Identity: 15%
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: 418 - 750
Aligned: 308
Modelled: 333
Confidence: 100.0%
Identity: 24%
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: 423 - 772
Aligned: 333
Modelled: 350
Confidence: 100.0%
Identity: 15%
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: 433 - 750
Aligned: 292
Modelled: 318
Confidence: 100.0%
Identity: 24%
PDB header:hydrolase/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of pbp3 complexed with imipenem

Phyre2

PDB 3ue3 chain A

3D model

Region: 433 - 760
Aligned: 298
Modelled: 328
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 3hzs chain A

3D model

Region: 210 - 397
Aligned: 183
Modelled: 188
Confidence: 100.0%
Identity: 31%
PDB header:transferase
Chain: A: PDB Molecule:monofunctional glycosyltransferase;
PDBTitle: s. aureus monofunctional glycosyltransferase (mtga)in complex with2 moenomycin

Phyre2

PDB 3oc2 chain A

3D model

Region: 433 - 750
Aligned: 285
Modelled: 318
Confidence: 100.0%
Identity: 26%
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 1rp5 chain A domain 4

3D model

Region: 441 - 761
Aligned: 309
Modelled: 321
Confidence: 100.0%
Identity: 17%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2

PDB 3equ chain B

3D model

Region: 433 - 760
Aligned: 297
Modelled: 328
Confidence: 100.0%
Identity: 21%
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 1pyy chain A domain 4

3D model

Region: 441 - 761
Aligned: 310
Modelled: 321
Confidence: 100.0%
Identity: 15%
Fold: beta-lactamase/transpeptidase-like
Superfamily: beta-lactamase/transpeptidase-like
Family: beta-Lactamase/D-ala carboxypeptidase

Phyre2
1

c3fwlA_
2

c3dwkC_
3

c2olvA_
4

c3udiA_
5

c2jciA_
6

c2bg1A_
7

d2bg1a1
8

d2c5wb1
9

d2olua2
10

c2wadB_
11

c1pmdA_
12

c3lo7A_
13

c1qmfA_
14

c3pbqA_
15

c3ue3A_
16

c3hzsA_
17

c3oc2A_
18

d1rp5a4
19

c3equB_
20

d1pyya4
21



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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3fwlA_



100.0 97 PDB header:transferase, hydrolase
Chain: A: PDB Molecule:penicillin-binding protein 1b;
PDBTitle: crystal structure of the full-length transglycosylase pbp1b2 from escherichia coli
2c3dwkC_



100.0 27 PDB header:transferase
Chain: C: PDB Molecule:penicillin-binding protein 2;
PDBTitle: identification of dynamic structural motifs involved in2 peptidoglycan glycosyltransfer
3c2olvA_



100.0 26 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 35 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 19 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 20 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 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
8d2c5wb1



100.0 27 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
9d2olua2



100.0 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
10c2wadB_



100.0 17 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)
11c1pmdA_



100.0 15 PDB header:peptidoglycan synthesis
Chain: A: PDB Molecule:peptidoglycan synthesis multifunctional enzyme;
PDBTitle: penicillin-binding protein 2x (pbp-2x)
12c3lo7A_



100.0 24 PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding protein a;
PDBTitle: crystal structure of pbpa from mycobacterium tuberculosis
13c1qmfA_



100.0 15 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 24 PDB header:hydrolase/antibiotic
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of pbp3 complexed with imipenem
15c3ue3A_



100.0 26 PDB header:transferase
Chain: A: PDB Molecule:septum formation, penicillin binding protein 3,
PDBTitle: crystal structure of acinetobacter baumanni pbp3
16c3hzsA_



100.0 31 PDB header:transferase
Chain: A: PDB Molecule:monofunctional glycosyltransferase;
PDBTitle: s. aureus monofunctional glycosyltransferase (mtga)in complex with2 moenomycin
17c3oc2A_



100.0 26 PDB header:penicillin-binding protein
Chain: A: PDB Molecule:penicillin-binding protein 3;
PDBTitle: crystal structure of penicillin-binding protein 3 from pseudomonas2 aeruginosa
18d1rp5a4



100.0 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
19c3equB_



100.0 21 PDB header:biosynthetic protein
Chain: B: PDB Molecule:penicillin-binding protein 2;
PDBTitle: crystal structure of penicillin-binding protein 2 from neisseria2 gonorrhoeae
20d1pyya4



100.0 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
21d2oqoa1



not modelled 100.0 44 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:PBP transglycosylase domain-like
22d2olua1



not modelled 100.0 32 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:PBP transglycosylase domain-like
23d1vqqa3



not modelled 100.0 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
24c1mwuA_



not modelled 100.0 20 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 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
26c2iwdA_



not modelled 100.0 18 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 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
28c3if6C_



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
29d1m6ka_



not modelled 100.0 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
30d1k55a_



not modelled 100.0 13 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
31d1nrfa_



not modelled 100.0 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
32c2jc7A_



not modelled 100.0 17 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 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
34c3hbrD_



not modelled 100.0 16 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
36d1dy6a_



not modelled 99.9 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
37c2xftA_



not modelled 99.9 12 PDB header:hydrolase
Chain: A: PDB Molecule:orf12;
PDBTitle: structural and mechanistic studies on a cephalosporin esterase from2 the clavulanic acid biosynthesis pathway
38c2wuqA_



not modelled 99.9 15 PDB header:transcription
Chain: A: PDB Molecule:beta-lactamase regulatory protein blab;
PDBTitle: crystal structure of blab protein from streptomyces cacaoi
39c2qpnA_



not modelled 99.9 19 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase ges-1;
PDBTitle: ges-1 beta-lactamase
40d1g6aa_



not modelled 99.9 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
41d1iysa_



not modelled 99.8 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
42c2ov5A_



not modelled 99.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:carbapenemase;
PDBTitle: crystal structure of the kpc-2 carbapenemase
43d2cc1a1



not modelled 99.8 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
44d1e25a_



not modelled 99.8 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
45c2j7vA_



not modelled 99.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:tll2115 protein;
PDBTitle: structure of pbp-a
46c3lezA_



not modelled 99.8 15 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of a halotolerant bacterial beta-lactamase
47c3dw0B_



not modelled 99.8 18 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
48d1djaa_



not modelled 99.8 14 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
49d1buea_



not modelled 99.8 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
50d1bsga_



not modelled 99.8 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
51d1o7ea_



not modelled 99.7 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
52d1alqa_



not modelled 99.7 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
53d1m40a_



not modelled 99.7 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
54c1w7fB_



not modelled 99.7 19 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of the class a beta-lactamase bs32 inhibited with isocitrate
55d1n9ba_



not modelled 99.7 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
56c2v20A_



not modelled 99.7 16 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.
57c3qhyA_



not modelled 99.7 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
58c3cg5A_



not modelled 99.6 19 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of the covalent adduct formed between tb2 b-lactamase and clavulanate
59d1hzoa_



not modelled 99.6 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
60d1i2sa_



not modelled 99.5 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
61c1i2sA_



not modelled 99.5 19 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: beta-lactamase from bacillus licheniformis bs3
62c3p09B_



not modelled 99.4 14 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of beta-lactamase from francisella tularensis
63c3p09A_



not modelled 99.3 14 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of beta-lactamase from francisella tularensis
64c3cjmA_



not modelled 99.2 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
65d3beca2



not modelled 99.0 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
66c2bcfA_



not modelled 98.9 22 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.
67d1es5a_



not modelled 98.9 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
68c3a3jA_



not modelled 98.8 13 PDB header:hydrolase
Chain: A: PDB Molecule:pbp5;
PDBTitle: crystal structures of penicillin binding protein 5 from2 haemophilus influenzae
69c3mfdB_



not modelled 98.7 22 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
70d1w79a1



not modelled 98.7 29 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
71d1xp4a2



not modelled 98.6 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
72d2b2na1



not modelled 98.6 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
73c3hjhA_



not modelled 98.6 15 PDB header:hydrolase
Chain: A: PDB Molecule:transcription-repair-coupling factor;
PDBTitle: a rigid n-terminal clamp restrains the motor domains of the bacterial2 transcription-repair coupling factor
74c3fpnB_



not modelled 98.4 24 PDB header:dna binding protein
Chain: B: PDB Molecule:geobacillus stearothermophilus uvrb interaction
PDBTitle: crystal structure of uvra-uvrb interaction domains
75c2eyqA_



not modelled 98.4 16 PDB header:hydrolase
Chain: A: PDB Molecule:transcription-repair coupling factor;
PDBTitle: crystal structure of escherichia coli transcription-repair2 coupling factor
76d1t5la1



not modelled 98.4 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
77d2eyqa4



not modelled 98.3 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
78c3it9B_



not modelled 98.3 19 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
79c1z6fA_



not modelled 98.3 19 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
80c3a3eB_



not modelled 98.1 18 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)
81c1xp4C_



not modelled 98.1 15 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
82d1tvfa2



not modelled 97.9 11 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
83c1tvfA_



not modelled 97.9 12 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
84c3humB_



not modelled 97.9 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
85c3ih9A_



not modelled 97.5 21 PDB header:hydrolase
Chain: A: PDB Molecule:salt-tolerant glutaminase;
PDBTitle: crystal structure analysis of mglu in its tris form
86c3czdA_



not modelled 97.4 16 PDB header:hydrolase
Chain: A: PDB Molecule:glutaminase kidney isoform;
PDBTitle: crystal structure of human glutaminase in complex with l-glutamate
87c2pbyB_



not modelled 97.4 15 PDB header:hydrolase
Chain: B: PDB Molecule:glutaminase;
PDBTitle: probable glutaminase from geobacillus kaustophilus hta426
88c2qmiH_



not modelled 97.4 21 PDB header:hydrolase
Chain: H: PDB Molecule:pbp related beta-lactamase;
PDBTitle: structure of the octameric penicillin-binding protein2 homologue from pyrococcus abyssi
89c3uo9B_



not modelled 97.1 16 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
90c2dfwA_



not modelled 97.0 18 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
91d1yqsa1



not modelled 96.9 21 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
92d2drwa1



not modelled 96.9 16 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
93d1onha_



not modelled 96.8 15 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
94d1rgya_



not modelled 96.5 12 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
95d1w5da1



not modelled 96.4 26 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
96c3ozhA_



not modelled 96.3 18 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase/d-alanine carboxypeptidase;
PDBTitle: crystal structure of beta-lactamase/d-alanine carboxypeptidase from2 yersinia pestis
97d2hdsa1



not modelled 96.2 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
98c3i7jB_



not modelled 96.0 20 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
99d2ex2a1



not modelled 96.0 20 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Dac-like
100c2qz6A_



not modelled 95.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: first crystal structure of a psychrophile class c beta-2 lactamase
101c3o3vB_



not modelled 95.5 16 PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase;
PDBTitle: crystal structure of clbp peptidase domain
102c2wzzA_



not modelled 95.4 20 PDB header:hydrolase
Chain: A: PDB Molecule:beta-lactamase;
PDBTitle: amp-c beta-lactamase (pseudomonas aeruginosa)in complex2 with compound m-03
103c1zkjA_



not modelled 94.9 16 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
104d1mkia_



not modelled 93.8 19 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Glutaminase
105d1ci9a_



not modelled 92.7 17 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
106d1u60a_



not modelled 92.6 24 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:Glutaminase
107c3tg9A_



not modelled 86.2 20 PDB header:penicillin binding protein
Chain: A: PDB Molecule:penicillin-binding protein;
PDBTitle: the crystal structure of penicillin binding protein from bacillus2 halodurans
108d2dcfa1



not modelled 83.4 18 Fold:beta-lactamase/transpeptidase-like
Superfamily:beta-lactamase/transpeptidase-like
Family:beta-Lactamase/D-ala carboxypeptidase
109c3hleA_



not modelled 83.2 16 PDB header:transferase
Chain: A: PDB Molecule:transesterase;
PDBTitle: simvastatin synthase (lovd), from aspergillus terreus, s5 mutant, s76a2 mutant, complex with monacolin j acid
110d1jz8a3



not modelled 50.6 22 Fold:Galactose-binding domain-like
Superfamily:Galactose-binding domain-like
Family:beta-Galactosidase/glucuronidase, N-terminal domain
111d2ieaa3



not modelled 43.1 12 Fold:TK C-terminal domain-like
Superfamily:TK C-terminal domain-like
Family:Transketolase C-terminal domain-like
112c2a6eF_



not modelled 40.8 20 PDB header:transferase
Chain: F: PDB Molecule:rna polymerase sigma factor rpod;
PDBTitle: crystal structure of the t. thermophilus rna polymerase2 holoenzyme
113d1smyf3



not modelled 21.5 17 Fold:Sigma2 domain of RNA polymerase sigma factors
Superfamily:Sigma2 domain of RNA polymerase sigma factors
Family:Sigma2 domain of RNA polymerase sigma factors

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