Penicillin-binding protein 3D structures: Difference between revisions

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New page: ==3D structures of penicillin-binding protein== Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} {{#tree:id=OrganizedByTopic|openlevels=0| *'''Penicillin-bind...
 
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*'''Penicillin-binding protein'''
*'''Penicillin-binding protein 1'''; Domains - dimerization 39-233; transpeptidase (TP) 234-588; PASTA 597-713


**[[1qme]], [[1rp5]], [[2z2l]], [[5oau]] – SpPBP 2X – ''Streptococcus pneumoniae''<br />
**[[2c6w]], [[2v2f]] - SpPBP 1A - ''Streptococcus pneumoniae''<br />
**[[2fff]], [[7zuh]] - SpPBP 1B<br />
**[[2bg1]], [[2xd5]] - SpPBP 1B (mutant) <br />
**[[3vma]] – EcPBP 1B - ''Escherichia coli''<br />
**[[7lq6]] – EcPBP 1B – Cryo EM<br />
**[[6g5r]], [[6fzk]] – EcPBP 1B UB2H domain 108-200 – NMR<br />
**[[7o49]], [[8vbt]], [[8vbu]], [[8vbv]], [[8vbw]] - SaPBP 1 – ''Staphylococcus aureus''<br />
**[[5tro]] - SaPBP 1 dimerization and TP domains<br />
**[[7o4c]], [[7o61]] - SaPBP 1 PASTA domain<br />
**[[2oqo]] – AaPBP 1A – ''Aquifex aeolicus''<br />
**[[5u2g]] – HiPBP 1A – ''Haemophilus influenza''<br />
**[[3lo7]], [[3un7]], [[4rye]], [[5crf]] – MtPBP A – ''Mycobacterium tuberculosis''<br />
**[[3tg9]] – PBP – ''Bacillus halodurans''<br />
**[[3udf]] – AbPBP 1A – ''Acinetobacter baumannii''<br />
**[[7u4h]] – CtPBP 1A – ''Chlamydia trachomatis''<br />
**[[1skf]] – StPBP - ''Streptomyces''<br />
**[[1es2]], [[1es3]], [[1es4]], [[1es5]], [[1esi]], [[1j9m]] – StPBP (mutant) <br />
**[[1w79]], [[1w8q]], [[1w8y]] – AcPBP - ''Actinomadura''<br />
**[[6osu]] – PBP – ''Francisella tularensis'' <br />
 
*'''Penicillin-binding protein 2'''
 
**[[1pmd]], [[1qme]], [[1rp5]], [[2z2l]], [[5oau]] – SpPBP 2X <br />
**[[1k25]], [[1pyy]] – SpPBP 2X (mutant) <br />
**[[1k25]], [[1pyy]] – SpPBP 2X (mutant) <br />
**[[5u47]] - PBP 2X – ''Streptococcus thermophilus''<br />
**[[2fff]] - SpPBP 1B<br />
**[[2bg1]], [[2xd5]] - SpPBP 1B (mutant) <br />
**[[2c6w]], [[2v2f]] - SpPBP 1A <br />
**[[2wad]], [[2wae]], [[2waf]] – SpPBP 2B<br />
**[[2wad]], [[2wae]], [[2waf]] – SpPBP 2B<br />
**[[3vma]] – EcPBP 1B - ''Escherichia coli''<br />
**[[1mwr]], [[1vqq]], [[4bl2]], [[4bl3]], [[4cpk]] - SaPBP 2A (mutant) <br />
**[[6g5r]], [[6fzk]] – EcPBP 1B UB2H domain – NMR<br />
**[[2olu]], [[3dwk]], [[5m1a]], [[5m19]], [[5m18]] – SaPBP 2<br />
**[[4bjp]] – EcPBP 3 residues 67-577<br />
**[[3equ]] – NgPBP 2 dimerization+TP domain – ''Neisseria gonorrhoeae''<br />
**[[3eqv]], [[5ksh]] – NgPBP 2 dimerization+TP domain (mutant) <br />
**[[6p52]], [[6p53]] – NgPBP 2 TP domain<br />
**[[4u3t]], [[6p56]], [[6vbc]], [[6vbl]], [[6vbm]], [[6xqv]], [[6xqx]], [[6xqz]], [[8vbz]], [[8ven]], [[8vp]], [[8veq]], [[9z0w]], [[9z0x]], [[9z0y]], [[9z5t]] – NgPBP 2 TP domain (mutant)
**[[7zg8]], [[8zpc]] – AbPBP 2 <br />
**[[5dvy]], [[5e31]] – EfPBP 2 – ''Enterococcus faecium''<br />
**[[5lp4]] – HpPBP 2 – ''Helicobacter pylori''<br />
**[[6tii]] – YpPBP 2 dimerization+TP domains – ''Yersinia pestis''<br />
**[[6tud]] – YpPBP 2 TP domain <br />
**[[5u47]] - PBP 2X – ''Streptococcus thermophilus<''br />
**[[7rcx]] – CdPBP 2 – ''Clostridium difficile''<br />
**[[8yjx]] – PBP 2 – ''Campylobacter jejuni''<br />
 
*'''Penicillin-binding protein 3'''
 
**[[4bjp]], [[7ono]] – EcPBP 3 dimerization+TP domain<br />
**[[6hzq]] – EcPBP 3 TP domain <br />
**[[4bjq]] – EcPBP 3 residues 88-165<br />
**[[4bjq]] – EcPBP 3 residues 88-165<br />
**[[3vsk]] - SaPBP 3<br />
**[[7bn9]] – BsPBP 3 – ''Bacillus subtilis''<br />
**[[6hzo]] – HiPBP 3 TP domain<br />
**[[6kgh]] – MtPBP 3<br />
**[[3oc2]], [[3pbn]], [[6hr4]], [[6hzr]], [[7onx]], [[7ony]], [[7onz]], [[9fz8]] – PaPBP 3 – ''Pseudomonas aeruginosa''<br />
**[[6r40]] - PaPBP 3 (mutant)<br />
**[[6hzh]] – CtPBP 3 TP domain <br />
**[[6hzi]] – PBP 3 TP domain – ''Burkholderia pseudomallei''<br />
**[[6syn]] – YpPBP 3 dimerization+TP domains <br />
**[[7rd0]] – CdPBP 3 <br />
**[[8c5b]] – SePBP 3 – ''Staphylococcus epidermidis''<br />
*'''Penicillin-binding protein 4'''
**[[2ex2]] – EcPBP 4<br />
**[[2ex2]] – EcPBP 4<br />
**[[1tvf]], [[6c39]] – SaPBP 4<br />
**[[6dz8]], [[6c3k]], [[7kcv]] – SaPBP 4 (mutant)<br />
**[[1w5d]] – BsPBP 4A <br />
**[[3a3d]] – HiPBP 4 <br />
**[[3zg7]], [[5zqa]] – LmPBP 4 – ''Listeria monocytogenes''<br />
**[[6bsq]] - EfPBP 4<br />
*'''Penicillin-binding protein 5'''
**[[1nzo]], [[1nzu]] – EcPBP 5<br />
**[[1nzo]], [[1nzu]] – EcPBP 5<br />
**[[1hd8]], [[1nj4]], [[1sdn]] – EcPBP 5 (mutant) <br />
**[[1hd8]], [[1nj4]], [[1sdn]] – EcPBP 5 (mutant) <br />
**[[3it9]] – EcPBP 6<br />
**[[5tro]] - SaPBP 1 dimerization and transpeptidation domains – ''Staphylococcus aureus''<br />
**[[1mwr]], [[1vqq]], [[4bl2]], [[4bl3]], [[4cpk]] - SaPBP 2A (mutant) <br />
**[[2olu]], [[3dwk]], [[5m1a]], [[5m19]], [[5m18]] – SaPBP 2<br />
**[[3vsk]] - SaPBP 3<br />
**[[1tvf]] – SaPBP 4<br />
**[[6dz8]], [[6c3k]] – SaPBP 4 (mutant)<br />
**[[1w5d]] – BsPBP 4A – ''Bacillus subtilis''<br />
**[[3mfd]] – BsPBP 5*<br />
**[[3mfd]] – BsPBP 5*<br />
**[[2oqo]] – AaPBP 1A – ''Aquifex aeolicus''<br />
**[[3equ]] – NgPBP 2 – ''Neisseria gonorrhoeae''<br />
**[[3eqv]], [[5ksh]] – NgPBP 2 (mutant) <br />
**[[6p52]], [[6p53]] – NgPBP 2 transpeptidase domain<br />
**[[6p56]], [[4u3t]] – NgPBP 2 transpeptidase domain (mutant)<br />
**[[5u2g]] – HiPBP 1A – ''Haemophilus influenza''<br />
**[[3a3d]] – HiPBP 4 <br />
**[[3a3j]] – HiPBP 5<br />
**[[3a3j]] – HiPBP 5<br />
**[[3lo7]], [[3un7]], [[5crf]] – MtPBP A – ''Mycobacterium tuberculosis''<br />
**[[6c84]], [[6mka]], [[6mkj]], [[8f67]], [[8u55]] - EfPBP 5 <br />
**[[3oc2]], [[3pbn]], [[6hr4]] – PaPBP 3 – ''Pseudomonas aeruginosa''<br />
**[[6g0k]], [[8f3f]], [[8f3j]], [[8f3l]], [[8f3m]], [[8f3o]], [[8f3p]], [[8f3q]], [[8f3s]], [[8f3t]], [[8f3u]], [[8f3v]], [[8f3w]], [[8f3x]], [[8f3y]], [[8f3z]], [[9d25]] - EfPBP 5 (mutant)<br />
**[[3tg9]] – PBP – ''Bacillus halodurans''<br />
**[[4k91]] – PaPBP 5<br />
**[[3udf]] – AbPBP – ''Acinetobacter baumannii''<br />
 
**[[3zg7]] – LmPBP 4 – ''Listeria monocytogenes''<br />
*'''Penicillin-binding protein 6'''
**[[5dvy]], [[5e31]] – EfPBP 2 – ''Enterococcus faecium''<br />
 
**[[6bsq]] - EfPBP 4<br />
**[[3it9]], [[5fsr]] – EcPBP 6<br />
**[[6g0k]] - EfPBP 5 (mutant)<br />
 
**[[5lp4]] – HpPBP 2 – ''Helicobacter pylor''i<br />
*Penicillin-binding protein 1 complex with antibiotics
 
**[[2c5w]] - SpPBP 1A + antibiotic<br />
**[[2jch]], [[2je5]], [[2xd1]], [[9ssd]], [[9sse]], [[9ssf]], [[9ssg]], [[9ssh]], [[9ssi]] - SpPBP 1B (mutant) + antibiotic<br />
**[[7o4a]], [[7o4b]] - SaPBP 1 + antibiotic<br />
**[[2uwx]] - SaPBP 1B (mutant) + antibiotic<br />
**[[3fwl]], [[5hld]], [[5hlb]], [[5hla]], [[5hl9]] – EcPBP 1B + antibiotic<br />
**[[4oon]], [[5df7]], [[5df8]], [[5df9]] – PaPBP 1A + antibiotic<br />
**[[3nb6]], [[3nb7]] - AaPBP 1A + antibiotic<br />
**[[3udi]], [[3udx]], [[3ue0]], [[3ue1]] - AbPBP + antibiotic<br />
**[[3upn]], [[3upp]], [[4ppr]], [[5cxw]] - MtPBP A + antibiotic<br />
**[[3upo]] - MtPBP A (mutant) + antibiotic<br />
**[[2wke]], [[4ben]] – AcPBP + antibiotic <br />


*Penicillin-binding protein complex with antibiotics
*Penicillin-binding protein 2 complex with antibiotics


**[[1qmf]], [[2z2m]], [[2zc3]], [[2zc4]], [[2zc5]], [[2zc6]], [[5oj1]], [[5oj0]], [[5oiz]] – SpPBP 2X + antibiotic<br />
**[[6h5o]] - SaPBP 2A + antibiotic<br />
**[[6q9n]] - SaPBP 2A + antibiotic + inhibitor<br />
**[[1mwu]], [[1mwt]], [[1mws]] - SaPBP 2A (mutant) + antibiotic<br />
**[[1mwu]], [[1mwt]], [[1mws]] - SaPBP 2A (mutant) + antibiotic<br />
**[[2uwx]] - SaPBP 1B (mutant) + antibiotic<br />
**[[2olv]] - SaPBP 2 + antibiotic<br />
**[[2olv]] - SaPBP 2 + antibiotic<br />
**[[3zfz]], [[3zg0]], [[4dki]] - SaPBP 2’ + antibiotic<br />
**[[3zfz]], [[3zg0]], [[4dki]] - SaPBP 2’ + antibiotic<br />
**[[6p54]], [[6p55]], [[6vbd]], [[6xqy]]  – NgPBP 2 TP domain + antibiotic<br />
**[[6tix]], [[6xv5]] – YpPBP 2 TP domain + antibiotic<br />
**[[7rcw]], [[7rcy]] – CdPBP 2 + antibiotic <br />
**[[1qmf]], [[2z2m]], [[2zc3]], [[2zc4]], [[2zc5]], [[2zc6]], [[5oj1]], [[5oj0]], [[5oiz]] – SpPBP 2X + antibiotic<br />
*Penicillin-binding protein 3 complex with antibiotics
**[[3vsl]] - SaPBP 3 + antibiotic<br />
**[[3vsl]] - SaPBP 3 + antibiotic<br />
**[[5txi]], [[5ty7]], [[5tw8]] - SaPBP 4 + antibiotic<br />
**[[6i1i]] – EcPBP 3 TP domain + antibiotic<br />
**[[3hum]], [[3hun]], [[5ty2]], [[5tx9]], [[5tw4]] - SaPBP 4 (mutant) + antibiotic<br />
**[[3ocl]], [[3ocn]], [[3pbo]], [[3pbq]], [[3pbr]], [[3pbs]], [[3pbt]], [[4kqo]], [[4kqq]], [[4kqr]], [[4l0l]], [[6un1]], [[6hr6]], [[6i1e]], [[6r3x]], [[6un3]], [[6vje]], [[7jwl]], [[7lc4]], [[9fz7]], [[9fze]], [[9fzo]], [[9fzp]] – PaPBP 3 + antibiotic<br />
**[[2c5w]] - SpPBP 1A + antibiotic<br />
**[[6hr9]], [[6r42]] – PaPBP 3 (mutant) + antibiotic<br />
**[[2jch]], [[2je5]], [[2xd1]] - SpPBP 1B (mutant) + antibiotic<br />
**[[6kgs]], [[6kgt]], [[6kgu]], [[6kgv]], [[6kgw]] – MtPBP 3 + antibiotic<br />
**[[6i1f]], [[6i1g]], [[6i1h]] – CtPBP 3 TP domain + antibiotic<br />
**[[8c5o]], [[8c5w]] – SePBP 3 + antibiotic<br />
 
*Penicillin-binding protein 4 complex with antibiotics
 
**[[5txi]], [[5ty7]], [[5tw8]], [[7kcy]] - SaPBP 4 + antibiotic<br />
**[[3hum]], [[3hun]], [[5ty2]], [[5tx9]], [[5tw4]], [[7kcw]], [[7kcx]] - SaPBP 4 (mutant) + antibiotic<br />
**[[2ex6]], [[2ex8]], [[2ex9]], [[2exa]], [[2exb]] - EcPBP 4 + antibiotic<br />
**[[2ex6]], [[2ex8]], [[2ex9]], [[2exa]], [[2exb]] - EcPBP 4 + antibiotic<br />
**[[3beb]], [[3bec]], [[3mzd]], [[3mze]], [[3mzf]] - EcPBP 5 + antibiotic<br />
**[[3ita]] - EcPBP 6 + antibiotic<br />
**[[3fwl]], [[5hld]], [[5hlb]], [[5hla]], [[5hl9]] – EcPBP 1B + antibiotic<br />
**[[3a3e]], [[3a3f]], [[3a3i]] – HiPBP 4 + antibiotic<br />
**[[3a3e]], [[3a3f]], [[3a3i]] – HiPBP 4 + antibiotic<br />
**[[4oon]] – PaPBP 1A + antibiotic<br />
**[[3zg8]], [[3zg9]], [[3zga]], [[5zqb]], [[5zqc]], [[5zqd]], [[5zqf]] - LmPBP 4 + antibiotic<br />
**[[3ocl]], [[3ocn]], [[3pbo]], [[3pbq]], [[3pbr]], [[3pbs]], [[3pbt]], [[4kqo]], [[4kqq]], [[4kqr]], [[4l0l]], [[6un1]], [[6hr6]] – PaPBP 3 + antibiotic<br />
**[[6hr9]] – PaPBP 3 (mutant) + antibiotic<br />
**[[3nb6]], [[3nb7]] - AaPBP 1A + antibiotic<br />
**[[3udi]], [[3udx]], [[3ue0]], [[3ue1]] - AbPBP + antibiotic<br />
**[[3upn]], [[3upp]], [[5cxw]] - MtPBP A + antibiotic<br />
**[[3upo]] - MtPBP A (mutant) + antibiotic<br />
**[[3zg8]], [[3zg9]], [[3zga]] - LmPBP 4 + antibiotic<br />
**[[6mkh]], [[6mki]], [[6bsr]] - EfPBP 4 + antibiotic<br />
**[[6mkh]], [[6mki]], [[6bsr]] - EfPBP 4 + antibiotic<br />
**[[6g88]] - EfPBP 5 + antibiotic<br />
 
**[[6p54]], [[6p55]] – NgPBP 2 transpeptidase domain + antibiotic<br />
*Penicillin-binding protein 5 complex with antibiotics
 
**[[3beb]], [[3bec]], [[3mzd]], [[3mze]], [[3mzf]], [[6ntz]] - EcPBP 5 + antibiotic<br />
**[[6g88]], [[6mkf]], [[6mkg]] - EfPBP 5 + antibiotic<br />
**[[8f3g]], [[8f3h]], [[8f3i]], [[8f3n]], [[8f3r]] - EfPBP 5 (mutant) + antibiotic<br />
 
*Penicillin-binding protein 6 complex with antibiotics
 
**[[3ita]] - EcPBP 6 + antibiotic<br />


*Penicillin-binding protein complex with boronic acid derivatives
*Penicillin-binding protein complex with boronic acid derivatives


**[[1z6f]] – EcPBP 5 + boronic acid<br />
**[[2y2g]], [[2y2h]], [[2y2i]], [[2y2j]], [[2y2k]], [[2y2l]], [[2y2m]], [[2y2n]], [[2y2o]], [[2y2p]], [[2y2q]] - SpPBP 1B + boronic acid derivative<br />
**[[2y2g]], [[2y2h]], [[2y2i]], [[2y2j]], [[2y2k]], [[2y2l]], [[2y2m]], [[2y2n]], [[2y2o]], [[2y2p]], [[2y2q]] - SpPBP 1B + boronic acid derivative
**[[2xk1]], [[2xln]], [[2y4a]], [[2y55]], [[2y59]], [[3zvt]], [[3zvw]], [[4b4x]], [[4b4z]] – AcPBP + boronic acid derivative <br />
**[[9mcz]], [[9md0]] – NgPBP 2 TP domain + boronic acid derivative<br />
**[[7atm]], [[7ato]], [[7atw]], [[7atx]], [[7au0]], [[7au1]], [[7au8]], [[7au9]], [[7aub]], [[7auh]], [[7kis]], [[7kit]], [[7kiv]], [[7kiw]], [[7ly1]] - PaPBP 3 + boronic acid derivative <br />
**[[1z6f]], [[5fsr]] – EcPBP 5 + boronic acid derivative<br />


*Penicillin-binding protein complex with peptidoglycan
*Penicillin-binding protein complex with peptidoglycan
Line 86: Line 155:
**[[2j9p]] - BsPBP 4A + peptidoglycan peptide<br />
**[[2j9p]] - BsPBP 4A + peptidoglycan peptide<br />
**[[3zg5]] - SaPBP + peptidoglycan analog<br />
**[[3zg5]] - SaPBP + peptidoglycan analog<br />
**[[2vgj]], [[2vgk]], [[2xdm]] – AcPBP + peptidoglycan analog <br />


*Penicillin-binding protein complex with other inhibitors
*Penicillin-binding protein other complexes


**[[4fsf]], [[4wel]], [[4wej]] - PaPBP 3 + inhibitor<br />
**[[9sg5]], [[9sg6]], [[9sg7]], [[9sg8]], [[9sg9]], [[9sga]], [[9sgb]], [[9sgc]], [[9sgd]], [[9sge]] – SpPBP 1B + monobactam<br />
**[[4wek]] – PaPBP 3 (mutant) + inhibitor<br />
**[[7zui]], [[7zuj]], [[7zuk]], [[7zul]] – SpPBP 1B + lactone<br />
**[[5fgz]] – EcPBP 1B + inhibitor<br />
**[[5fgz]] – EcPBP 1B + inhibitor<br />
**[[6yn0]] – EcPBP 1B + FtsN peptide<br />
**[[7ok9]] – SaPBP 1 + pentaglycine<br />
**[[3zcz]] – AcPBP + inhibitor <br />
**[[8gpw]] – PBP + ligand – ''Klebsiella pneumoniae'' <br />
**[[6g9f]], [[6g9p]], [[6g9s]] – EcPBP 2 + inhibitor<br />
**[[4cjn]] – SaPBP 2A + quinazolinine derivative<br />
**[[4cjn]] – SaPBP 2A + quinazolinine derivative<br />
**[[6g9f]], [[6g9p]], [[6g9s]] – EcPBP 2 + inhibitor<br />
**[[6g9f]], [[6g9p]], [[6g9s]] – EcPBP 2 + inhibitor<br />
**[[5lp5]] – HpPBP 2 + MREC <br />
**[[5lp5]] – HpPBP 2 + MREC <br />
 
**[[6pl5]], [[6pl6]] - PBP 2 + PGT + peptide – ''Thermus thermophilus''<br />
*PBP D-alanyl-D-alanine carboxypeptidase or DD-transpeptidase
**[[7onk]], [[7onn]], [[7onw]] – EcPBP 3 dimerization+TP domain + inhibitor<br />
 
**[[8rtz]] – EcPBP 3 + peptide inhibitor<br />
**[[1skf]] – StDADC - Streptomyces<br />
**[[4fsf]], [[4wel]], [[4wej]], [[6vot]], [[6y6u]], [[6y6z]] - PaPBP 3 + inhibitor<br />
**[[1es2]], [[1es3]], [[1es4]], [[1es5]], [[1esi]], [[1j9m]] – StDADC (mutant) <br />
**[[4wek]] – PaPBP 3 (mutant) + inhibitor<br />
**[[1w79]], [[1w8q]], [[1w8y]] – AcDADC - Actinomadura<br />
**[[2wke]], [[4ben]] – AcDADC + antibiotic <br />
**[[2xk1]], [[2xln]], [[2y4a]], [[2y55]], [[2y59]], [[3zvt]], [[3zvw]], [[4b4x]], [[4b4z]] – AcDADC + boronic acid derivative <br />
**[[2vgj]], [[2vgk]], [[2xdm]] – AcDADC + peptidoglycan analog <br />
**[[3zcz]] – AcDADC + inhibitor <br />
**[[4rye]] – MtDADC  <br />
**[[4ppr]] – MtDACB1 + antibiotic <br />
**[[5fsr]] – EcDADC  <br />
**[[5j8x]] – EcDACA + boronic acid derivative <br />
**[[6ntz]] – EcDADC + antibiotic <br />
**[[6osu]] – DADC – ''Francisella tularensis'' <br />


}}
}}


[[Category:Topic Page]]
[[Category:Topic Page]]
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