Aldolase 3D structures

3D structures of Aldolase

Updated on 14-March-2021

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• Fructose–1,6-bisphosphate aldolase
  • 1xfb, 1qo5, 2ald, 1ald, 5ky6 – hFBPA – human
    
  • 1xdl, 1xdm – hFBPA (mutant)
    
  • 1zah, 1fdj, 1ewd, 1ewe, 1ex5, 1ado, 5vy5 - rFBPA – rabbit
    
  • 3dfn, 3dfp, 3dfq, 3dft, 2bv4, 3b8d, 3bv4, 5f4x – rFBPA (mutant)
    
  • 6v20 - rFBPA – Cryo EM
    
  • 1fba – FBPA – Drosophila melanogaster
    
  • 1ojx, 1ok6 – TptFBPA – Thermoproteus tenax
    
  • 3qrh – EncFBPA – Encephalitozoon cuniculi
    
  • 3qm3 - FBPA – Campylobacter jejuni
    
  • 3q94 – BaFBPA – Bacullus anthracis
    
  • 3c4u – HpFBPA – Helicobacter pylori
    
  • 3kx6 – FBPA – Babesia bovis
    
  • 3gak – GiFBPA – Giardia intestinalis
    
  • 3ekl, 3ekz, 4def, 4del – MtFBPA – Mycobacterium tuberculosis
    
  • 2qap, 1epx – LmFBPA – Leishmania mexicana
    
  • 1a5c – PfFBPA – Plasmodium falciparum
    
  • 2iqt – FBPA – Porphyromonas gingivalis
    
  • 2fjk – FBPA – Thermus caldophilus
    
  • 1l6w – EcFBPA I - Escherichia coli
    
  • 1gyn, 1dos, 1zen, 5gk3, 5gk4, 5gk5, 5gk6, 5gk7, 5gk8 – EcFBPA II
    
  • 1f2j – FBPA – Trypanosoma brucei
    
  • 5o0w - FBPA – Trypanosoma congolense
    
  • 3t2b – TnFBPA – Thermoproteus neutrophilus
    
  • 4moz – FBPA – Slackia heliotrinireducens
    
  • 4d2j, 4tu1, 5tjs – TgFBPA – Toxoplasma gondii
    
  • 5u4n – FBPA – Neisseria gonorrhoeae
    
  • 6lnk – FBPA – Candida albicans
    
• FBPA complex
  • 4ald – hFBPA + FBP
    
  • 1zai - rFBPA + FBP
    
  • 6ald - rFBPA (mutant) + FBP
    
  • 2quv - rFBPA + phosphate
    
  • 2qut - rFBPA + reaction intermediate
    
  • 3dfo, 3dfs, 2quu - rFBPA (mutant) + reaction intermediate
    
  • 1j4e - rFBPA (mutant) + substrate
    
  • 2ot0 – rFBPA + Wiskott-Aldrich syndrome protein C-terminal
    
  • 2ot1, 1zaj, 1zal, 3tu9, 5tle, 5tlh, 5tlw, 5tlz – rFBPA + inhibitor
    
  • 3lge – rFBPA + Sorting Nexin-9
    
  • 6rng, 6rs1 – AtFBPA 6 + dipeptide - Arabidopsis thaliana
    
  • 3gay – GiFBPA + inhibitor
    
  • 3gb6 – GiFBPA + FBP
    
  • 2isv, 2isw - GiFBPA + oxamate
    
  • 3elf – MtFBPA + FBP
    
  • 4a21 – MtFBPA + sulfate
    
  • 4a22 – MtFBPA + hydroxamate BP
    
  • 4lv4 - MtFBPA + inhibitor
    
  • 2qdg - LmFBPA + FBP
    
  • 2qdh – LmFBPA + inhibitor
    
  • 2eph, 2pc4 – PfFBPA + BPTRAP C-terminal
    
  • 4tr9 – PfFBPA + BPTRAP C-terminal + inhibitor
    
  • 1rv8, 1rvg – FBPA + metal – Thermus aquaticus
    
  • 1b57 – EcFBPA + oxamate
    
  • 3t2c – TnFBPA + DHAP
    
  • 3t2g – TnFBPA (mutant) + DHAP
    
  • 3t2d – TnFBPA + FBP
    
  • 3t2e – TnFBPA + F6P
    
  • 3t2f – TnFBPA + EDTA + DHAP
    
  • 5tk3, 5tkc – TgFBPA + G3P + DHAP
    
  • 5tkn, 5tkp – TgFBPA + P6F
    
  • 5tkl – TgFBPA + P6F + DHAP
    
  • 2yce, 1ok4 – TptFBPA + reaction intermediate
    
  • 1w8s – TptFBPA + FBP
    
  • 3mbd – EncFBPA + phosphate
    
  • 3mbf - EncFBPA + FBP
    
  • 3n9r, 3n9s, 3c52, 3c56 - HpFBPA + inhibitor
    
  • 3mmt – FBPA + FBP – Bartonella henselae
    
  • 7nc7 – FBPA + dihydroxyacetonephosphate – Bacillus methanolicus
    
• Fructose–6-phosphate aldolase
  • 1l6w, 4s1f – EcF6PA 1
    
  • 4rz4, 4rxg, 4rxf, 5zol – EcF6PA 1 (mutant)
    
• Deoxyribose-phosphate aldolase
  • 3r12, 3r13, 1pvt – TmDERA – Thermotoga maritima
    
  • 3ndo – MsDERA – Mycobacterium smegmatis
    
  • 3ng3 – MsDERA + aldehyde
    
  • 2a4a – DERA – Plasmodium yoelii
    
  • 1vcv – DERA – Pyrobaculum aerophilum
    
  • 1p1x, 1ktn, 3npu, 3npv, 3npw, 3npx, 3nq2, 3nq8, 3nqv, 3nr0, 3q2d, 6z9j – EcDERA
    
  • 5emu, 5el1, 5eky, 6z9h - EcDERA (mutant)
    
  • 1jcj, 1jcl – EcDERA (mutant) + reaction intermediate
    
  • 6z9i - EcDERA (mutant) + G3P
    
  • 1n7k – ApDERA – Aeropyrum pernix
    
  • 1mzh – AaDERA - Aquifex aeolicus
    
  • 3ngj – DERA – Entamoeba histolytica
    
  • 4eiv – TgDERA
    
  • 4xbk – LbDERA (mutant) – Lactobacillus brevis
    
  • 5h91, 4xbs – LbDERA (mutant)
    
  • 5dbu, 5dbt – DERA - Streptococcus suis
    
  • 5c6m – DERA – Shewanella halifasensis
    
  • 5c5y, 5c2x – DERA – Colwellia psychrerythraea
    
  • 6d33 – BhDERA – Bacillus halodurans
    
  • 6msw – BhDERA (mutant) – Bacillus halodurans
    
• Dihydroneopterin aldolase
  • 1sql – AtDHNPA + guanine
    
  • 3r2e – YpDHNPA – Yersinia pestis
    
  • 6ojo – YpDHNPA + pterin
    
  • 2cg8 – SpDHNPA – Streptpcoccus pneumoniae
    
  • 2o90 – EcDHNPA + neopterin
    
  • 2nm2, 2nm3, 1u68, 2dhn - SaDHNPA + neopterin
    
  • 5f3m – BaDHNPA + neopterin
    
  • 1rri, 1rrw, 1rry, 1rs2, 1rs4, 1rsd, 1rsi, 1dhn - SaDHNPA + inhibitor
    
  • 1z9w – MtDHNPA
    
  • 3v9o - DHNPA + guanine – Burkholderia thailandensis
    
  • 5far – BcDHNPA + methylguanine – Bacillus cereus
    
• HpcH/HpaI aldolase
  • 3qz6 – HPA – Desulfitobacterium hafniense
    
  • 2v5j – EcHPA
    
  • 2v5k – EcHPA + oxamate
    
  • 4l7z – CaHHALD – Chloroflexus aurantiacus
    
  • 4l80 – CaHHALD + oxalate + propionyl-CoA
    
  • 4mf4 – BcHHALD - Burkholderia cenocepacia
    
  • 6kin – RcHHALD – Roseiflexus castenholzii
    
  • 6kkh – RcHHALD + oxalate
    
  • 6r62 – HHALD + hydroxypyruvate – Sphingomonas wittichii
    
• Sialic acid aldolase
  • 3lbm – EcSAA
    
  • 3lcf, 3lcg, 3lch, 3lci, 3lcl, 2wnq, 2wo5 - EcSAA (mutant)
    
  • 3lbc – EcSAA + L-arabinose
    
  • 2wnn – EcSAA + pyruvate
    
  • 2wnz, 2wkj - EcSAA (mutant) + pyruvate
    
  • 2wpb - EcSAA (mutant) + pyruvate + inhibitor
    
  • 3lcx - EcSAA L-KDO (mutant)
    
  • 3lcw - EcSAA L-KDO (mutant) + hydroxypyruvate
    
• Oxoadipate aldolase
  • 3noj – PpCHA-ALD – Pseudomonas putida
    
• Oxovalerate aldolase
  • 1nvm – OVA + acetaldehyde dehydrogenase - Pseudomonas
    
  • 4jn6 – MtOVA + acetaldehyde dehydrogenase
    
  • 4lrs, 4lrt – OVA + acetaldehyde dehydrogenase – Thermomonospora curvata
    
• 2-keto-3-deoxy-6-phosphogluconate aldolase (KDPG)
  • 3nzr – KDPG – Vibrio fischeri
    
  • 2r91, 2r94 – TptKDPG
    
  • 2yw3, 2yw4 – TtKDPG
    
  • 1vlw – TmKDPG
    
  • 1mxs, 1kga – PpKDPG
    
  • 1eun, 1fq0 – EcKDPG
    
  • 1fwr - EcKDPG (mutant)
    
  • 5xse - ZmKDPG – Zymomonas mobilis
    
• KDPG complex
  • 1wa3 - TmKDPG + pyruvate
    
  • 1eua - EcKDPG + pyruvate
    
  • 5xsf - ZmKDPG + pyruvate
    
  • 6ovi - KDPG + pyruvate derivative – Legionella pneumophila
    
  • 6g3z – SsKDPG + KDPG - Sulfolobus solfataricus
    
• 2-keto-3-deoxygluconate aldolase (KDG)
  • 2nuw, 2nux – SaKDG – Sulfolobus acidocaldarius
    
  • 2nuy – SaKDG + pyruvate
    
  • 1w37 - SsDDPGA
    
  • 6gso, 6gt8, 6h2r, 6h7r – SsKDG (mutant)
    
  • 6h7s – SsKDG (mutant) + KDG
    
  • 6gv2 – SsKDG (mutant) + KD-galactonate
    
  • 6g3z – SsKDG + KDPG
    
  • 1w3i - SsKDG + pyruvate
    
  • 6h2s - SsKDG (mutant) + pyruvate
    
  • 1w3n - SsKDG + gluconate
    
  • 1w3t - SsKDG + gluconate + pyruvate
    
  • 2yda – KDG – Vibrio fischeri
• Deoxyphosphooctonate aldolase
  • See Kdo-8-phosphate synthase
• 2-dehydro-3-deoxy-6-phosphogalactonate aldolase
  • 2v81 – EcKDPGAL
    
  • 2c0a – EcKDPGAL (mutant)
    
  • 4qcc – EcKDPGAL/peptidyl-prolyl cis-trans isomerase
    
  • 2v82 – EcKDPGAL + 2-keto-deoxy-galactose
    
• Deoxygalactarate aldolase
  • 1dxe – EcDGA
    
  • 1dxf – EcDGA + pyruvate
    
• 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase
  • 6bdd – KaALD + heme – Kordia algicida
    
  • 6bde – KaALD (mutant) + heme
    
• Phospho-2-dehydro-3-deoxyheptonate aldolase
  • See DHAP synthase
• 2-Dehydro-3-deoxyglucarate aldolase
  • See Citrate Synthase
• Aldolase class II
  • 3ocr – ALDII – Pseudomonas syringae
    
  • 2vws – EcALDII
    
  • 2vwt – EcALDII + pyruvate
    
• Fructose–1,6-bisphosphate aldolase
  • 4to8 – SsFBPA
    
  • 5u7s – ALD – Acinetobacter baumannii
    
  • 5vjd – EcALDII + DHAP + Zn
    
  • 5vje – EcALDII + glucitol bisphosphate + Zn
    
  • 5vjf, 5uck – HpALDII + DHAP + Zn
    
  • 5ucn, 5ucp, 5ucz, 5ud0, 5ud2 – HpALDII (mutant) + DHAP + Zn
    
  • 5ucs, 5ud1 – HpALDII (mutant) + Zn
    
  • 5ud3 – HpALDII (mutant) + diphosphono-fructose + Zn
    
  • 5ud4 – HpALDII (mutant) + diphosphono-tagatose + Zn
    
• Tagatose–1,6-bisphosphate aldolase
  • 3myo, 3myp, 3mhf, 3jrk – SpyTBPA – Streptococcus pyogenes
    
  • 5f2i – SpyDERA2 (mutant)
    
  • 5ff7 – SpyDERA + glycerol-3-phosphate + glyceraldehyde-3-phosphate
    
  • 5f4w – SpyDERA2 + phosphonotagatose
    
  • 5f4s – SpyDERA2 + phosphonofructose
    
  • 5f2g – SpyDERA2 (mutant) + phosphonofructose
    
  • 5f2m, 5f2l – SpyDERA2 + inhibitor
    
  • 3mhg - SpyTBPA + reaction intermediate
    
  • 3iv3 - TBPA – Streptococcus mutans
    
  • 3kao – SaTBPA – Staphylococcus aureus
    
  • 1gvf - EcTBPA
    
  • 5hjl - TBPA – Streptococcus porcinus
    
• Fuculose–1-phosphate aldolase
  • 2opi – FPA – Bacteroides thetaiotaomicron
    
  • 2flf, 2fk5 – TtFPA - Thermus thermophilus
    
  • 1fua, 2fua, 3fua – EcFPA
    
  • 1e46, 1e47, 1e48, 1e49, 1e4a, 1e4b, 1e4c, 1dzu, 1dzw, 1dzx, 1dzy, 1dzz, 1dzv – EcFPA (mutant)
    
  • 4fua – EcFPA + oxamate
    
  • 4c24 ,4c25 – SpFPA
    
  • 4xxf – FPA – Glaciozyma antarctica
    
  • 6btd – BtFPA – Bacillus thuringiensis
    
  • 6btg – BtFPA + DHAP
    
• Sphingosine-1-phosphate Aldolase or Sphingosine-1-phosphate lyase
  • 3mc6 – ySCDPL1 (mutant)
    
  • 4q6r – hSPL + inhibitor
    
• Rhamnulose-1-phosphate aldolase
  • 1gt7 – EcRPA
    
  • 2v9g, 2v9o, 2uyu, 2uyv, 2v9e, 2v9f, 2v9i, 2v9l, 2v9m, 2v9n, 2v29, 2v2a, 2v2b, 1ojr – EcRPA (mutant)
    
• 4-hydroxy-2-oxoglutarate aldolase
  • 3s5n, 3s5o - hOGA
    
  • 3m6y – BcOGA
    
  • 1wau, 1wbh – EcOGA (mutant)
    
• LsrF aldolase
  • 3gkf – EcLsrFA
    
  • 3glc, 3gnd – EcLsrFA + ribose derivative
    
  • 4p2v – EcLsrF (mutant) + hydroxt dioxopentyl dihydrogen phosphate
    
• Hydroxyaspartate aldolase
  • 6qkb – HAspA – Paracoccus dentrificuans
    
• Threonine aldolase
  • 2fm1, 1m6s, 1jg8 – TmThrA
    
  • 1lw4, 1lw5 – TmThrA + amino acid
    
  • 1svv – ThrA – Leishmania major
    
  • 4lnj, 3wlx – EcThrA
    
  • 4lnl, 4lnm, 4rjy – EcThrA + amino acid
    
  • 3wgb – AjThrA – Aeromonas jandaei
    
  • 3wgc – AjThrA (mutant)
    
  • 4v15 – ThrA – Achromobacter xylosoxidans
    
  • 5vye – PpThrA + pyridoxime derivative
    
  • 7k34 – ThrA – Pseudomonas fluorescens
    
• Phenylserine aldolase
  • 1v72 – PpFSA
    
  • 1j2w, 1ub3 - TtALD
    
• Metal-dependent pyruvate aldolase 2
  • 4b5x – EcPyrA (mutant)
    
  • 4b5s – EcPyrA + pyruvate + Co + Mg
    
  • 4b5w – EcPyrA (mutant) + pyruvate + Co
    
  • 4b5t – EcPyrA + keto-butyrate + Co + Mg
    
  • 4b5u – EcPyrA + succinic semialdehyde + Co + Mg
    
  • 4b5v – EcPyrA + pyruvate + heptanedioate derivative + Mg
• Retro-aldolase
  • 3b5l, 3hoj, 3nxf, 3o6y, 3ud6, 4a29, 4pek, 4pej, 4pa8 – RA – artificial gene
    
  • 4ou1, 4a2r, 4a2s, 4pa8, 5aou, 6tfa – SsRA
    
  • 5an7 – SsRA + inhibitor
    
  • 4cdl – PpRA + inhibitor
    
• 17-alpha-hydroxyprogesterone aldolase (steroid 17-alpha-hydroxylase /17,20 lyase) see Cytochrome P450

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Michal Harel