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(-) Description

Title :  HUMAN ALDOSE REDUCTASE MUTANT T113A COMPLEXED WITH ZOPOLRESTAT
 
Authors :  C. Koch, A. Heine, G. Klebe
Date :  25 Mar 10  (Deposition) - 09 Mar 11  (Release) - 24 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A
Keywords :  T113A Mutant, Oxidoreductase, Tim Barrel, Nadp, Phosphoprotein, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. Koch, A. Heine, G. Klebe
Ligand-Induced Fit Affects Binding Modes And Provokes Changes In Crystal Packing Of Aldose Reductase
Biochim. Biophys. Acta V. 1810 879 2011
PubMed-ID: 21684320  |  Reference-DOI: 10.1016/J.BBAGEN.2011.06.001

(-) Compounds

Molecule 1 - ALDOSE REDUCTASE
    ChainsA
    EC Number1.1.1.21
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET15B
    Expression System StrainBL21 GOLD
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneALR2
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymAR, ALDEHYDE REDUCTASE, ALDO-KETO REDUCTASE FAMILY 1 MEMBER B1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2ZST1Ligand/Ion3,4-DIHYDRO-4-OXO-3-((5-TRIFLUOROMETHYL-2-BENZOTHIAZOLYL)METHYL)-1-PHTHALAZINE ACETIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:18 , THR A:19 , TRP A:20 , LYS A:21 , ASP A:43 , TYR A:48 , LYS A:77 , HIS A:110 , TRP A:111 , SER A:159 , ASN A:160 , GLN A:183 , TYR A:209 , SER A:210 , PRO A:211 , LEU A:212 , GLY A:213 , SER A:214 , PRO A:215 , ASP A:216 , ALA A:245 , ILE A:260 , PRO A:261 , LYS A:262 , SER A:263 , VAL A:264 , THR A:265 , ARG A:268 , GLU A:271 , ASN A:272 , CYS A:298 , ZST A:600 , HOH A:1042 , HOH A:1045 , HOH A:1046 , HOH A:1055 , HOH A:1153 , HOH A:1254BINDING SITE FOR RESIDUE NAP A 500
2AC2SOFTWARETRP A:20 , TYR A:48 , HIS A:110 , TRP A:111 , ALA A:113 , PHE A:115 , PHE A:122 , TRP A:219 , CYS A:298 , LEU A:300 , CYS A:303 , TYR A:309 , PRO A:310 , NAP A:500 , HOH A:1189BINDING SITE FOR RESIDUE ZST A 600

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3MB9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3MB9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (6, 6)

Asymmetric/Biological Unit (6, 6)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_014743I15FALDR_HUMANPolymorphism5054AI14F
2UniProtVAR_014744H42LALDR_HUMANPolymorphism5056AH41L
3UniProtVAR_014745L73VALDR_HUMANPolymorphism5057AL72V
4UniProtVAR_048213K90EALDR_HUMANPolymorphism2229542AK89E
5UniProtVAR_014746G204SALDR_HUMANPolymorphism5061AG203S
6UniProtVAR_014747T288IALDR_HUMANPolymorphism5062AT287I

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALDOKETO_REDUCTASE_1PS00798 Aldo/keto reductase family signature 1.ALDR_HUMAN39-56  1A:38-55
2ALDOKETO_REDUCTASE_2PS00062 Aldo/keto reductase family signature 2.ALDR_HUMAN145-162  1A:144-161
3ALDOKETO_REDUCTASE_3PS00063 Aldo/keto reductase family putative active site signature.ALDR_HUMAN261-276  1A:260-275

(-) Exons   (10, 10)

Asymmetric/Biological Unit (10, 10)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1dENST000002859301dENSE00001930160chr7:134143894-134143749146ALDR_HUMAN1-22221A:2-2120
1.2bENST000002859302bENSE00001803238chr7:134136505-134136338168ALDR_HUMAN23-78561A:22-7756
1.4bENST000002859304bENSE00001325879chr7:134135654-134135538117ALDR_HUMAN79-117391A:78-11639
1.5aENST000002859305aENSE00001175544chr7:134134549-13413447278ALDR_HUMAN118-143261A:117-14226
1.5iENST000002859305iENSE00001752942chr7:134133871-134133749123ALDR_HUMAN144-184411A:143-18341
1.6ENST000002859306ENSE00001175532chr7:134133245-134133139107ALDR_HUMAN185-220361A:184-21936
1.7aENST000002859307aENSE00001625579chr7:134132813-13413273282ALDR_HUMAN220-247281A:219-24628
1.7iENST000002859307iENSE00001795277chr7:134132133-13413205084ALDR_HUMAN248-275281A:247-27428
1.8aENST000002859308aENSE00001675790chr7:134130072-13412999083ALDR_HUMAN276-303281A:275-30228
1.9dENST000002859309dENSE00001174667chr7:134127522-134127127396ALDR_HUMAN303-316141A:302-31514

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:314
 aligned with ALDR_HUMAN | P15121 from UniProtKB/Swiss-Prot  Length:316

    Alignment length:314
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312    
           ALDR_HUMAN     3 SRLLLNNGAKMPILGLGTWKSPPGQVTEAVKVAIDVGYRHIDCAHVYQNENEVGVAIQEKLREQVVKREELFIVSKLWCTYHEKGLVKGACQKTLSDLKLDYLDLYLIHWPTGFKPGKEFFPLDESGNVVPSDTNILDTWAAMEELVDEGLVKAIGISNFNHLQVEMILNKPGLKYKPAVNQIECHPYLTQEKLIQYCQSKGIVVTAYSPLGSPDRPWAKPEDPSLLEDPRIKAIAAKHNKTTAQVLIRFPMQRNLVVIPKSVTPERIAENFKVFDFELSSQDMTTLLSYNRNWRVCALLSCTSHKDYPFHEEF 316
               SCOP domains d3mb9a_ A: Aldose reductase (aldehyde reductase)                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------Aldo_ket_red-3mb9A01 A:14-293                                                                                                                                                                                                                                                           ---------------------- Pfam domains
         Sec.struct. author .eee.....eee...ee....hhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhh...hhhhheeeeeehhhhhhhhhhhhhhhhhhhhhh.....eeee..........................hhhhhhhhhhhhhhh.....eeee..hhhhhhhhhh.........eeeee......hhhhhhhhhhh..eeeee................hhhhhhhhhhhhhhh..hhhhhhhhhhhh...ee.....hhhhhhhhhh......hhhhhhhhhhh........hhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------F--------------------------L------------------------------V----------------E-----------------------------------------------------------------------------------------------------------------S-----------------------------------------------------------------------------------I---------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------ALDOKETO_REDUCTASE----------------------------------------------------------------------------------------ALDOKETO_REDUCTASE--------------------------------------------------------------------------------------------------ALDOKETO_REDUCTA---------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1d           Exon 1.2b  PDB: A:22-77 UniProt: 23-78                  Exon 1.4b  PDB: A:78-116               Exon 1.5a  PDB: A:117-142 Exon 1.5i  PDB: A:143-183                Exon 1.6  PDB: A:184-219            ---------------------------Exon 1.7i  PDB: A:247-274   Exon 1.8a  PDB: A:275-302   ------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7a  PDB: A:219-246   -------------------------------------------------------Exon 1.9d      Transcript 1 (2)
                 3mb9 A   2 SRILLNNGAKMPILGLGTWKSPPGQVTEAVKVAIDVGYRHIDCAHVYQNENEVGVAIQEKLREQVVKREELFIVSKLWCTYHEKGLVKGACQKTLSDLKLDYLDLYLIHWPAGFKPGKEFFPLDESGNVVPSDTNILDTWAAMEELVDEGLVKAIGISNFNHLQVEMILNKPGLKYKPAVNQIECHPYLTQEKLIQYCQSKGIVVTAYSPLGSPDRPWAKPEDPSLLEDPRIKAIAAKHNKTTAQVLIRFPMQRNLVVIPKSVTPERIAENFKVFDFELSSQDMTTLLSYNRNWRVCALLSCTSHKDYPFHEEF 315
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311    

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MB9)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (39, 39)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ALDR_HUMAN | P15121)
molecular function
    GO:0004032    alditol:NADP+ 1-oxidoreductase activity    Catalysis of the reaction: an alditol + NADP+ = an aldose + NADPH + H+.
    GO:0004033    aldo-keto reductase (NADP) activity    Catalysis of the reaction: an alcohol + NADP+ = an aldehyde or a ketone + NADPH + H+.
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0043795    glyceraldehyde oxidoreductase activity    Catalysis of the reaction: D-glyceraldehyde + H2O + acceptor = D-glycerate + reduced acceptor.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0006700    C21-steroid hormone biosynthetic process    The chemical reactions and pathways resulting in the formation of C21-steroid hormones, steroid compounds containing 21 carbons which function as hormones.
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0070301    cellular response to hydrogen peroxide    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydrogen peroxide (H2O2) stimulus.
    GO:0097238    cellular response to methylglyoxal    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a methylglyoxal stimulus. Methylglyoxal is a 2-oxoaldehyde derived from propanal.
    GO:1901653    cellular response to peptide    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide stimulus.
    GO:0044597    daunorubicin metabolic process    The chemical reactions and pathways involving daunorubicin, a chemotherapeutic of the anthracycline family that is given as a treatment for some types of cancer.
    GO:0044598    doxorubicin metabolic process    The chemical reactions and pathways involving doxorubicin, an anthracycline antibiotic, used in cancer chemotherapy.
    GO:0046370    fructose biosynthetic process    The chemical reactions and pathways resulting in the formation of fructose, the ketohexose arabino-2-hexulose.
    GO:0072061    inner medullary collecting duct development    The process whose specific outcome is the progression of the inner medullary collecting duct over time, from its formation to the mature structure. The inner medullary collecting duct is the portion of the collecting duct that lies in the renal inner medulla.
    GO:0060135    maternal process involved in female pregnancy    A reproductive process occurring in the mother that allows an embryo or fetus to develop within it.
    GO:0005996    monosaccharide metabolic process    The chemical reactions and pathways involving monosaccharides, the simplest carbohydrates. They are polyhydric alcohols containing either an aldehyde or a keto group and between three to ten or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides.
    GO:0018931    naphthalene metabolic process    The chemical reactions and pathways involving naphthalene, a fused ring bicyclic aromatic hydrocarbon commonly found in crude oil and oil products. Naphthalene is familiar as the compound that gives mothballs their odor; it is used in the manufacture of plastics, dyes, solvents, and other chemicals, as well as being used as an antiseptic and insecticide.
    GO:0042415    norepinephrine metabolic process    The chemical reactions and pathways involving norepinephrine, a hormone secreted by the adrenal medulla, and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts in the central nervous system. It is also the demethylated biosynthetic precursor of epinephrine.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0046427    positive regulation of JAK-STAT cascade    Any process that activates or increases the frequency, rate or extent of the JAK-STAT signaling pathway activity.
    GO:0048661    positive regulation of smooth muscle cell proliferation    Any process that activates or increases the rate or extent of smooth muscle cell proliferation.
    GO:0010033    response to organic substance    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus.
    GO:0006950    response to stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
    GO:0097066    response to thyroid hormone    A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a thyroid hormone stimulus.
    GO:0009414    response to water deprivation    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a water deprivation stimulus, prolonged deprivation of water.
    GO:0006061    sorbitol biosynthetic process    The chemical reactions and pathways resulting in the formation of sorbitol (D-glucitol), one of the ten stereoisomeric hexitols. It can be derived from glucose by reduction of the aldehyde group.
    GO:0031098    stress-activated protein kinase signaling cascade    A series of molecular signals in which a stress-activated protein kinase (SAPK) cascade relays one or more of the signals.
    GO:0001894    tissue homeostasis    A homeostatic process involved in the maintenance of an internal steady state within a defined tissue of an organism, including control of cellular proliferation and death and control of metabolic function.
cellular component
    GO:0043220    Schmidt-Lanterman incisure    Regions within compact myelin in which the cytoplasmic faces of the enveloping myelin sheath are not tightly juxtaposed, and include cytoplasm from the cell responsible for making the myelin. Schmidt-Lanterman incisures occur in the compact myelin internode, while lateral loops are analogous structures found in the paranodal region adjacent to the nodes of Ranvier.
    GO:0097454    Schwann cell microvillus    Small finger-like extension of a Schwann cell that contacts the nodal membrane.
    GO:0032838    cell projection cytoplasm    All of the contents of a plasma membrane bounded cell projection, excluding the plasma membrane surrounding the projection.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0042629    mast cell granule    Coarse, bluish-black staining cytoplasmic granules, bounded by a plasma membrane and found in mast cells and basophils. Contents include histamine, heparin, chondroitin sulfates, chymase and tryptase.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0033010    paranodal junction    A highly specialized cell-cell junction found in vertebrates, which forms between a neuron and a glial cell, and has structural similarity to Drosophila septate junctions. It flanks the node of Ranvier in myelinated nerve and electrically isolates the myelinated from unmyelinated nerve segments and physically separates the voltage-gated sodium channels at the node from the cluster of potassium channels underneath the myelin sheath.
    GO:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ALDR_HUMAN | P151211abn 1ads 1az1 1az2 1ef3 1el3 1iei 1mar 1pwl 1pwm 1t40 1t41 1us0 1x96 1x97 1x98 1xgd 1z3n 1z89 1z8a 2acq 2acr 2acs 2acu 2agt 2dux 2duz 2dv0 2f2k 2fz8 2fz9 2fzb 2fzd 2hv5 2hvn 2hvo 2i16 2i17 2ikg 2ikh 2iki 2ikj 2ine 2inz 2ipw 2iq0 2iqd 2is7 2isf 2j8t 2nvc 2nvd 2pd5 2pd9 2pdb 2pdc 2pdf 2pdg 2pdh 2pdi 2pdj 2pdk 2pdl 2pdm 2pdn 2pdp 2pdq 2pdu 2pdw 2pdx 2pdy 2pev 2pf8 2pfh 2pzn 2qxw 2r24 3bcj 3dn5 3g5e 3ghr 3ghs 3ght 3ghu 3lbo 3ld5 3len 3lep 3lqg 3lql 3lz3 3lz5 3m0i 3m4h 3m64 3mc5 3onb 3onc 3p2v 3q65 3q67 3rx2 3rx3 3rx4 3s3g 3t42 3u2c 3v35 3v36 4gca 4gq0 4igs 4jir 4lau 4laz 4lb3 4lb4 4lbr 4lbs 4nkc 4pr4 4prr 4prt 4puu 4puw 4q7b 4qbx 4qr6 4qx4 4qxi 4rpq 4xzh 4xzi 4ys1 4yu1 5ha7

(-) Related Entries Specified in the PDB File

2fz8 HUMAN ALDOSE REDUCTASE COMPLEXED WITH INHIBITOR ZOPOLRESTAT AT 1.48 A(1 DAY SOAKING)
2fz9 HUMAN ALDOSE REDUCTASE COMPLEXED WITH INHIBITOR ZOPOLRESTAT AFTER SIX DAYS SOAKING
3len HUMAN ALDOSE REDUCTASE MUTANT T113S COMPLEXED WITH ZOPOLRESTAT
3lqg HUMAN ALDOSE REDUCTASE MUTANT T113A COMPLEXED WITH IDD388
3lql HUMAN ALDOSE REDUCTASE MUTANT T113A COMPLEXED WITH IDD594
3m0i HUMAN ALDOSE REDUCTASE MUTANT T113V COMPLEXED WITH ZOPOLRESTAT