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(-) Description

Title :  CLASS II FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE IN COMPLEX WITH PHOSPHOGLYCOLOHYDROXAMATE
 
Authors :  D. R. Hall, W. N. Hunter
Date :  12 Jan 99  (Deposition) - 07 Jan 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Lyase, Aldehyde, Glycolysis (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. R. Hall, G. A. Leonard, C. D. Reed, C. I. Watt, A. Berry, W. N. Hunter
The Crystal Structure Of Escherichia Coli Class Ii Fructose-1, 6-Bisphosphate Aldolase In Complex With Phosphoglycolohydroxamate Reveals Details Of Mechanism And Specificity.
J. Mol. Biol. V. 287 383 1999
PubMed-ID: 10080900  |  Reference-DOI: 10.1006/JMBI.1999.2609
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (FRUCTOSE-BISPHOSPHATE ALDOLASE II)
    ChainsA, B
    EC Number4.1.2.13
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    StrainK12 CS520

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric/Biological Unit (4, 12)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2NA2Ligand/IonSODIUM ION
3PGH2Ligand/IonPHOSPHOGLYCOLOHYDROXAMIC ACID
4ZN7Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:110 , HIS A:226 , HIS A:264 , PGH A:359BINDING SITE FOR RESIDUE ZN A 360
02AC2SOFTWAREASP A:144 , SER A:146 , GLU A:174 , GLU A:181 , HOH A:448BINDING SITE FOR RESIDUE ZN A 361
03AC3SOFTWAREHIS A:91 , HIS A:129 , HOH A:437 , HOH A:439BINDING SITE FOR RESIDUE ZN A 362
04AC4SOFTWARESER A:1 , CL A:365 , GLU B:246 , HIS B:256BINDING SITE FOR RESIDUE ZN A 363
05AC5SOFTWAREVAL A:225 , GLY A:227 , GLY A:265 , SER A:267 , PGH A:359 , HOH A:390BINDING SITE FOR RESIDUE NA A 364
06AC6SOFTWARESER A:1 , ZN A:363 , GLU B:246 , HIS B:256BINDING SITE FOR RESIDUE CL A 365
07AC7SOFTWAREHIS B:110 , HIS B:226 , HIS B:264 , PGH B:359BINDING SITE FOR RESIDUE ZN B 360
08AC8SOFTWAREASP B:144 , SER B:146 , GLU B:174 , GLU B:181 , HOH B:392BINDING SITE FOR RESIDUE ZN B 361
09AC9SOFTWAREHIS B:91 , HIS B:129 , HOH B:423 , HOH B:424BINDING SITE FOR RESIDUE ZN B 362
10BC1SOFTWAREVAL B:225 , GLY B:227 , GLY B:265 , SER B:267 , PGH B:359 , HOH B:414BINDING SITE FOR RESIDUE NA B 364
11BC2SOFTWAREASP A:109 , HIS A:110 , HIS A:226 , GLY A:227 , HIS A:264 , GLY A:265 , GLY A:266 , SER A:267 , ASN A:286 , ILE A:287 , ASP A:288 , THR A:289 , ZN A:360 , NA A:364 , HOH A:394 , HOH A:395BINDING SITE FOR RESIDUE PGH A 359
12BC3SOFTWAREASP B:109 , HIS B:110 , VAL B:225 , HIS B:226 , GLY B:227 , HIS B:264 , GLY B:265 , SER B:267 , ASN B:286 , ILE B:287 , ASP B:288 , THR B:289 , ZN B:360 , NA B:364 , HOH B:383 , HOH B:384BINDING SITE FOR RESIDUE PGH B 359

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1B57)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1B57)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1B57)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALDOLASE_CLASS_II_1PS00602 Fructose-bisphosphate aldolase class-II signature 1.ALF_ECOLI101-112
 
  2A:100-111
B:100-111
2ALDOLASE_CLASS_II_2PS00806 Fructose-bisphosphate aldolase class-II signature 2.ALF_ECOLI172-183
 
  2A:171-182
B:171-182

(-) Exons   (0, 0)

(no "Exon" information available for 1B57)

(-) 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:346
 aligned with ALF_ECOLI | P0AB71 from UniProtKB/Swiss-Prot  Length:359

    Alignment length:358
                                    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       321       331       341       351        
            ALF_ECOLI     2 SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVPVILHTDHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMIDLSEESLQENIEICSKYLERMSKIGMTLEIELGCTGGEEDGVDNSHMDASALYTQPEDVDYAYTELSKISPRFTIAASFGNVHGVYKPGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHGGSGSTAQEIKDSVSYGVVKMNIDTDTQWATWEGVLNYYKANEAYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTSMIARLEKAFQELNAIDVL 359
               SCOP domains d1b57a_ A: Fructose-bisphosphate aldolase (FBP aldolase)                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1b57A00 A:1-358 Aldolase class I                                                                                                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh........hhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhh...eeeee.hhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhhhhhh......eeee......hhhhhhhhhhhhhhhhhh..eeeeee.......------------....hhhhhhhhhhhhhh...eeeee.................hhhhhhhhhhhhhhh........eee.......hhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhhhhhh...............hhhh.hhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------ALDOLASE_CLA-----------------------------------------------------------ALDOLASE_CLA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1b57 A   1 SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVPVILHTDHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMIDLSEESLQENIEICSKYLERMSKIGMTLEIELGCTGGEE------------LYTQPEDVDYAYTELSKISPRFTIAASFGNVHGVYKPGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHGGSGSTAQEIKDSVSYGVVKMNIDTDTQWATWEGVLNYYKANEAYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTSMIARLEKAFQELNAIDVL 358
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180 |       -    |  200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350        
                                                                                                                                                                                                               182          195                                                                                                                                                                   

Chain B from PDB  Type:PROTEIN  Length:346
 aligned with ALF_ECOLI | P0AB71 from UniProtKB/Swiss-Prot  Length:359

    Alignment length:358
                                    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       321       331       341       351        
            ALF_ECOLI     2 SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVPVILHTDHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMIDLSEESLQENIEICSKYLERMSKIGMTLEIELGCTGGEEDGVDNSHMDASALYTQPEDVDYAYTELSKISPRFTIAASFGNVHGVYKPGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHGGSGSTAQEIKDSVSYGVVKMNIDTDTQWATWEGVLNYYKANEAYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTSMIARLEKAFQELNAIDVL 359
               SCOP domains d1b57b_ B: Fructose-bisphosphate aldolase (FBP aldolase)                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1b57B00 B:1-358 Aldolase class I                                                                                                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhh.......hhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhh...eeeee.hhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhhhhhh......eee.......hhhhhhhhhhhhhhhhhh..eeeeee.......------------....hhhhhhhhhhhhh....eeeee.................hhhhhhhhhhhhhhh........eee.......hhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhh.hhh...............hhhh.hhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------ALDOLASE_CLA-----------------------------------------------------------ALDOLASE_CLA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1b57 B   1 SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVPVILHTDHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMIDLSEESLQENIEICSKYLERMSKIGMTLEIELGCTGGEE------------LYTQPEDVDYAYTELSKISPRFTIAASFGNVHGVYKPGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHGGSGSTAQEIKDSVSYGVVKMNIDTDTQWATWEGVLNYYKANEAYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTSMIARLEKAFQELNAIDVL 358
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180 |       -    |  200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350        
                                                                                                                                                                                                               182          195                                                                                                                                                                   

   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, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1B57)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ALF_ECOLI | P0AB71)
molecular function
    GO:0016832    aldehyde-lyase activity    Catalysis of the cleavage of a C-C bond in a molecule containing a hydroxyl group and a carbonyl group to form two smaller molecules, each being an aldehyde or a ketone.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0004332    fructose-bisphosphate aldolase activity    Catalysis of the reaction: D-fructose 1,6-bisphosphate = glycerone phosphate + D-glyceraldehyde-3-phosphate.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    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:0006094    gluconeogenesis    The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol.
    GO:0006096    glycolytic process    The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
cellular component
    GO:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    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:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ALF_ECOLI | P0AB711dos 1gyn 1zen 5gk3 5gk4 5gk5 5gk6 5gk7 5gk8

(-) Related Entries Specified in the PDB File

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