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(-) Description

Title :  CRYSTAL STRUCTURE OF LON N-TERMINAL DOMAIN.
 
Authors :  M. Li, A. Gustchina, Z. Dauter, A. Wlodawer
Date :  26 Jan 10  (Deposition) - 21 Jul 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Lon N-Domain, Allosteric Enzyme, Atp-Binding, Dna-Binding, Hydrolase, Nucleotide-Binding, Protease, Serine Protease, Stress Response (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Li, A. Gustchina, F. S. Rasulova, E. E. Melnikov, M. R. Maurizi, T. V. Rotanova, Z. Dauter, A. Wlodawer
Structure Of The N-Terminal Fragment Of Escherichia Coli Lo Protease
Acta Crystallogr. , Sect. D V. 66 865 2010
PubMed-ID: 20693685  |  Reference-DOI: 10.1107/S0907444910019554

(-) Compounds

Molecule 1 - ATP-DEPENDENT PROTEASE LA
    ChainsA
    EC Number3.4.21.53
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPBAD33
    Expression System StrainMG1655
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentLON N-DOMAIN (UNP RESIDUES 1-245)
    GeneLON, CAPR, DEG, LOPA, MUC, B0439, JW0429
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric/Biological Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3LJC)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:113 -Ala A:114

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LJC)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LON_NPS51787 Lon N-terminal domain profile.LON_ECOLI11-202  1A:11-202

(-) Exons   (0, 0)

(no "Exon" information available for 3LJC)

(-) 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:239
 aligned with LON_ECOLI | P0A9M0 from UniProtKB/Swiss-Prot  Length:784

    Alignment length:239
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236         
            LON_ECOLI     7 ERIEIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFTVGTVASILQMLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYLESPTIDEREQEVLVRTAISQFEGYIKLNKKIPPEVLTSLNSIDDPARLADTIAAHMPLKLADKQSVLEMSDVNERLEYLMAMMESEIDLLQVEKRIRNRVKKQMEKSQREYYLNEQMKAIQKELGEMD 245
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---LON-3ljcA01 A:10-202                                                                                                                                                                             ------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.........eeeeee....hhhhhhhhhh...eeeeee................eeeeeee..........eeeeeeeeeeee..eeeee..eeeee.........hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh....hhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----LON_N  PDB: A:11-202 UniProt: 11-202                                                                                                                                                            ------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ljc A   7 ERIEIPVLPLRDVVVYPHmVIPLFVGREKSIRCLEAAmDHDKKImLVAQKEASTDEPGVNDLFTVGTVASILQmLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYLESPTIDEREQEVLVRTAISQFEGYIKLNKKIPPEVLTSLNSIDDPARLADTIAAHmPLKLADKQSVLEmSDVNERLEYLmAmmESEIDLLQVEKRIRNRVKKQmEKSQREYYLNEQmKAIQKELGEmD 245
                                    16        26        36       |46    |   56        66        76   |    86        96       106       116       126       136       146       156       166      |176       186       196| ||   206       216    |  226       236       | 
                                             25-MSE             44-MSE 51-MSE                       80-MSE                                                                                      173-MSE      186-MSE    197-MSE                 221-MSE      234-MSE   244-MSE
                                                                                                                                                                                                                          199-MSE                                          
                                                                                                                                                                                                                           200-MSE                                         

   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  (0, 0)

(no "SCOP Domain" information available for 3LJC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PUA (42)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LON_ECOLI | P0A9M0)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0004176    ATP-dependent peptidase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the hydrolysis of peptide bonds.
    GO:0016887    ATPase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    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:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0033554    cellular response to stress    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 stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
    GO:0006515    misfolded or incompletely synthesized protein catabolic process    The chemical reactions and pathways resulting in the breakdown of misfolded or attenuated proteins.
    GO:0030163    protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0009408    response to heat    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 heat stimulus, a temperature stimulus above the optimal temperature for that organism.
cellular component
    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.

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    Lys A:113 - Ala A:114   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        LON_ECOLI | P0A9M01qzm 1rr9 1rre 2ane

(-) Related Entries Specified in the PDB File

2ane