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(-) Description

Title :  SOLUTION STRUCTURES OF THE IIA(CHITOBIOSE)-HPR COMPLEX OF THE N,N'-DIACETYLCHITOBIOSE BRANCH OF THE ESCHERICHIA COLI PHOSPHOTRANSFERASE SYSTEM
 
Authors :  Y. Jung, M. Cai, M. Clore
Date :  06 Apr 12  (Deposition) - 16 May 12  (Release) - 25 Jul 12  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,C,D  (20x)
NMR Structure *:  A,B,C,D  (1x)
Keywords :  Protein-Protein Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. S. Jung, M. Cai, G. M. Clore
Solution Structure Of The Iiachitobiose-Hpr Complex Of The N, N'-Diacetylchitobiose Branch Of The Escherichia Coli Phosphotransferase System.
J. Biol. Chem. V. 287 23819 2012
PubMed-ID: 22593574  |  Reference-DOI: 10.1074/JBC.M112.371492

(-) Compounds

Molecule 1 - N,N'-DIACETYLCHITOBIOSE-SPECIFIC PHOSPHOTRANSFERASE ENZYME IIA COMPONENT
    ChainsA, B, C
    EC Number2.7.1.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System VectorPET11
    FragmentPTS EIIA TYPE-3 RESIDUES 14-116
    GeneCHBA, CELC, B1736, JW1725
    MutationYES
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12
    SynonymEIIA-CHB, EIII-CHB, PTS SYSTEM N,N'-DIACETYLCHITOBIOSE- SPECIFIC EIIA COMPONENT
 
Molecule 2 - PHOSPHOCARRIER PROTEIN HPR
    ChainsD
    EC Number2.7.11.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System VectorPET11
    GenePTSH, HPR, B2415, JW2408
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12
    SynonymHISTIDINE-CONTAINING PROTEIN

 Structural Features

(-) Chains, Units

  1234
NMR Structure (20x)ABCD
NMR Structure * (1x)ABCD

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 1)
No.NameCountTypeFull Name
1PO31Ligand/IonPHOSPHITE ION
NMR Structure * (1, 1)
No.NameCountTypeFull Name
1PO31Ligand/IonPHOSPHITE ION

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:76 , HIS A:80 , HIS D:315 , THR D:316BINDING SITE FOR RESIDUE PO3 D 200

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2LRL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2LRL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (3, 9)

NMR Structure (3, 9)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_PTQA_ECOLI_001 *A14VPTQA_ECOLI  ---  ---A/B/CA1V
2UniProtVAR_PTQA_ECOLI_002 *A52TPTQA_ECOLI  ---  ---A/B/CA39T
3UniProtVAR_PTQA_ECOLI_003 *M59IPTQA_ECOLI  ---  ---A/B/CM46I
   * ID not provided by source

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
NMR Structure * (3, 9)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_PTQA_ECOLI_001 *A14VPTQA_ECOLI  ---  ---A/B/CA1V
2UniProtVAR_PTQA_ECOLI_002 *A52TPTQA_ECOLI  ---  ---A/B/CA39T
3UniProtVAR_PTQA_ECOLI_003 *M59IPTQA_ECOLI  ---  ---A/B/CM46I
   * ID not provided by source

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

(-) PROSITE Motifs  (4, 6)

NMR Structure (4, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PTS_HPR_DOMPS51350 PTS HPR domain profile.PTHP_ECOLI1-85  1D:301-385
2PTS_HPR_HISPS00369 PTS HPR domain histidine phosphorylation site signature.PTHP_ECOLI13-20  1D:313-320
3PTS_EIIA_TYPE_3PS51095 PTS_EIIA type-3 domain profile.PTQA_ECOLI15-113
 
 
  3A:2-100
B:2-100
C:2-100
4PTS_HPR_SERPS00589 PTS HPR domain serine phosphorylation site signature.PTHP_ECOLI39-54  1D:339-354
NMR Structure * (4, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PTS_HPR_DOMPS51350 PTS HPR domain profile.PTHP_ECOLI1-85  1D:301-385
2PTS_HPR_HISPS00369 PTS HPR domain histidine phosphorylation site signature.PTHP_ECOLI13-20  1D:313-320
3PTS_EIIA_TYPE_3PS51095 PTS_EIIA type-3 domain profile.PTQA_ECOLI15-113
 
 
  3A:2-100
B:2-100
C:2-100
4PTS_HPR_SERPS00589 PTS HPR domain serine phosphorylation site signature.PTHP_ECOLI39-54  1D:339-354

(-) Exons   (0, 0)

(no "Exon" information available for 2LRL)

(-) Sequences/Alignments

NMR Structure
   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:103
 aligned with PTQA_ECOLI | P69791 from UniProtKB/Swiss-Prot  Length:116

    Alignment length:103
                                    23        33        43        53        63        73        83        93       103       113   
           PTQA_ECOLI    14 AEELEEVVMGLIINSGQARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQDHLMTSMLARELITELIELHEKLKA 116
               SCOP domains d2lrla_ A: automated matches                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) V-------------------------------------T------I--------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -PTS_EIIA_TYPE_3  PDB: A:2-100 UniProt: 15-113                                                      --- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2lrl A   1 AEELEEVVMGLIINSGQARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQLHLMTSMLARELITELIELHEKLKA 103
                                    10        20        30        40        50        60        70        80        90       100   

Chain B from PDB  Type:PROTEIN  Length:103
 aligned with PTQA_ECOLI | P69791 from UniProtKB/Swiss-Prot  Length:116

    Alignment length:103
                                    23        33        43        53        63        73        83        93       103       113   
           PTQA_ECOLI    14 AEELEEVVMGLIINSGQARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQDHLMTSMLARELITELIELHEKLKA 116
               SCOP domains d2lrlb_ B: automated matches                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) V-------------------------------------T------I--------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -PTS_EIIA_TYPE_3  PDB: B:2-100 UniProt: 15-113                                                      --- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2lrl B   1 AEELEEVVMGLIINSGQARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQLHLMTSMLARELITELIELHEKLKA 103
                                    10        20        30        40        50        60        70        80        90       100   

Chain C from PDB  Type:PROTEIN  Length:103
 aligned with PTQA_ECOLI | P69791 from UniProtKB/Swiss-Prot  Length:116

    Alignment length:103
                                    23        33        43        53        63        73        83        93       103       113   
           PTQA_ECOLI    14 AEELEEVVMGLIINSGQARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQDHLMTSMLARELITELIELHEKLKA 116
               SCOP domains d2lrlc_ C: automated matches                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) V-------------------------------------T------I--------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -PTS_EIIA_TYPE_3  PDB: C:2-100 UniProt: 15-113                                                      --- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2lrl C   1 AEELEEVVMGLIINSGQARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQLHLMTSMLARELITELIELHEKLKA 103
                                    10        20        30        40        50        60        70        80        90       100   

Chain D from PDB  Type:PROTEIN  Length:85
 aligned with PTHP_ECOLI | P0AA04 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:85
                                    10        20        30        40        50        60        70        80     
           PTHP_ECOLI     1 MFQQEVTITAPNGLHTRPAAQFVKEAKGFTSEITVTSNGKSASAKSLFKLQTLGLTQGTVVTISAEGEDEQKAVEHLVKLMAELE  85
               SCOP domains d2lrld_ D: Histidine-containing phosphocarrier protein (HPr)                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......hhhhhhhhhhhhhh...eeeeee..eeee..hhhhhh........eeeeeee..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) PTS_HPR_DOM  PDB: D:301-385 UniProt: 1-85                                             PROSITE (1)
                PROSITE (2) ------------PTS_HPR_------------------PTS_HPR_SER     ------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 2lrl D 301 MFQQEVTITAPNGLHTRPAAQFVKEAKGFTSEITVTSNGKSASAKSLFKLQTLGLTQGTVVTISAEGEDEQKAVEHLVKLMAELE 385
                                   310       320       330       340       350       360       370       380     

   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  (2, 4)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2LRL)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2LRL)

(-) Gene Ontology  (20, 27)

NMR Structure(hide GO term definitions)
Chain A,B,C   (PTQA_ECOLI | P69791)
molecular function
    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:0090566    protein-phosphocysteine-N,N'-diacetylchitobiose phosphotransferase system transporter activity    Catalysis of the PEP-dependent, phosphoryl transfer-driven transport of substances across a membrane. The transport happens by catalysis of the reaction: protein S-phosphocysteine + N,N'-diacetylchitobiose(out) = protein cysteine + N,N'-diacetylchitobiose phosphate(in).
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:1902815    N,N'-diacetylchitobiose import    The directed movement of N,N'-diacetylchitobiose into a cell or organelle.
    GO:0034219    carbohydrate transmembrane transport    The process in which a carbohydrate is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0008643    carbohydrate transport    The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are any of a group of organic compounds based of the general formula Cx(H2O)y.
    GO:0009401    phosphoenolpyruvate-dependent sugar phosphotransferase system    The uptake and phosphorylation of specific carbohydrates from the extracellular environment; uptake and phosphorylation are coupled, making the PTS a link between the uptake and metabolism of sugars; phosphoenolpyruvate is the original phosphate donor; phosphoenolpyruvate passes the phosphate via a signal transduction pathway, to enzyme 1 (E1), which in turn passes it on to the histidine protein, HPr; the next step in the system involves sugar-specific membrane-bound complex, enzyme 2 (EII), which transports the sugar into the cell; it includes the sugar permease, which catalyzes the transport reactions; EII is usually divided into three different domains, EIIA, EIIB, and EIIC.
    GO:0051260    protein homooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
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.

Chain D   (PTHP_ECOLI | P0AA04)
molecular function
    GO:0008047    enzyme activator activity    Binds to and increases the activity of an enzyme.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0008965    phosphoenolpyruvate-protein phosphotransferase activity    Catalysis of the reaction: phosphoenolpyruvate + protein L-histidine = pyruvate + protein N(pi)-phospho-L-histidine.
    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:0004674    protein serine/threonine kinase activity    Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0008643    carbohydrate transport    The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are any of a group of organic compounds based of the general formula Cx(H2O)y.
    GO:0009401    phosphoenolpyruvate-dependent sugar phosphotransferase system    The uptake and phosphorylation of specific carbohydrates from the extracellular environment; uptake and phosphorylation are coupled, making the PTS a link between the uptake and metabolism of sugars; phosphoenolpyruvate is the original phosphate donor; phosphoenolpyruvate passes the phosphate via a signal transduction pathway, to enzyme 1 (E1), which in turn passes it on to the histidine protein, HPr; the next step in the system involves sugar-specific membrane-bound complex, enzyme 2 (EII), which transports the sugar into the cell; it includes the sugar permease, which catalyzes the transport reactions; EII is usually divided into three different domains, EIIA, EIIB, and EIIC.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0043085    positive regulation of catalytic activity    Any process that activates or increases the activity of an enzyme.
    GO:0045819    positive regulation of glycogen catabolic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of glycogen.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
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.
    GO:0019197    phosphoenolpyruvate-dependent sugar phosphotransferase complex    Includes phosphoenolpyruvate-protein phosphatase (enzyme I of the phosphotransferase system) and protein-N(PI)-phosphohistidine-sugar phosphotransferase (enzyme II of the phosphotransferase system).

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 Related Entries

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

UniProtKB/Swiss-Prot
        PTHP_ECOLI | P0AA041cm2 1cm3 1ggr 1hdn 1j6t 1opd 1pfh 1poh 1vrc 2jel 2lrk 2xdf 3ccd 3eza 3ezb 3eze 4xwj
        PTQA_ECOLI | P697911wcr 2lrk 2wwv 2wy2

(-) Related Entries Specified in the PDB File

2lrk