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(-) Description

Title :  FHUA FROM E. COLI IN COMPLEX WITH THE LASSO PEPTIDE MICROCIN J25 (MCCJ25)
 
Authors :  I. Mathavan, S. Rebuffat, K. Beis
Date :  17 Mar 14  (Deposition) - 09 Apr 14  (Release) - 30 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transport Protein-Antibiotic Complex, Lipopolysaccharide, Detergent (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Mathavan, S. Zirah, S. Mehmood, H. G. Choudhury, C. Goulard, Y. Li, C. V. Robinson, S. Rebuffat, K. Beis
Structural Basis For Hijacking Siderophore Receptors By Antimicrobial Lasso Peptides.
Nat. Chem. Biol. V. 10 340 2014
PubMed-ID: 24705590  |  Reference-DOI: 10.1038/NCHEMBIO.1499

(-) Compounds

Molecule 1 - FERRICHROME-IRON RECEPTOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYSS
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 53-747
    Organism Scientific: ESCHERICHIA COLI STR. K-12 SUBSTR. MG1655
    Organism Taxid: 511145
    Other Details: HIS-TAG BETWEEN RESIDUE P405 AND V417. SEQUENCE INSERTED SSHHHHHHGSS
    Synonym: FHUA, FERRIC HYDROXAMATE RECEPTOR, FERRIC HYDROXAMATE UPTAKE
 
Molecule 2 - MICROCIN J25
    Chains: B
    Organism Scientific: ESCHERICHIA COLI STR. K-12 SUBSTR. MC4100
    Organism Taxid: 1403831
    Synonym: MICROCIN MCCJ25, MCCJ25

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (11, 37)

Asymmetric/Biological Unit (11, 37)
No.NameCountTypeFull Name
13PH1Ligand/Ion1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
2DAO1Ligand/IonLAURIC ACID
3DPO2Ligand/IonDIPHOSPHATE
4FTT4Ligand/Ion3-HYDROXY-TETRADECANOIC ACID
5GCS1Ligand/IonD-GLUCOSAMINE
6GMH2Ligand/IonL-GLYCERO-D-MANNO-HEPTOPYRANOSE
7KDO2Ligand/Ion3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID
8LDA20Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
9MYR1Ligand/IonMYRISTIC ACID
10PA11Ligand/Ion2-AMINO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE
11PO42Ligand/IonPHOSPHATE ION

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:164 , THR A:176 , PHE A:178 , TYR A:213 , PHE A:235BINDING SITE FOR RESIDUE LDA A1726
02AC2SOFTWARETHR A:443 , TRP A:466 , ASP A:468 , FTT A:1010 , DPO A:2000BINDING SITE FOR RESIDUE LDA A1727
03AC3SOFTWARETYR A:464 , LYS A:485 , LDA A:1739 , 3PH A:1744 , LDA A:1746 , HOH A:3122BINDING SITE FOR RESIDUE LDA A1728
04AC4SOFTWAREGLY A:461 , TRP A:489BINDING SITE FOR RESIDUE LDA A1729
05AC5SOFTWAREPHE A:505 , THR A:555BINDING SITE FOR RESIDUE LDA A1730
06AC6SOFTWAREVAL A:536 , TYR A:538 , ARG A:543BINDING SITE FOR RESIDUE LDA A1731
07AC7SOFTWAREPRO A:223 , ASP A:224 , LDA A:1736 , 3PH A:1744BINDING SITE FOR RESIDUE LDA A1732
08AC8SOFTWARETYR A:190 , TRP A:221BINDING SITE FOR RESIDUE LDA A1733
09AC9SOFTWAREPHE A:365 , ALA A:366 , ASP A:635BINDING SITE FOR RESIDUE LDA A1734
10BC1SOFTWARETHR A:293 , SER A:363BINDING SITE FOR RESIDUE LDA A1735
11BC2SOFTWAREPHE A:294 , LDA A:1732 , 3PH A:1744BINDING SITE FOR RESIDUE LDA A1736
12BC3SOFTWAREPRO A:503BINDING SITE FOR RESIDUE LDA A1737
13BC4SOFTWARETYR A:495BINDING SITE FOR RESIDUE LDA A1738
14BC5SOFTWAREVAL A:447 , GLY A:462 , TYR A:464 , LDA A:1728BINDING SITE FOR RESIDUE LDA A1739
15BC6SOFTWAREASP A:185 , TYR A:190BINDING SITE FOR RESIDUE LDA A1740
16BC7SOFTWARETRP A:489 , GLY A:491 , VAL A:493 , PHE A:505 , TYR A:507 , TYR A:532BINDING SITE FOR RESIDUE LDA A1741
17BC8SOFTWARELDA A:1743BINDING SITE FOR RESIDUE LDA A1742
18BC9SOFTWARETYR A:532 , LDA A:1742BINDING SITE FOR RESIDUE LDA A1743
19CC1SOFTWAREHIS A:288 , PHE A:290 , ASN A:291 , PHE A:294 , VAL A:378 , LDA A:1728 , LDA A:1732 , LDA A:1736BINDING SITE FOR RESIDUE 3PH A1744
20CC2SOFTWAREFTT A:1013 , LDA A:1746BINDING SITE FOR RESIDUE LDA A1745
21CC3SOFTWARELDA A:1728 , LDA A:1745BINDING SITE FOR RESIDUE LDA A1746
22CC4SOFTWAREPHE A:231 , VAL A:282 , TYR A:284 , GLN A:298 , PHE A:302 , GLU A:304 , LYS A:351 , GLN A:353 , PHE A:355 , PHE A:380 , ARG A:382 , ARG A:384 , ASP A:386 , LEU A:437 , LYS A:439 , LYS A:441 , ARG A:474 , LDA A:1727 , LDA A:1745 , HOH A:3107 , HOH A:3122 , HOH A:3167BINDING SITE FOR POLY-SACCHARIDE RESIDUES PA1 A1000 THROUGH PO4 A2005

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:318 -A:329
2A:703 -A:709

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4CU4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4CU4)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TONB_DEPENDENT_REC_2PS01156 TonB-dependent receptor proteins signature 2.FHUA_ECOLI730-747  1A:708-725

(-) Exons   (0, 0)

(no "Exon" information available for 4CU4)

(-) 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:693
 aligned with FHUA_ECOLI | P06971 from UniProtKB/Swiss-Prot  Length:747

    Alignment length:695
                                    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       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742     
           FHUA_ECOLI    53 SAWGPAATIAARQSATGTKTDTPIQKVPQSISVVTAEEMALHQPKSVKEALSYTPGVSVGTRGASNTYDHLIIRGFAAEGQSQNNYLNGLKLQGNFYNDAVIDPYMLERAEIMRGPVSVLYGKSSPGGLLNMVSKRPTTEPLKEVQFKAGTDSLFQTGFDFSDSLDDDGVYSYRLTGLARSANAQQKGSEEQRYAIAPAFTWRPDDKTNFTFLSYFQNEPETGYYGWLPKEGTVEPLPNGKRLPTDFNEGAKNNTYSRNEKMVGYSFDHEFNDTFTVRQNLRFAENKTSQNSVYGYGVCSDPANAYSKQCAALAPADKGHYLARKYVVDDEKLQNFSVDTQLQSKFATGDIDHTLLTGVDFMRMRNDINAWFGYDDSVPLLNLYNPVNTDFDFNAKDPANSGPYRILNKQKQTGVYVQDQAQWDKVLVTLGGRYDWADQESLNRVAGTTDKRDDKQFTWRGGVNYLFDNGVTPYFSYSESFEPSSQVGKDGNIFAPSKGKQYEVGVKYVPEDRPIVVTGAVYNLTKTNNLMADPEGSFFSVEGGEIRARGVEIEAKAALSASVNVVGSYTYTDAEYTTDTTYKGNTPAQVPKHMASLWADYTFFDGPLSGLTLGTGGRYTGSSYGDPANSFKVGSYTVVDALVRYDLARVGMAGSNVALHVNNLFDREYVASCFNTYGCFWGAERQVVATATFRF 747
               SCOP domains d4cu4a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh...ee.......ee.hhh...eeeeehhhhhhhh..hhhhhh.....ee.............ee....hhhhh..eee..ee...........hhh.eeeeeeee..hhhhhh.....eeeeeee.......eeeeeeeee...eeeeeeeeeee......eeeeeeeeeeeee......eeeeeeeeeeeeeeee..eeeeeeeeeeee...................................eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeeeeeeee..hhhhh.hhhhhhh...hhh.eeeeeeeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee...--.............eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeee.....eeeeeeeeeeee..............eeeeeeeeeeee......eeeeeeeeeeeeeeeeee.......eeeeeeeeeeeeeeeeeee....eeeeeeeeeeeeeeee..............eeeeeeeeeee.......eeeeeeeeee..ee.......ee..eeeeeeeeeee.hhhh....eeeeeee.......eeeeee..eeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TONB_DEPENDENT_REC PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cu4 A  20 SAWGPAATIAARQSATGTKTDTPIQKVPQSISVVTAEEMALHQPKSVKEALSYTPGVSVGTRGASNTYDHLIIRGFAAEGQSQNNYLNGLKLQGNFYNDAVIDPYMLERAEIMRGPVSVLYGKSSPGGLLNMVSKRPTTEPLKEVQFKAGTDSLFQTGFDFSDSLDDDGVYSYRLTGLARSANAQQKGSEEQRYAIAPAFTWRPDDKTNFTFLSYFQNEPETGYYGWLPKEGTVEPLPNGKRLPTDFNEGAKNNTYSRNEKMVGYSFDHEFNDTFTVRQNLRFAENKTSQNSVYGYGVCSDPANAYSKQCAALAPADKGHYLARKYVVDDEKLQNFSVDTQLQSKFATGDIDHTLLTGVDFMRMRNDINAWFGYDDSVPLLNLYN--NTDFDFNAKDPANSGPYRILNKQKQTGVYVQDQAQWDKVLVTLGGRYDWADQESLNRVAGTTDKRDDKQFTWRGGVNYLFDNGVTPYFSYSESFEPSSQVGKDGNIFAPSKGKQYEVGVKYVPEDRPIVVTGAVYNLTKTNNLMADPEGSFFSVEGGEIRARGVEIEAKAALSASVNVVGSYTYTDAEYTTDTTYKGNTPAQVPKHMASLWADYTFFDGPLSGLTLGTGGRYTGSSYGDPANSFKVGSYTVVDALVRYDLARVGMAGSNVALHVNNLFDREYVASCFNTYGCFWGAERQVVATATFRF 725
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399    |  420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720     
                                                                                                                                                                                                                                                                                                                                                                                                                          404  |                                                                                                                                                                                                                                                                                                                   
                                                                                                                                                                                                                                                                                                                                                                                                                             418                                                                                                                                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:21
 aligned with MCJA_ECOLX | Q9X2V7 from UniProtKB/Swiss-Prot  Length:58

    Alignment length:21
                                    47        57 
           MCJA_ECOLX    38 GGAGHVPEYFVGIGTPISFYG  58
               SCOP domains d4cu4b_ B:            SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author ..................... Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 4cu4 B   1 GGAGHVPEYFVGIGTPISFYG  21
                                    10        20
   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, 2)

Asymmetric/Biological Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4CU4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4CU4)

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FHUA_ECOLI | P06971)
molecular function
    GO:0048037    cofactor binding    Interacting selectively and non-covalently with a cofactor, a substance that is required for the activity of an enzyme or other protein. Cofactors may be inorganic, such as the metal atoms zinc, iron, and copper in certain forms, or organic, in which case they are referred to as coenzymes. Cofactors may either be bound tightly to active sites or bind loosely with the substrate.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0004872    receptor activity    Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
    GO:0015344    siderophore uptake transmembrane transporter activity    Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: siderophore-iron(ferrioxamine)(out) + H+(out) = siderophore-iron(ferrioxamine)(in) + H+(in).
    GO:0015643    toxic substance binding    Interacting selectively and non-covalently with a toxic substance, a poisonous substance that causes damage to biological systems.
    GO:0046790    virion binding    Interacting selectively and non-covalently with a virion, either by binding to components of the capsid or the viral envelope.
biological process
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0055072    iron ion homeostasis    Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell.
    GO:0044718    siderophore transmembrane transport    The directed movement of siderophores, low molecular weight Fe(III)-chelating substances, from one side of a membrane to the other, by means of some agent such as a transporter or pore.
    GO:0015891    siderophore transport    The directed movement of siderophores, low molecular weight Fe(III)-chelating substances, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    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:0009279    cell outer membrane    A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Chain B   (MCJA_ECOLX | Q9X2V7)
biological process
    GO:0019835    cytolysis    The rupture of cell membranes and the loss of cytoplasm.
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        FHUA_ECOLI | P06971: 1by3 1by5 1fcp 1fi1 1qff 1qfg 1qjq 1qkc 2fcp 2grx
        MCJA_ECOLX | Q9X2V7: 1pp5 1q71 1s7p 2mmt 2mmw 5t56

(-) Related Entries Specified in the PDB File

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