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(-) Description

Title :  EF-TU (ESCHERICHIA COLI) COMPLEXED WITH NVP-LDU796
 
Authors :  D. Palestrant
Date :  17 Jul 12  (Deposition) - 26 Dec 12  (Release) - 26 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,I
Keywords :  Elongation Factor, Translation-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Lamarche, J. A. Leeds, J. Dzink-Fox, E. Gangl, P. Krastel, G. Neckermann, D. Palestrant, M. A. Patane, E. M. Rann, S. Tiamfook, D. Yu
Antibiotic Optimization And Chemical Structure Stabilizatio Of Thiomuracin A.
J. Med. Chem. V. 55 6934 2012
PubMed-ID: 22812377  |  Reference-DOI: 10.1021/JM300783C

(-) Compounds

Molecule 1 - ELONGATION FACTOR TU 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TUFA, B3339, JW3301
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: EF-TU 1, P-43
 
Molecule 2 - THIOMURACIN A DERIVATIVE
    Chains: I
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AI

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (9, 14)

Asymmetric/Biological Unit (9, 14)
No.NameCountTypeFull Name
105N1Mod. Amino Acid(3R,4R)-4-HYDROXY-3-METHYL-L-PROLINE
2BB61Mod. Amino Acid(2Z)-2-AMINO-3-SULFANYLBUT-2-ENOIC ACID
3BB95Mod. Amino Acid(2Z)-2-AMINO-3-SULFANYLPROP-2-ENOIC ACID
4GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
5H141Mod. Amino Acid(2S,3R)-BETA-HYDROXY-PHENYLALANINE
6MG2Ligand/IonMAGNESIUM ION
7MH61Mod. Amino Acid3-HYDROXY-2-IMINOPROPANOIC ACID
8NH21Mod. Amino AcidAMINO GROUP
9SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:25 , CYS A:81 , GDP A:502 , HOH A:601 , HOH A:602 , HOH A:615 , HOH A:616BINDING SITE FOR RESIDUE MG A 501
2AC2SOFTWAREASP A:21 , HIS A:22 , GLY A:23 , LYS A:24 , THR A:25 , THR A:26 , PHE A:46 , ASN A:135 , LYS A:136 , ASP A:138 , MET A:139 , SER A:173 , ALA A:174 , LEU A:175 , MG A:501 , HOH A:601 , HOH A:602 , HOH A:605 , HOH A:615BINDING SITE FOR RESIDUE GDP A 502
3AC3SOFTWAREGLU A:152 , HOH A:653 , HOH A:654 , HOH A:681BINDING SITE FOR RESIDUE MG A 503
4AC4SOFTWAREARG A:262 , ARG A:318 , HIS A:319 , THR A:320 , ARG A:381BINDING SITE FOR RESIDUE SO4 A 504
5AC5SOFTWAREGLU A:215 , THR A:228 , GLY A:257 , GLU A:259 , PHE A:261 , ARG A:262 , LEU A:264 , ASN A:273 , VAL A:274 , GLY A:275 , LEU A:277 , THR A:320 , PRO A:321 , PHE A:323 , LYS A:324 , HOH A:672 , HOH I:1001 , HOH I:1002BINDING SITE FOR CHAIN I OF THIOMURACIN A DERIVATIVE

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4G5G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4G5G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4G5G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4G5G)

(-) Exons   (0, 0)

(no "Exon" information available for 4G5G)

(-) 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:391
                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeee.....hhhhhhhhhhhhhhhhhh....hhhhhhh..eee....eee.eeeeee....eeeeee..hhhhhhhhhhhh......eeeeee.....hhhhhhhhhhhhhhh...eeeeee........hhhhhhhhhhhhhhhhh........eee.hhhhhhh.hhhhhhhhhhhhhhhhhhh....hhhhh..eee...eeee...eeeeeee....eee...eeeee.....eeeeeeeeee..eee.eee...eeeeee............eee.....eeeeeeeeeeee...........ee.....eeee..eeeeeeee......ee....eeeeeeeeeeeeee....eeeeee..eeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g5g A   3 EKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHTPFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLG 393
                                    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       322       332       342       352       362       372       382       392 


Chain I from PDB  Type:PROTEIN  Length:13
                                             
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author ............. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                 4g5g I 900 ScNcfcYpccscx 912
                             | ||| 909|||
                           901-BB9 |||912-NH2
                             903-BB6|||| 
                              904-H14||| 
                               905-BB9|| 
                                 907-05N 
                                  908-BB9
                                   909-BB9
                                    910-MH6
                                     911-BB9
   Legend:   → Mismatch (orange background)
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  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 4G5G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4G5G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4G5G)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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UniProtKB/Swiss-Prot
        EFTU1_ECOLI | P0CE47: 1d8t 1dg1 1efc 1efm 1efu 1etu 1ls2 1mj1 1qzd 2bvn 2fx3 2hcj 2hdn 3ep2 3eq3 3eq4 3u2q 3u6b 3u6k 4pc3 4pc7 4q7j 4v69 5jbq

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