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(-) Description

Title :  PROBING EF-TU WITH A VERY SMALL BROMINATED FRAGMENT LIBRARY IDENTIFIES THE CCA POCKET
 
Authors :  M. K. Groftehauge, M. Therkelsen, R. H. Taaning, T. Skrydstrup, J. P. Mo P. Nissen
Date :  24 Sep 12  (Deposition) - 11 Sep 13  (Release) - 11 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.93
Chains :  Asym./Biol. Unit :  A
Keywords :  P-Loop, Gtpase, Gtp Binding, Trna Binding, Ribosome Binding, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. K. Grftehauge, M. O. Therkelsen, R. Taaning, T. Skrydstrup, J. P. Morth, P. Nissen
Identifying Ligand-Binding Hot Spots In Proteins Using Brominated Fragments.
Acta Crystallogr. , Sect. F V. 69 1060 2013
PubMed-ID: 23989163  |  Reference-DOI: 10.1107/S1744309113018551

(-) Compounds

Molecule 1 - ELONGATION FACTOR TU-A
    Chains: A
    EC Number: 3.6.5.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK223-3
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TUF, TUFA
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274
    Synonym: EF-TU-A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 12)

Asymmetric/Biological Unit (5, 12)
No.NameCountTypeFull Name
114J1Ligand/Ion5-BROMOFURAN-2-CARBOXYLIC ACID
2GNP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
3MG1Ligand/IonMAGNESIUM ION
4NH41Ligand/IonAMMONIUM ION
5SO48Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:20 , ASP A:21 , HIS A:22 , GLY A:23 , LYS A:24 , THR A:25 , THR A:26 , TYR A:47 , ILE A:61 , THR A:62 , GLY A:84 , ASN A:136 , LYS A:137 , ASP A:139 , MET A:140 , SER A:174 , ALA A:175 , LEU A:176 , GLN A:354 , MG A:502 , HOH A:612 , HOH A:617 , HOH A:628 , HOH A:664 , HOH A:698 , HOH A:714BINDING SITE FOR RESIDUE GNP A 501
02AC2SOFTWARETHR A:25 , THR A:62 , GNP A:501 , HOH A:612 , HOH A:628BINDING SITE FOR RESIDUE MG A 502
03AC3SOFTWAREILE A:50 , ASP A:51 , GLU A:56 , THR A:62 , ASN A:64 , HOH A:609BINDING SITE FOR RESIDUE NH4 A 503
04AC4SOFTWAREMET A:113 , PRO A:114 , ARG A:117 , HOH A:748 , HOH A:884 , HOH A:885BINDING SITE FOR RESIDUE SO4 A 504
05AC5SOFTWARELYS A:45 , HIS A:67 , HIS A:273 , ARG A:274 , HOH A:908 , HOH A:942BINDING SITE FOR RESIDUE SO4 A 505
06AC6SOFTWAREARG A:59 , HIS A:85 , HOH A:722 , HOH A:901 , HOH A:951BINDING SITE FOR RESIDUE SO4 A 506
07AC7SOFTWARETYR A:130 , ARG A:295 , HOH A:681 , HOH A:764 , HOH A:894 , HOH A:943BINDING SITE FOR RESIDUE SO4 A 507
08AC8SOFTWARELYS A:248 , ARG A:291 , HOH A:794 , HOH A:948BINDING SITE FOR RESIDUE SO4 A 508
09AC9SOFTWAREARG A:330 , HIS A:331 , THR A:332BINDING SITE FOR RESIDUE SO4 A 509
10BC1SOFTWAREARG A:57 , GLY A:358 , HOH A:878BINDING SITE FOR RESIDUE SO4 A 510
11BC2SOFTWAREGLN A:181 , ARG A:184 , ASN A:185 , HOH A:931BINDING SITE FOR RESIDUE SO4 A 511
12BC3SOFTWAREPHE A:229 , ILE A:231 , ARG A:234 , GLU A:271 , GLY A:287 , LEU A:289BINDING SITE FOR RESIDUE 14J A 512

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4H9G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4H9G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4H9G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4H9G)

(-) Exons   (0, 0)

(no "Exon" information available for 4H9G)

(-) 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:404
                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d4h9ga1 A:2-212 automated matches                                                                                                                                                                                  d4h9ga2 A:213-312 automated matches                                                                 d4h9ga3 A:313-405 automated matches                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeee.....hhhhhhhhhhhhhhhhh......hhhhhh.hhhhhhhh.....eeeeee....eeeeee...hhhhhhhhhhhhh....eeeeee.....hhhhhhhhhhhhhh....eeeeeehhhhh.hhhhhhhhhhhhhhhhhhh........eee.hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh...........eee..eeeee...eeeeeee....ee....eeeee......eeeeeeeeee..ee...ee...eeeeee............eee.......eeeeeeeeee.hhhhh.....ee.....eeee..eeeeeeee......ee....eeeeeeeeeeee......eeeeee..eeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9g A   2 KGEFVRTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTKFEASVYVLKKEEGGRHTGFFSGYRPQFYFRTTDVTGVVQLPPGVEMVMPGDNVTFTVELIKPVALEEGLRFAIREGGRTVGAGVVTKILE 405
                                    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       361       371       381       391       401
   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  (3, 3)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4H9G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4H9G)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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  4h9g
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  EFTU1_THETH | P60338
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  3.6.5.3
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 Related Entries

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

UniProtKB/Swiss-Prot
        EFTU1_THETH | P60338: 1aip 1exm 1ha3 4lbv 4lbw 4lby 4lbz 4lc0

(-) Related Entries Specified in the PDB File

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