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(-) Description

Title :  STRUCTURE OF PSEUDOMONAS AERUGINOSA ELONGATION FACTOR P
 
Authors :  J. Choe, S. Choi
Date :  24 Sep 10  (Deposition) - 09 Mar 11  (Release) - 09 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Elongation Factor, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Choi, J. Choe
Crystal Structure Of Elongation Factor P From Pseudomonas Aeruginosa At 1. 75 A Resolution
Proteins: 2011 Struct. , Funct. , Genet.
PubMed: search  |  Reference-DOI: 10.1002/PROT.22992

(-) Compounds

Molecule 1 - ELONGATION FACTOR P
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: EFP, PA2851
    Organism Scientific: PSEUDOMONAS AERUGINOSA
    Organism Taxid: 287
    Synonym: EF-P

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1PO4-1Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1PO41Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY B:10 , VAL B:21 , ILE B:22 , ARG B:67 , HOH B:300BINDING SITE FOR RESIDUE PO4 B 189

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Asp A:77 -Pro A:78
2Asp B:77 -Pro B:78

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OYY)

(-) Exons   (0, 0)

(no "Exon" information available for 3OYY)

(-) Sequences/Alignments

Asymmetric 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:187
 aligned with EFP_PSEAE | Q9HZZ2 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:189
                               1                                                                                                                                                                                         
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177         
            EFP_PSEAE     - ---MKTAQEFRAGQVANINGAPWVIQKAEFNKSGRNAAVVKMKLKNLLTGAGTETVFKADDKLEPIILDRKEVTYSYFADPLYVFMDSEFNQYEIEKDDLEGVLTFIEDGMTDICEAVFYNDKVISVELPTTIVRQIAYTEPAVRGDTSGKVMKTARLNNGAELQVSAFCEIGDSIEIDTRTGEYKSRV 186
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhh....eeee..eeeeeeeeeee.......eeeeeeee.....eeeeeee...eeee...eeeeeeeeee....eeeee....eeeehhhhh..hhhhh.......eeeeee..eeeeee...eeeeeeeee.........--.eeeeee....eeeee.......eeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oyy A  -2 MASMKTAQEFRAGQVANINGAPWVIQKAEFNKSGRNAAVVKMKLKNLLTGAGTETVFKADDKLEPIILDRKEVTYSYFADPLYVFMDSEFNQYEIEKDDLEGVLTFIEDGMTDICEAVFYNDKVISVELPTTIVRQIAYTEPAVRGDTS--VMKTARLNNGAELQVSAFCEIGDSIEIDTRTGEYKSRV 186
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137        |- |     157       167       177         
                                                                                                                                                                              146  |                                     
                                                                                                                                                                                 149                                     


Chain B from PDB  Type:PROTEIN  Length:186
 aligned with EFP_PSEAE | Q9HZZ2 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:186
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180      
            EFP_PSEAE     1 MKTAQEFRAGQVANINGAPWVIQKAEFNKSGRNAAVVKMKLKNLLTGAGTETVFKADDKLEPIILDRKEVTYSYFADPLYVFMDSEFNQYEIEKDDLEGVLTFIEDGMTDICEAVFYNDKVISVELPTTIVRQIAYTEPAVRGDTSGKVMKTARLNNGAELQVSAFCEIGDSIEIDTRTGEYKSRV 186
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) --EFP_N-3oyyB01 B:3-60                                      ------EFP-3oyyB03 B:67-122                                    -------Elong-fact-P_C-3oyyB05 B:130-185                        - Pfam domains (1)
           Pfam domains (2) --EFP_N-3oyyB02 B:3-60                                      ------EFP-3oyyB04 B:67-122                                    -------Elong-fact-P_C-3oyyB06 B:130-185                        - Pfam domains (2)
         Sec.struct. author .ee.hhh....eeee..eeeeeeeeeee.......eeeeeeee.....eeeeeee...eeee...eeeeeeeeee....eeee.....eeeehhhhh..............eeeeee..eeeeee...eeeeeeee.............eeeeee....eeeee.......eeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3oyy B   1 MKTAQEFRAGQVANINGAPWVIQKAEFNKSGRNAAVVKMKLKNLLTGAGTETVFKADDKLEPIILDRKEVTYSYFADPLYVFMDSEFNQYEIEKDDLEGVLTFIEDGMTDICEAVFYNDKVISVELPTTIVRQIAYTEPAVRGDTSGKVMKTARLNNGAELQVSAFCEIGDSIEIDTRTGEYKSRV 186
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180
   Legend:   → Mismatch (orange background)
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  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 3OYY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (3, 6)

Asymmetric Unit
(-)
Clan: KOW (56)
(-)
Clan: OB (224)
(-)
Clan: no clan defined [family: Elong-fact-P_C] (3)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (EFP_PSEAE | Q9HZZ2)
molecular function
    GO:0003746    translation elongation factor activity    Functions in chain elongation during polypeptide synthesis at the ribosome.
biological process
    GO:0043043    peptide biosynthetic process    The chemical reactions and pathways resulting in the formation of peptides, compounds of 2 or more (but usually less than 100) amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another. This may include the translation of a precursor protein and its subsequent processing into a functional peptide.
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
    GO:0006414    translational elongation    The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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