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(-) Description

Title :  STRUCTURE OF AN FTSY:GDP COMPLEX
 
Authors :  P. J. Focia, D. M. Freymann
Date :  18 Jul 06  (Deposition) - 02 Jan 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  D
Keywords :  Inner Membrane, Ribonucleoprotein, Nucleotide-Binding, Signal Recognition Particle, Srp, Gdp, Ffh, Ftsy, Gtpase, Rna-Binding, Gtp-Binding, Cell Division, Membrane, Cell Cycle (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Gawronski-Salerno, J. S. Coon, P. J. Focia, D. M. Freymann
X-Ray Structure Of The T. Aquaticus Ftsy:Gdp Complex Suggests Functional Roles For The C- Terminal Helix Of The Srp Gtpases.
Proteins V. 66 984 2007
PubMed-ID: 17186523  |  Reference-DOI: 10.1002/PROT.21200

(-) Compounds

Molecule 1 - CELL DIVISION PROTEIN FTSY
    Chains: D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PJGS3
    Expression System Strain: ROSSETTA-2(DE3)/PLYSS
    Expression System Taxid: 562
    Fragment: NGD20, RESIDUES 20-303
    Organism Scientific: THERMUS AQUATICUS
    Organism Taxid: 271
    Synonym: FTSY

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
2SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG D:183 , TYR D:185BINDING SITE FOR RESIDUE SO4 D1306
2AC2SOFTWAREASN D:111 , GLY D:112 , VAL D:113 , GLY D:114 , LYS D:115 , THR D:116 , GDP D:1001 , HOH D:2091BINDING SITE FOR RESIDUE SO4 D1307
3AC3SOFTWAREGLY D:112 , VAL D:113 , GLY D:114 , LYS D:115 , THR D:116 , THR D:117 , LYS D:121 , LYS D:256 , ASP D:258 , GLY D:281 , VAL D:282 , GLY D:283 , GLU D:284 , SO4 D:1307 , HOH D:2051BINDING SITE FOR RESIDUE GDP D1001

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu D:220 -Pro D:221

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2IYL)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SRP54PS00300 SRP54-type proteins GTP-binding domain signature.FTSY_THEAQ276-289  1D:276-289

(-) Exons   (0, 0)

(no "Exon" information available for 2IYL)

(-) 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 D from PDB  Type:PROTEIN  Length:271
 aligned with FTSY_THEAQ | P83749 from UniProtKB/Swiss-Prot  Length:304

    Alignment length:284
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300    
           FTSY_THEAQ    21 AIPWGGNLEEVLEELEMALLAADVGLSATEEILQEVRASGRKDLKEAVKEKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPEAFVEALLED 304
               SCOP domains d2iyld1 D:21-78 Signal recognition particle receptor, FtsY-   ------------  d2iyld2 D:97-303 GTPase domain of the signal       recognition particle receptor FtsY                                                                                                                          - SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh..---hhhhhhh.....--.......eeeee.....hhhhhhhhhhhhhhhh...eeee....------hhhhhhhhhhh..ee......hhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhh.....eeeeeee.....--hhhhhhhhhhhh..eeeee......hhhhhhhhhhhhh..eeeee.......eee.hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SRP54         --------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2iyl D  21 AIPWGGNLEEVLEELEMALLAADVGLSATEEILQEVRASGRKDLKEAVKEKLVGMLEPD---ATLRKLGFNPQK--PVEPKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT------TQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ--LEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPEAFVEALLED 304
                                    30        40        50        60        70        |-  |     90   |  |100       110       120       130       140      |150       160       170       180       190       200       210       220       230   |  |240       250       260       270       280       290       300    
                                                                                     79  83         94 97                                        140    147                                                                                    234  |                                                                   
                                                                                                                                                                                                                                                  237
   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: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain D   (FTSY_THEAQ | P83749)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0003924    GTPase activity    Catalysis of the reaction: GTP + H2O = GDP + phosphate.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    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).
biological process
    GO:0006614    SRP-dependent cotranslational protein targeting to membrane    The targeting of proteins to a membrane that occurs during translation and is dependent upon two key components, the signal-recognition particle (SRP) and the SRP receptor. SRP is a cytosolic particle that transiently binds to the endoplasmic reticulum (ER) signal sequence in a nascent protein, to the large ribosomal unit, and to the SRP receptor in the ER membrane.
    GO:0006612    protein targeting to membrane    The process of directing proteins towards a membrane, usually using signals contained within the 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:0031226    intrinsic component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        FTSY_THEAQ | P83749: 1okk 1rj9 2cnw 2j7p 2q9a 2q9b 2q9c 2xkv

(-) Related Entries Specified in the PDB File

1fts SIGNAL RECOGNITION PARTICLE RECEPTOR FROM E. COLI
1ng1 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH FROM THERMUS AQUATICUS
1okk A SCARILY SYMMETRIC HOMO-HETERODIMER
1rj9 STRUCTURE OF THE HETERODIMER OF THE CONSERVED GTPASEDOMAINS OF THE SIGNAL RECOGNITION PARTICLE (FFH) AND ITSRECEPTOR (FTSY)
1vma CRYSTAL STRUCTURE OF CELL DIVISION PROTEIN FTSY (TM0570)FROM THERMOTOGA MARITIMA AT 1. 60 A RESOLUTION
1zu4 CRYSTAL STRUCTURE OF FTSY FROM MYCOPLASMA MYCOIDES- SPACEGROUP P21212
2cnw GDPALF4 COMPLEX OF THE SRP GTPASES FFH AND FTSY