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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF YOPE-YERSINIA PESTIS GAP EFFECTOR PROTEIN.
 
Authors :  A. G. Evdokimov, J. E. Tropea, K. M. Routzahn, D. S. Waugh
Date :  18 Jan 01  (Deposition) - 06 Feb 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Four Helix Up-Down-Up-Down Antiparallel Bundle, Beta Hairpin, Arginine Finger, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. G. Evdokimov, J. E. Tropea, K. M. Routzahn, D. S. Waugh
Crystal Structure Of The Yersinia Pestis Gtpase Activator Yope.
Protein Sci. V. 11 401 2002
PubMed-ID: 11790850  |  Reference-DOI: 10.1110/PS.34102
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - YERSINIA PESTIS VIRULENCE PROTEIN YOPE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(RIL)DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN (RESIDUES 90-219)
    Gene: YOPE
    Organism Scientific: YERSINIA PESTIS
    Organism Taxid: 632
    Synonym: YOPE, YERSINIA OUTER PROTEIN E

 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, 10)

Asymmetric Unit (1, 10)
No.NameCountTypeFull Name
1MSE10Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 5)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 5)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1HY5)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1HY5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1HY5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1HY5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1HY5)

(-) Exons   (0, 0)

(no "Exon" information available for 1HY5)

(-) 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:120
 aligned with YOPE_YERPE | P31493 from UniProtKB/Swiss-Prot  Length:219

    Alignment length:120
                                   109       119       129       139       149       159       169       179       189       199       209       219
          YOPE_YERPE    100 TSFSDSIKQLAAETLPKYMQQLNSLDAEMLQKNHDQFATGSGPLRGSITQCQGLMQFCGGELQAEASAILNTPVCGIPFSQWGTIGGAASAYVASGVDLTQAANEIKGLAQQMQKLLSLM  219
               SCOP domains d1hy5a_ A: YopE                                                                                                          SCOP domains
               CATH domains 1hy5A00 A:1100-1218  [code=1.20.120.260, no name defined]                                                              - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee..ee.hhhhh..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                1hy5 A 1100 TSFSDSIKQLAAETLPKYmQQLNSLDAEmLQKNHDQFATGSGPLRGSITQCQGLmQFCGGELQAEASAILNTPVCGIPFSQWGTIGGAASAYVASGVDLTQAANEIKGLAQQmQKLLSLm 1219
                                  1109      1119      1129      1139      1149    | 1159      1169      1179      1189      1199      1209  |   1219
                                           1118-MSE  1128-MSE                  1154-MSE                                                  1212-MSE  |
                                                                                                                                                1219-MSE


Chain B from PDB  Type:PROTEIN  Length:121
 aligned with YOPE_YERPE | P31493 from UniProtKB/Swiss-Prot  Length:219

    Alignment length:121
                                                                                                                                                 219 
                                   109       119       129       139       149       159       169       179       189       199       209       219 
          YOPE_YERPE    100 TSFSDSIKQLAAETLPKYMQQLNSLDAEMLQKNHDQFATGSGPLRGSITQCQGLMQFCGGELQAEASAILNTPVCGIPFSQWGTIGGAASAYVASGVDLTQAANEIKGLAQQMQKLLSLM-    -
               SCOP domains d1hy5b_ B: YopE                                                                                                           SCOP domains
               CATH domains 1hy5B00 B:2100-2220  [code=1.20.120.260, no name defined]                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee..ee.hhh....hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                1hy5 B 2100 TSFSDSIKQLAAETLPKYmQQLNSLDAEmLQKNHDQFATGSGPLRGSITQCQGLmQFCGGELQAEASAILNTPVCGIPFSQWGTIGGAASAYVASGVDLTQAANEIKGLAQQmQKLLSLmH 2220
                                  2109      2119      2129      2139      2149    | 2159      2169      2179      2189      2199      2209  |   2219 
                                           2118-MSE  2128-MSE                  2154-MSE                                                  2212-MSE  | 
                                                                                                                                                2219-MSE
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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  (1, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1HY5)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (YOPE_YERPE | P31493)
molecular function
    GO:0005096    GTPase activator activity    Binds to and increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP.
biological process
    GO:0050765    negative regulation of phagocytosis    Any process that stops, prevents, or reduces the frequency, rate or extent of phagocytosis.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  1hy5
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1g4u 1G4U IS ANALOGOUS PROTEIN FROM SALMONELLA
1g4w 1G4W IS ANALOGOUS PROTEIN FROM SALMONELLA
1he1 1HE1 IS ANALOGOUS PROTEIN FROM PSEUDOMONAS AERUGINOSA
1he9 1HE9 IS ANALOGOUS PROTEIN FROM PSEUDOMONAS AERUGINOSA