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(-) Description

Title :  CRYSTAL STRUCTURE OF A VIRULENCE FACTOR (CJ0248) FROM CAMPYLOBACTER JEJUNI SUBSP. JEJUNI AT 2.25 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  17 Dec 04  (Deposition) - 28 Dec 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Hd-Domain/Pdease-Like Fold, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Xu, R. Schwarzenbacher, D. Mcmullan, P. Abdubek, S. Agarwalla, E. Ambing, H. Axelrod, T. Biorac, J. M. Canaves, H. J. Chiu, A. M. Deacon M. Didonato, M. A. Elsliger, A. Godzik, C. Grittini, S. K. Grzechnik, J. Hale, E. Hampton, G. W. Han, J. Haugen, M. Hornsby, L. Jaroszewski, H. E. Klock, E. Koesema, A. Kreusch, P. Kuhn, S. A. Lesley, M. D. Miller, K. Moy, E. Nigoghossian, J. Paulsen, K. Quijano, R. Reyes, C. Rife, G. Spraggon, R. C. Stevens, H. Van Den Bedem, J. Velasquez, A. White, G. Wolf, K. O. Hodgson, J. Wooley, I. A. Wilson
Crystal Structure Of Virulence Factor Cj0248 From Campylobacter Jejuni At 2. 25 A Resolution Reveals A New Fold.
Proteins V. 62 292 2006
PubMed-ID: 16287129  |  Reference-DOI: 10.1002/PROT.20611

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN CJ0248
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CJ0248
    Organism Scientific: CAMPYLOBACTER JEJUNI SUBSP. JEJUNI NCTC 11168
    Organism Taxid: 192222
    Strain: SUBSP. JEJUNI NCTC 11168

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 22)

Asymmetric Unit (1, 22)
No.NameCountTypeFull Name
1MSE22Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 5)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 5)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1VQR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1VQR)

(-) 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:284
 aligned with Q0PBQ7_CAMJE | Q0PBQ7 from UniProtKB/TrEMBL  Length:285

    Alignment length:286
                             1                                                                                                                                                                                                                                                                                            
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279      
         Q0PBQ7_CAMJE     - -MIGDMNELLLKSVEVLPPLPDTVSKLRKYVSEANSNIETMKVAEIISSDPLMTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVMADSIRDNFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAMLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENLNKED 285
               SCOP domains d1vqra_ A: Hypothetical protein Cj  0248                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 1vqrA00 A:0-285 hypothetical prote  in (6967725)                                                                                                                                                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh.....hhhhhhhhhhhhhhh--..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..........hhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhh..hhhhh...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vqr A   0 HmIGDmNELLLKSVEVLPPLPDTVSKLRKYVSEA--NIETmKVAEIISSDPLmTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVmADSIRDNFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAmLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENLNKED 285
                             |   |   9        19        29   |  | 39|       49  |     59        69        79        89 |      99       109       119       129       139    |  149       159       169       179       189       199       209       219       229       239       249       259       269       279      
                             |   |                          33 36   |          52-MSE                                 91-MSE                                              144-MSE                                                                                                                                         
                             1-MSE                                 40-MSE                                                                                                                                                                                                                                                 
                                 5-MSE                                                                                                                                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:269
 aligned with Q0PBQ7_CAMJE | Q0PBQ7 from UniProtKB/TrEMBL  Length:285

    Alignment length:277
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       
         Q0PBQ7_CAMJE     5 MNELLLKSVEVLPPLPDTVSKLRKYVSEANSNIETMKVAEIISSDPLMTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVMADSIRDNFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAMLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENL 281
               SCOP domains d1vqrb_ B: Hypothetical prot    ein Cj0248                                                                                                                                                                                                                                            SCOP domains
               CATH domains -1vqrB00 B:6-281 hypothetica    l protein (6967725)                                                                                                                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh.....hhhhhhhhhhhh..----.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh..----.....hhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhh..hhhhh...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vqr B   5 mNELLLKSVEVLPPLPDTVSKLRKYVSE----IETmKVAEIISSDPLmTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVmAD----NFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAmLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENL 281
                            |       14        24       | -  |  |  44       |54        64        74        84      | |-   |   104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       
                            5-MSE                     32   37  |          52-MSE                                 91-MSE 98                                           144-MSE                                                                                                                                     
                                                              40-MSE                                               93                                                                                                                                                                                            


Chain C from PDB  Type:PROTEIN  Length:281
 aligned with Q0PBQ7_CAMJE | Q0PBQ7 from UniProtKB/TrEMBL  Length:285

    Alignment length:281
                                    10        20        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 
         Q0PBQ7_CAMJE     1 MIGDMNELLLKSVEVLPPLPDTVSKLRKYVSEANSNIETMKVAEIISSDPLMTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVMADSIRDNFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAMLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENL 281
               SCOP domains d1vqrc_ C: Hypothetical protein Cj0248                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -1vqrC00 C:2-281 hypothetical protein (6967725)                                                                                                                                                                                                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh.....hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..........hhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vqr C   1 mIGDmNELLLKSVEVLPPLPDTVSKLRKYVSEANSNIETmKVAEIISSDPLmTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVmADSIRDNFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAmLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENL 281
                            |   |   10        20        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 
                            1-MSE                                 40-MSE      52-MSE                                 91-MSE                                              144-MSE                                                                                                                                     
                                5-MSE                                                                                                                                                                                                                                                                                


Chain D from PDB  Type:PROTEIN  Length:267
 aligned with Q0PBQ7_CAMJE | Q0PBQ7 from UniProtKB/TrEMBL  Length:285

    Alignment length:277
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       
         Q0PBQ7_CAMJE     5 MNELLLKSVEVLPPLPDTVSKLRKYVSEANSNIETMKVAEIISSDPLMTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVMADSIRDNFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAMLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENL 281
               SCOP domains d1vqrd_ D: Hypothetical pr      otein Cj0248                                                                                                                                                                                                                                          SCOP domains
               CATH domains -1vqrD00 D:6-281 hypotheti      cal protein (6967725)                                                                                                                                                                                                                                 CATH domains
           Pfam domains (1) -----------HDOD-1vqrD01 D:      16-215                                                                                                                                                                             ------------------------------------------------------------------ Pfam domains (1)
           Pfam domains (2) -----------HDOD-1vqrD02 D:      16-215                                                                                                                                                                             ------------------------------------------------------------------ Pfam domains (2)
           Pfam domains (3) -----------HDOD-1vqrD03 D:      16-215                                                                                                                                                                             ------------------------------------------------------------------ Pfam domains (3)
           Pfam domains (4) -----------HDOD-1vqrD04 D:      16-215                                                                                                                                                                             ------------------------------------------------------------------ Pfam domains (4)
         Sec.struct. author hhhhhhhhh.....hhhhhhhhhhhh------.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh..----.....hhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vqr D   5 mNELLLKSVEVLPPLPDTVSKLRKYV------IETmKVAEIISSDPLmTAKLLQLANSPYYGFTREITTINQVITLLGVGNIINIVmAD----NFKIDVSPYGLNTQNFLKTCNEEATFIANWLNDEDKKLSHLLVPCAmLLRLGIVIFSNFLIQNHKDKDFLAFLNKNENLALAENEFLGVDHISFLGFLLHRWNFDDVLIESICFVRTPHAAREKVKKSAYALAITDHLFAPHDGSSPFNAKAAVALLKEAKTQGINFDLNNLLSKLPNKAKENL 281
                            |       14        24     |   -  |  |  44       |54        64        74        84      | |-   |   104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       
                            5-MSE                   30     37  |          52-MSE                                 91-MSE 98                                           144-MSE                                                                                                                                     
                                                              40-MSE                                               93
   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  (1, 4)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: HD_PDEase (93)
(-)
Family: HDOD (2)
(-)
Campylobacter jejuni (1)
1aHDOD-1vqrD01D:16-215
1bHDOD-1vqrD02D:16-215
1cHDOD-1vqrD03D:16-215
1dHDOD-1vqrD04D:16-215

(-) Gene Ontology  (0, 0)

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  1vqr
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 Related Entries

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