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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE LIPOPROTEIN (BDI_3050) FROM PARABACTEROIDES DISTASONIS ATCC 8503 AT 2.70 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  29 Jun 12  (Deposition) - 25 Jul 12  (Release) - 25 Jul 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Keywords :  Putative Exported Protein With Ymcc-Like Fold, Duf 3108, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Lipid Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Putative Lipoprotein (Bdi_3050) From Parabacteroides Distasonis Atcc 8503 At 2. 70 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE LIPOPROTEIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: PB1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BDI_3050
    Organism Scientific: PARABACTEROIDES DISTASONIS
    Organism Taxid: 435591
    Strain: ATCC 8503

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A     
Biological Unit 2 (1x):  B    
Biological Unit 3 (1x):   C   
Biological Unit 4 (1x):    D  
Biological Unit 5 (1x):     E 
Biological Unit 6 (1x):      F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 22)

Asymmetric Unit (2, 22)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION
2MSE18Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 5 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 6 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MSE3Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG C:152BINDING SITE FOR RESIDUE CL C 301
2AC2SOFTWARELYS C:99BINDING SITE FOR RESIDUE CL C 302
3AC3SOFTWAREARG D:152BINDING SITE FOR RESIDUE CL D 301
4AC4SOFTWARELYS D:184 , THR F:177BINDING SITE FOR RESIDUE CL F 301

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:23 -A:89
2B:23 -B:89
3C:23 -C:89
4D:23 -D:89
5E:23 -E:89
6F:23 -F:89

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FVS)

(-) 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:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee....eeeeeeeeeeeeeee..eeeeeeeeeee.....eeeeeeeeeeee..eeeee.hhhhhhhhhhh.....eee...eee..................eeeeeee..eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeee...eeeeeeeee....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvs A  21 QDCTFFFPQTEGTVWVRKGYDAKGNLQSVmSYQVDEVETLPSGQEVEADYVYTNPSGTIVNKGDIKAYCQNGEFFLDSKETLSYPGVVSEmNTNVDITENFINYPNPYAANFDKNNVYFDEASVKIYDKKNRKNRKDmAIKDREFIKTESITTPAGTFDCAKVKYNIATRSPKSKETITGYGYEWYSPNVGLVRTEQYDKNNVLQSYTVLEELK 234
                                    30        40        50        60        70        80        90       100       110|      120       130       140       150       160       170       180       190       200       210       220       230    
                                                        50-MSE                                                      111-MSE                                        158-MSE                                                                        


Chain B from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee....eeeeeeeeeeeeeee..eeeeeeeeeee.....eeeeeeeeeeee..eeeee.hhhhhhhhhhh.....eee...eee....................eeeee..eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeee...eeeeeeeee....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvs B  21 QDCTFFFPQTEGTVWVRKGYDAKGNLQSVmSYQVDEVETLPSGQEVEADYVYTNPSGTIVNKGDIKAYCQNGEFFLDSKETLSYPGVVSEmNTNVDITENFINYPNPYAANFDKNNVYFDEASVKIYDKKNRKNRKDmAIKDREFIKTESITTPAGTFDCAKVKYNIATRSPKSKETITGYGYEWYSPNVGLVRTEQYDKNNVLQSYTVLEELK 234
                                    30        40        50        60        70        80        90       100       110|      120       130       140       150       160       170       180       190       200       210       220       230    
                                                        50-MSE                                                      111-MSE                                        158-MSE                                                                        


Chain C from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee....eeeeeeeeeeeeee....eeeeeeeeee.....eeeeeeeeeeee..eeeee.hhhhhhhhhhhh....eee...eeee.................eeeeeee..eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeee...eeeeeeeee....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvs C  21 QDCTFFFPQTEGTVWVRKGYDAKGNLQSVmSYQVDEVETLPSGQEVEADYVYTNPSGTIVNKGDIKAYCQNGEFFLDSKETLSYPGVVSEmNTNVDITENFINYPNPYAANFDKNNVYFDEASVKIYDKKNRKNRKDmAIKDREFIKTESITTPAGTFDCAKVKYNIATRSPKSKETITGYGYEWYSPNVGLVRTEQYDKNNVLQSYTVLEELK 234
                                    30        40        50        60        70        80        90       100       110|      120       130       140       150       160       170       180       190       200       210       220       230    
                                                        50-MSE                                                      111-MSE                                        158-MSE                                                                        


Chain D from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee....eeeeeeeeeeeeeee..eeeeeeeeeee.....eeeeeeeeeeee..eeeee.hhhhhhhhhhh.....eee...eee....................eeeee..eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeee......eeeeeeeeeee...eeeeeeeee....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvs D  21 QDCTFFFPQTEGTVWVRKGYDAKGNLQSVmSYQVDEVETLPSGQEVEADYVYTNPSGTIVNKGDIKAYCQNGEFFLDSKETLSYPGVVSEmNTNVDITENFINYPNPYAANFDKNNVYFDEASVKIYDKKNRKNRKDmAIKDREFIKTESITTPAGTFDCAKVKYNIATRSPKSKETITGYGYEWYSPNVGLVRTEQYDKNNVLQSYTVLEELK 234
                                    30        40        50        60        70        80        90       100       110|      120       130       140       150       160       170       180       190       200       210       220       230    
                                                        50-MSE                                                      111-MSE                                        158-MSE                                                                        


Chain E from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeeeee....eeeeeeeeeeeeee....eeeeeeeeee.....eeeeeeeeeeee..eeeee.hhhhhhhhhhh.....eee...eee..................eeeeeee..eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeee...eeeeeeeee....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvs E  22 DCTFFFPQTEGTVWVRKGYDAKGNLQSVmSYQVDEVETLPSGQEVEADYVYTNPSGTIVNKGDIKAYCQNGEFFLDSKETLSYPGVVSEmNTNVDITENFINYPNPYAANFDKNNVYFDEASVKIYDKKNRKNRKDmAIKDREFIKTESITTPAGTFDCAKVKYNIATRSPKSKETITGYGYEWYSPNVGLVRTEQYDKNNVLQSYTVLEELK 234
                                    31        41        51        61        71        81        91       101       111       121       131       141       151      |161       171       181       191       201       211       221       231   
                                                       50-MSE                                                      111-MSE                                        158-MSE                                                                        


Chain F from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee....eeeeeeeeeeeeee....eeeeeeeeee.....eeeeeeeeeeee..eeeee.hhhhhhhhhhh.....eee...eee..................eeeeeee..eeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeee...eeeeeeeee....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fvs F  21 QDCTFFFPQTEGTVWVRKGYDAKGNLQSVmSYQVDEVETLPSGQEVEADYVYTNPSGTIVNKGDIKAYCQNGEFFLDSKETLSYPGVVSEmNTNVDITENFINYPNPYAANFDKNNVYFDEASVKIYDKKNRKNRKDmAIKDREFIKTESITTPAGTFDCAKVKYNIATRSPKSKETITGYGYEWYSPNVGLVRTEQYDKNNVLQSYTVLEELK 234
                                    30        40        50        60        70        80        90       100       110|      120       130       140       150       160       170       180       190       200       210       220       230    
                                                        50-MSE                                                      111-MSE                                        158-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  (0, 0)

(no "SCOP Domain" information available for 4FVS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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