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(-) Description

Title :  CRYSTAL STRUCTURE OF PFUTHERMO-DBP-RP1 (CRYSTAL FORM II)
 
Authors :  H. Gahlei, H. Von Moeller, D. Eppers, B. Loll, M. C. Wahl
Date :  07 Mar 14  (Deposition) - 30 Apr 14  (Release) - 25 Jun 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.43
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Ssdna Binding Protein, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Ghalei, H. V. Moeller, D. Eppers, D. Sohmen, D. N. Wilson, B. Loll, M. C. Wahl
Entrapment Of Dna In An Intersubunit Tunnel System Of A Single-Stranded Dna-Binding Protein.
Nucleic Acids Res. V. 42 6698 2014
PubMed-ID: 24744237  |  Reference-DOI: 10.1093/NAR/GKU259

(-) Compounds

Molecule 1 - SSDNA BINDING PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-M11
    Expression System Strain: BL21-CODONPLUS(DE3)-RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PF1044
    Organism Scientific: PYROCOCCUS FURIOSUS
    Organism Taxid: 186497
    Strain: ATCC 43587 / DSM 3638 / JCM 8422 / VC1

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 28)

Asymmetric/Biological Unit (2, 28)
No.NameCountTypeFull Name
1MSE24Mod. Amino AcidSELENOMETHIONINE
2SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:10 , LYS A:57 , GLU A:58 , ASN B:68BINDING SITE FOR RESIDUE SO4 A 201
2AC2SOFTWAREARG B:10 , LYS B:57 , GLU B:58 , LYS C:44BINDING SITE FOR RESIDUE SO4 B 201
3AC3SOFTWAREARG C:10 , LYS C:57 , GLU C:58BINDING SITE FOR RESIDUE SO4 C 201
4AC4SOFTWAREARG D:10 , SER D:12 , LYS D:57 , GLU D:58BINDING SITE FOR RESIDUE SO4 D 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PSM)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PSM)

(-) 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 A from PDB  Type:PROTEIN  Length:147
                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeee..eeee.hhhheeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4psm A   2 PKLmTGFVRASGYANKVRRVLFAITRGKVFPEEVVKAAGELNKIIFEKLQEmGVKKEDVVRISVDFNIEDGKIVWNLDSLEIETYKKEEEEKLALAmEEVEHmEKmFEETVKELEALSDKLREISKEISELVERmKQEYTGLKLRSE 148
                               |    11        21        31        41        51 |      61        71        81        91      |101  |  | 111       121       131    |  141       
                               |                                              53-MSE                                       98-MSE |  |                          136-MSE        
                               5-MSE                                                                                            104-MSE                                        
                                                                                                                                   107-MSE                                     


Chain B from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh......eeeeee.eeee..eeee.hhhheeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4psm B   3 KLmTGFVRASGYANKVRRVLFAITRGKVFPEEVVKAAGELNKIIFEKLQEmGVKKEDVVRISVDFNIEDGKIVWNLDSLEIETYKKEEEEKLALAmEEVEHmEKmFEETVKELEALSDKLREISKEISELVERmKQEYTGLKLRSE 148
                              |     12        22        32        42        52|       62        72        82        92     | 102 |  |  112       122       132   |   142      
                              5-MSE                                          53-MSE                                       98-MSE |  |                          136-MSE        
                                                                                                                               104-MSE                                        
                                                                                                                                  107-MSE                                     


Chain C from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh......eeeeee.eeee..eeee.hhhheeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4psm C   3 KLmTGFVRASGYANKVRRVLFAITRGKVFPEEVVKAAGELNKIIFEKLQEmGVKKEDVVRISVDFNIEDGKIVWNLDSLEIETYKKEEEEKLALAmEEVEHmEKmFEETVKELEALSDKLREISKEISELVERmKQEYTGLKLRSE 148
                              |     12        22        32        42        52|       62        72        82        92     | 102 |  |  112       122       132   |   142      
                              5-MSE                                          53-MSE                                       98-MSE |  |                          136-MSE        
                                                                                                                               104-MSE                                        
                                                                                                                                  107-MSE                                     


Chain D from PDB  Type:PROTEIN  Length:147
                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeee..eeee.hhhheeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4psm D   2 PKLmTGFVRASGYANKVRRVLFAITRGKVFPEEVVKAAGELNKIIFEKLQEmGVKKEDVVRISVDFNIEDGKIVWNLDSLEIETYKKEEEEKLALAmEEVEHmEKmFEETVKELEALSDKLREISKEISELVERmKQEYTGLKLRSE 148
                               |    11        21        31        41        51 |      61        71        81        91      |101  |  | 111       121       131    |  141       
                               5-MSE                                          53-MSE                                       98-MSE |  |                          136-MSE        
                                                                                                                                104-MSE                                        
                                                                                                                                   107-MSE
   Legend:   → Mismatch (orange background)
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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 4PSM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4PSM)

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  4psm
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  Q8U208_PYRFU | Q8U208
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        Q8U208_PYRFU | Q8U208: 4psl

(-) Related Entries Specified in the PDB File

4psl 4psn 4pso