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(-) Description

Title :  THE CRYSTAL STRUCTURE OF IMMUNITY FACTOR FOR SPN (IFS)
 
Authors :  C. L. Smith, T. Ellenberger
Date :  12 Jan 11  (Deposition) - 16 Mar 11  (Release) - 16 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
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)
Biol. Unit 5:  A,B  (1x)
Biol. Unit 6:  C,D  (1x)
Biol. Unit 7:  A (1x),B (1x),C (1x),D (1x)
Keywords :  Glycohydrolase Inhibitor, Streptococcus Pyogenes Glycohydrolase Toxin, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. L. Smith, J. Ghosh, J. S. Elam, J. S. Pinkner, S. J. Hultgren, M. G. Caparon, T. Ellenberger
Structural Basis Of Streptococcus Pyogenes Immunity To Its Nad(+) Glycohydrolase Toxin.
Structure V. 19 192 2011
PubMed-ID: 21300288  |  Reference-DOI: 10.1016/J.STR.2010.12.013

(-) Compounds

Molecule 1 - IMMUNITY FACTOR FOR SPN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: IFS
    Organism Scientific: STREPTOCOCCUS PYOGENES
    Organism Taxid: 1314
    Synonym: SPN IMMUNITY FACTOR

 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
Biological Unit 5 (1x): AB  
Biological Unit 6 (1x):   CD
Biological Unit 7 (1x): A (1x)B (1x)C (1x)D (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 38)

Asymmetric Unit (2, 38)
No.NameCountTypeFull Name
1MSE32Mod. Amino AcidSELENOMETHIONINE
2SO46Ligand/IonSULFATE ION
Biological Unit 1 (2, 11)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO43Ligand/IonSULFATE ION
Biological Unit 2 (2, 9)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO41Ligand/IonSULFATE ION
Biological Unit 3 (2, 9)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO41Ligand/IonSULFATE ION
Biological Unit 4 (2, 9)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
2SO41Ligand/IonSULFATE ION
Biological Unit 5 (2, 20)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE
2SO44Ligand/IonSULFATE ION
Biological Unit 6 (2, 18)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE
2SO42Ligand/IonSULFATE ION
Biological Unit 7 (2, 20)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE
2SO44Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:20 , ASN A:22BINDING SITE FOR RESIDUE SO4 A 188
2AC2SOFTWARELYS A:33 , ARG A:36 , HOH A:230BINDING SITE FOR RESIDUE SO4 A 189
3AC3SOFTWAREGLY A:84 , GLN A:85 , ALA A:86 , HIS A:130 , HOH A:239 , LYS D:3BINDING SITE FOR RESIDUE SO4 A 190
4AC4SOFTWARETHR B:20 , ASN B:22BINDING SITE FOR RESIDUE SO4 B 188
5AC5SOFTWARETHR C:20 , ASN C:22BINDING SITE FOR RESIDUE SO4 C 188
6AC6SOFTWARETHR D:20 , ASN D:22 , ASP D:23 , HOH D:216BINDING SITE FOR RESIDUE SO4 D 188

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3QB2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3QB2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QB2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3QB2)

(-) Exons   (0, 0)

(no "Exon" information available for 3QB2)

(-) 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:156
 aligned with Q2VJ58_STRPY | Q2VJ58 from UniProtKB/TrEMBL  Length:161

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
         Q2VJ58_STRPY     1 MYKVPKGLEHYQKMFQKEVTVNDLKKYLIGSDKEYRITRRDSYMGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEMSNSGQALDIYQAVQTLNAENMLLNYYESLPFYLNRQSILANITKALKDAHIREAMAHYKLGEFAHYQDTMLDMVER 156
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhh...hhhhhhhhhhh.hhhhh............hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qb2 A   1 mYKVPKGLEHYQKmFQKEVTVNDLKKYLIGSDKEYRITRRDSYmGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEmSNSGQALDIYQAVQTLNAENmLLNYYESLPFYLNRQSILANITKALKDAHIREAmAHYKLGEFAHYQDTmLDmVER 156
                            |       10   |    20        30        40   |    50        60        70        80        90       100|      110       120       130    |  140       150  |   
                            |           14-MSE                        44-MSE                              80-MSE              101-MSE                           135-MSE        150-MSE  
                            1-MSE                                                                                                                                                 153-MSE


Chain B from PDB  Type:PROTEIN  Length:173
 aligned with Q2VJ58_STRPY | Q2VJ58 from UniProtKB/TrEMBL  Length:161

    Alignment length:173
                                                                                                                                                                                          161            
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160|        -   
         Q2VJ58_STRPY     1 MYKVPKGLEHYQKMFQKEVTVNDLKKYLIGSDKEYRITRRDSYMGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEMSNSGQALDIYQAVQTLNAENMLLNYYESLPFYLNRQSILANITKALKDAHIREAMAHYKLGEFAHYQDTMLDMVERTIETF------------   -
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhh...hhhhhhhhhhh.hhhhh............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qb2 B   1 mYKVPKGLEHYQKmFQKEVTVNDLKKYLIGSDKEYRITRRDSYmGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEmSNSGQALDIYQAVQTLNAENmLLNYYESLPFYLNRQSILANITKALKDAHIREAmAHYKLGEFAHYQDTmLDmVERTIETFFRSFLEQKLISE 173
                            |       10   |    20        30        40   |    50        60        70        80        90       100|      110       120       130    |  140       150  |    160       170   
                            |           14-MSE                        44-MSE                              80-MSE              101-MSE                           135-MSE        150-MSE                   
                            1-MSE                                                                                                                                                 153-MSE                


Chain C from PDB  Type:PROTEIN  Length:164
 aligned with Q2VJ58_STRPY | Q2VJ58 from UniProtKB/TrEMBL  Length:161

    Alignment length:164
                                                                                                                                                                                          161   
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160|   
         Q2VJ58_STRPY     1 MYKVPKGLEHYQKMFQKEVTVNDLKKYLIGSDKEYRITRRDSYMGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEMSNSGQALDIYQAVQTLNAENMLLNYYESLPFYLNRQSILANITKALKDAHIREAMAHYKLGEFAHYQDTMLDMVERTIETF---   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhh...hhhhhhhhhhh.hhhhh............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qb2 C   1 mYKVPKGLEHYQKmFQKEVTVNDLKKYLIGSDKEYRITRRDSYmGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEmSNSGQALDIYQAVQTLNAENmLLNYYESLPFYLNRQSILANITKALKDAHIREAmAHYKLGEFAHYQDTmLDmVERTIETFFRS 164
                            |       10   |    20        30        40   |    50        60        70        80        90       100|      110       120       130    |  140       150  |    160    
                            1-MSE       14-MSE                        44-MSE                              80-MSE              101-MSE                           135-MSE        150-MSE          
                                                                                                                                                                                  153-MSE       


Chain D from PDB  Type:PROTEIN  Length:159
 aligned with Q2VJ58_STRPY | Q2VJ58 from UniProtKB/TrEMBL  Length:161

    Alignment length:159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         
         Q2VJ58_STRPY     1 MYKVPKGLEHYQKMFQKEVTVNDLKKYLIGSDKEYRITRRDSYMGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEMSNSGQALDIYQAVQTLNAENMLLNYYESLPFYLNRQSILANITKALKDAHIREAMAHYKLGEFAHYQDTMLDMVERTIE 159
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhh...hhhhhhhhhhh.hhhhh............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qb2 D   1 mYKVPKGLEHYQKmFQKEVTVNDLKKYLIGSDKEYRITRRDSYmGDISDPEVILEYGVYPAFIKGYTQLKANIEEALLEmSNSGQALDIYQAVQTLNAENmLLNYYESLPFYLNRQSILANITKALKDAHIREAmAHYKLGEFAHYQDTmLDmVERTIE 159
                            |       10   |    20        30        40   |    50        60        70        80        90       100|      110       120       130    |  140       150  |      
                            1-MSE       14-MSE                        44-MSE                              80-MSE              101-MSE                           135-MSE        150-MSE     
                                                                                                                                                                                  153-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 3QB2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QB2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3QB2)

(-) Gene Ontology  (0, 0)

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        Q2VJ58_STRPY | Q2VJ58: 3pnt

(-) Related Entries Specified in the PDB File

3pnt CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE STREPTOCOCCUS PYOGENES NAD+ GLYCOHYDROLASE SPN AND ITS INHIBITOR IFS, THE IMMUNITY FACTOR FOR SPN