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(-) Description

Title :  CRYSTAL STRUCTURE OF CUPIN FOLD PROTEIN STHE2323 FROM SPHAEROBACTER THERMOPHILUS
 
Authors :  C. Chang, C. Hatzos-Skintges, R. Jedrzejczak, A. Joachimiak, Midwest For Structural Genomics (Mcsg)
Date :  08 Mar 12  (Deposition) - 21 Mar 12  (Release) - 21 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.86
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Keywords :  Mcsg, Psi-Biology, Structural Genomics, Geba, Midwest Center For Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chang, C. Hatzos-Skintges, R. Jedrzejczak, A. Joachimiak
Crystal Structure Of Cupin Fold Protein Sthe2323 From Sphaerobacter Thermophilus
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CUPIN 2 CONSERVED BARREL DOMAIN PROTEIN
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)MAGIC
    Expression System Taxid: 469008
    Expression System Vector: PMCSG57
    Gene: STHE_2323
    Organism Scientific: SPHAEROBACTER THERMOPHILUS
    Organism Taxid: 479434
    Strain: DSM 20745 / S 6022

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB      
Biological Unit 2 (1x):   CD    
Biological Unit 3 (1x):     EF  
Biological Unit 4 (1x):       GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 56)

Asymmetric Unit (4, 56)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2K2Ligand/IonPOTASSIUM ION
3MSE49Mod. Amino AcidSELENOMETHIONINE
4NI4Ligand/IonNICKEL (II) ION
Biological Unit 1 (1, 12)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2K-1Ligand/IonPOTASSIUM ION
3MSE12Mod. Amino AcidSELENOMETHIONINE
4NI-1Ligand/IonNICKEL (II) ION
Biological Unit 2 (1, 13)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2K-1Ligand/IonPOTASSIUM ION
3MSE13Mod. Amino AcidSELENOMETHIONINE
4NI-1Ligand/IonNICKEL (II) ION
Biological Unit 3 (2, 13)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2K-1Ligand/IonPOTASSIUM ION
3MSE12Mod. Amino AcidSELENOMETHIONINE
4NI-1Ligand/IonNICKEL (II) ION
Biological Unit 4 (1, 12)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2K-1Ligand/IonPOTASSIUM ION
3MSE12Mod. Amino AcidSELENOMETHIONINE
4NI-1Ligand/IonNICKEL (II) ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS B:54 , HIS B:56 , GLN B:60 , HIS B:94BINDING SITE FOR RESIDUE NI B 201
2AC2SOFTWAREHIS C:56 , GLN C:60 , HIS C:94 , HOH C:340BINDING SITE FOR RESIDUE NI C 201
3AC3SOFTWARESER C:2 , TYR C:14 , GLN C:34 , HOH C:332 , THR D:87BINDING SITE FOR RESIDUE K C 202
4AC4SOFTWARETYR F:86 , ASP F:107BINDING SITE FOR RESIDUE ACT F 202
5AC5SOFTWAREHIS G:56 , GLN G:60 , HIS G:94 , HOH G:308 , HOH G:380BINDING SITE FOR RESIDUE NI G 201
6AC6SOFTWARETHR G:87 , TYR H:14 , GLN H:34 , HOH H:335BINDING SITE FOR RESIDUE K H 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4E2G)

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Ser A:110 -Pro A:111
2Ser B:110 -Pro B:111
3Ser C:110 -Pro C:111
4Ser D:110 -Pro D:111
5Ser E:110 -Pro E:111
6Ser F:110 -Pro F:111
7Ser G:110 -Pro G:111
8Ser H:110 -Pro H:111

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E2G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E2G)

(-) Exons   (0, 0)

(no "Exon" information available for 4E2G)

(-) 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:115
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:115
                                    18        28        38        48        58        68        78        88        98       108       118     
         D1C798_SPHTD     9 FAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee.hhh........eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 4e2g A   9 FAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    18        28 |      38|       48  |     58     |  68        78     |  88        98       108       118|    
                                                30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain B from PDB  Type:PROTEIN  Length:114
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:114
                                    19        29        39        49        59        69        79        89        99       109       119    
         D1C798_SPHTD    10 APAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee............eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 4e2g B  10 APAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    19        29|       39        49 |      59    |   69        79    |   89        99       109       119    
                                               30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain C from PDB  Type:PROTEIN  Length:126
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:126
                               1                                                                                                                          
                               |     7        17        27        37        47        57        67        77        87        97       107       117      
         D1C798_SPHTD     - ---MSTGEQREFAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhh.eeee.hhh........eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4e2g C  -2 SNAmSTGEQREFAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                               |     7        17        27  |     37 |      47   |    57      | 67        77      | 87        97       107       117 |    
                               1-MSE                       30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain D from PDB  Type:PROTEIN  Length:116
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:116
                                    17        27        37        47        57        67        77        87        97       107       117      
         D1C798_SPHTD     8 EFAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.hhh........eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4e2g D   8 EFAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    17        27  |     37 |      47   |    57      | 67        77      | 87        97       107       117 |    
                                                 30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain E from PDB  Type:PROTEIN  Length:115
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:115
                                    18        28        38        48        58        68        78        88        98       108       118     
         D1C798_SPHTD     9 FAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee............eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 4e2g E   9 FAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    18        28 |      38|       48  |     58     |  68        78     |  88        98       108       118|    
                                                30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain F from PDB  Type:PROTEIN  Length:115
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:115
                                    18        28        38        48        58        68        78        88        98       108       118     
         D1C798_SPHTD     9 FAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee............eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 4e2g F   9 FAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    18        28 |      38|       48  |     58     |  68        78     |  88        98       108       118|    
                                                30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain G from PDB  Type:PROTEIN  Length:115
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:115
                                    18        28        38        48        58        68        78        88        98       108       118     
         D1C798_SPHTD     9 FAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee.hhh........eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 4e2g G   9 FAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    18        28 |      38|       48  |     58     |  68        78     |  88        98       108       118|    
                                                30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE


Chain H from PDB  Type:PROTEIN  Length:115
 aligned with D1C798_SPHTD | D1C798 from UniProtKB/TrEMBL  Length:123

    Alignment length:115
                                    18        28        38        48        58        68        78        88        98       108       118     
         D1C798_SPHTD     9 FAPAFYDLTEVRSFSPLPGFAMQAIQGKNLMLNWVRIEPNTEMPAHEHPHEQAGVMLEGTLELTIGEETRVLRPGMAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARMAEDA 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee............eeeeeee....eeeeeee....eeeee....eeeeeeeee.eeeee..eeeee...eeeee.....eeee.....eeeeeeee..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 4e2g H   9 FAPAFYDLTEVRSFSPLPGFAmQAIQGKNLmLNWVRIEPNTEmPAHEHPHEQAGVmLEGTLELTIGEETRVLRPGmAYTIPGGVRHRARTFEDGCLVLDIFSPPREDYARmAEDA 123
                                    18        28 |      38|       48  |     58     |  68        78     |  88        98       108       118|    
                                                30-MSE   39-MSE      51-MSE       64-MSE              84-MSE                            119-MSE
   Legend:   → Mismatch (orange background)
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    → 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  (0, 0)

(no "SCOP Domain" information available for 4E2G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E2G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E2G)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4E2G)

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