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(-) Description

Title :  CRYSTAL STRUCTURE OF THE NITROREDUCTASE FAMILY PROTEIN FROM STREPTOCOCCUS PNEUMONIAE TIGR4
 
Authors :  Y. Kim, L. Volkart, J. Abdullah, F. Collart, A. Joachimiak, Midwest Ce Structural Genomics (Mcsg)
Date :  30 Sep 05  (Deposition) - 15 Nov 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Alpha-Beta Sandwich, Fmn Binding Pocket, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, L. Volkart, J. Abdullah, F. Collart, A. Joachimiak
Crystal Structure Of The Nitroreductase Family Protein From Streptococcus Pneumoniae Tigr4
To Be Published
PubMed: search

(-) Compounds

Molecule 1
    Chains: A, B, C, D
    EC Number: 1.6.99.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 170187
    Strain: TIGR4

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 15)

Asymmetric Unit (3, 15)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2FMN4Ligand/IonFLAVIN MONONUCLEOTIDE
3MSE10Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
3MSE5Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 7)
No.NameCountTypeFull Name
1ACY-1Ligand/IonACETIC ACID
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
3MSE5Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:10 , ALA A:12 , LYS A:14 , ASN A:65 , GLN A:68 , ASN A:151 , ILE A:152 , ILE A:153 , LEU A:154 , GLY A:155 , SER A:189 , ARG A:191 , HOH A:816 , HOH A:828 , HOH A:834 , PRO B:37 , SER B:38 , ALA B:39 , ASN B:41 , LEU B:130 , LEU B:134BINDING SITE FOR RESIDUE FMN A 801
2AC2SOFTWAREPRO A:37 , SER A:38 , ALA A:39 , ASN A:41 , LEU A:130 , LEU A:134 , HOH A:1022 , ARG B:10 , ALA B:12 , LYS B:14 , ASN B:65 , GLN B:68 , ASN B:151 , ILE B:152 , ILE B:153 , LEU B:154 , GLY B:155 , SER B:189 , ARG B:191 , HOH B:829 , HOH B:846 , HOH B:932BINDING SITE FOR RESIDUE FMN B 802
3AC3SOFTWAREARG C:10 , ALA C:12 , LYS C:14 , ASN C:65 , GLN C:68 , ASN C:151 , ILE C:152 , ILE C:153 , LEU C:154 , GLY C:155 , SER C:189 , ARG C:191 , HOH C:866 , HOH C:960 , HOH C:1006 , PRO D:37 , SER D:38 , ALA D:39 , ASN D:41 , LEU D:130 , LEU D:134BINDING SITE FOR RESIDUE FMN C 803
4AC4SOFTWAREPRO C:37 , SER C:38 , ALA C:39 , ASN C:41 , LEU C:130 , LEU C:134 , HOH C:884 , ARG D:10 , ALA D:12 , ASN D:65 , GLN D:68 , ASN D:151 , ILE D:152 , ILE D:153 , LEU D:154 , GLY D:155 , SER D:189 , ARG D:191 , HOH D:871 , HOH D:913BINDING SITE FOR RESIDUE FMN D 804
5AC5SOFTWARELYS A:46 , LYS A:90 , PHE A:171 , HOH A:895 , HOH A:924BINDING SITE FOR RESIDUE ACY A 805

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2B67)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2B67)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2B67)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2B67)

(-) Exons   (0, 0)

(no "Exon" information available for 2B67)

(-) 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:201
 aligned with A0A0H2UP38_S | A0A0H2UP38 from UniProtKB/TrEMBL  Length:201

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
         A0A0H2UP38_S     1 MKFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFMKNLPAEFARYSEQQVSDYLALNAGLVAMNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
               SCOP domains d2b67a1 A:1-201 Hypothetical oxidoreductase SP0622                                                                                                                                                        SCOP domains
               CATH domains -2b67A00 A:2-201 NADH Oxidase                                                                                                                                                                             CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh...........hhhhhhhhhhhhh...hhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhh.eeeeeeee.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhh....eeeeeeeeee............hhhh.eeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b67 A   1 mKFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFmKNLPAEFARYSEQQVSDYLALNAGLVAmNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130      |140       150       160       170       180       190       200 
                            |                                                                                                         109-MSE                     137-MSE                                                            
                            1-MSE                                                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:200
 aligned with A0A0H2UP38_S | A0A0H2UP38 from UniProtKB/TrEMBL  Length:201

    Alignment length:200
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201
         A0A0H2UP38_S     2 KFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFMKNLPAEFARYSEQQVSDYLALNAGLVAMNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
               SCOP domains d2b67b_ B: Hypothetical oxidoreductase SP0622                                                                                                                                                            SCOP domains
               CATH domains 2b67B00 B:2-201 NADH Oxidase                                                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh...........hhhhhhhhhhhhh...hhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhh.eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhh....eeeeeeeeee............hhhhheeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b67 B   2 KFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFmKNLPAEFARYSEQQVSDYLALNAGLVAmNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
                                    11        21        31        41        51        61        71        81        91       101       111       121       131     | 141       151       161       171       181       191       201
                                                                                                                                     109-MSE                     137-MSE                                                            


Chain C from PDB  Type:PROTEIN  Length:200
 aligned with A0A0H2UP38_S | A0A0H2UP38 from UniProtKB/TrEMBL  Length:201

    Alignment length:200
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201
         A0A0H2UP38_S     2 KFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFMKNLPAEFARYSEQQVSDYLALNAGLVAMNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
               SCOP domains d2b67c_ C: Hypothetical oxidoreductase SP0622                                                                                                                                                            SCOP domains
               CATH domains 2b67C00 C:2-201 NADH Oxidase                                                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh...........hhhhhhhhhhhhh...hhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhh.eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhh.....eeeeeeeeee............hhhh.eeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b67 C   2 KFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFmKNLPAEFARYSEQQVSDYLALNAGLVAmNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
                                    11        21        31        41        51        61        71        81        91       101       111       121       131     | 141       151       161       171       181       191       201
                                                                                                                                     109-MSE                     137-MSE                                                            


Chain D from PDB  Type:PROTEIN  Length:201
 aligned with A0A0H2UP38_S | A0A0H2UP38 from UniProtKB/TrEMBL  Length:201

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
         A0A0H2UP38_S     1 MKFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFMKNLPAEFARYSEQQVSDYLALNAGLVAMNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
               SCOP domains d2b67d_ D: Hypothetical oxidoreductase SP0622                                                                                                                                                             SCOP domains
               CATH domains -2b67D00 D:2-201 NADH Oxidase                                                                                                                                                                             CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh...........hhhhhhhhhhhhh...hhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhh.eeeeeeee.hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhh....eeeeeeeeee............hhhhheeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b67 D   1 mKFLELNKKRHATKHFTDKLVDPKDVRTAIEIATLAPSAHNSQPWKFVVVREKNAELAKLAYGSNFEQVSSAPVTIALFTDTDLAKRARKIARVGGANNFSEEQLQYFmKNLPAEFARYSEQQVSDYLALNAGLVAmNLVLALTDQGIGSNIILGFDKSKVNEVLEIEDRFRPELLITVGYTDEKLEPSYRLPVDEIIEKR 201
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130      |140       150       160       170       180       190       200 
                            1-MSE                                                                                                     109-MSE                     137-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  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2B67)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2B67)

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  2b67
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