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(-) Description

Title :  STRUCTURE OF HEME TRANSPORT PROTEIN ISDH-NEAT3 FROM S. AUREUS IN COMPLEX WITH MANGANESE(III)-PORPHYRIN
 
Authors :  Y. Moriwaki, J. M. M. Caaveiro, K. Tsumoto
Date :  24 Feb 11  (Deposition) - 30 Mar 11  (Release) - 15 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Manganese (Iii), Metalloporphyrin, Metal Selectivity, Neat Domain, Heme Binding, Heme Transport, Heme, Hemin, Ppix, Protoporphyrin Ix, Cell Wall, Heme-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Moriwaki, J. M. M. Caaveiro, Y. Tanaka, H. Tsutsumi, I. Hamachi, K. Tsumoto
Molecular Basis Of Recognition Of Antibacterial Porphyrins By Heme-Transporter Isdh-Neat3 Of Staphylococcus Aureus.
Biochemistry V. 50 7311 2011
PubMed-ID: 21797259  |  Reference-DOI: 10.1021/BI200493H
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IRON-REGULATED SURFACE DETERMINANT PROTEIN H
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: ROSETTA2(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: NEAT DOMAIN (UNP REIDUES 539-664)
    Gene: HARA, ISDH, ISDH-NEAT3, SASI, SAV1731
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 158878
    Strain: MU50 / ATCC 700699
    Synonym: HAPTOGLOBIN RECEPTOR A, STAPHYLOCOCCUS AUREUS SURFACE PROTEIN I

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MNR2Ligand/IonPROTOPORPHYRIN IX CONTAINING MN
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MNR1Ligand/IonPROTOPORPHYRIN IX CONTAINING MN
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MNR1Ligand/IonPROTOPORPHYRIN IX CONTAINING MN

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:556 , SER A:563 , VAL A:564 , PHE A:568 , TYR A:593 , TRP A:594 , VAL A:635 , TYR A:642 , TYR A:646 , VAL A:648 , VAL B:564 , MNR B:3747BINDING SITE FOR RESIDUE MNR A 3747
2AC2SOFTWARELYS A:595 , ASP A:596 , LEU A:597 , ARG A:616BINDING SITE FOR RESIDUE GOL A 1
3AC3SOFTWAREVAL A:564 , MNR A:3747 , GLU B:556 , SER B:563 , VAL B:564 , MET B:565 , PHE B:568 , TYR B:593 , TRP B:594 , VAL B:635 , TYR B:642 , TYR B:646 , VAL B:648BINDING SITE FOR RESIDUE MNR B 3747
4AC4SOFTWARELYS B:595 , ASP B:596 , LEU B:597 , ARG B:616BINDING SITE FOR RESIDUE GOL B 2

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1His A:571 -Pro A:572
2His B:571 -Pro B:572

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QUH)

(-) 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:112
 aligned with ISDH_STAAM | Q931P4 from UniProtKB/Swiss-Prot  Length:891

    Alignment length:112
                                   553       563       573       583       593       603       613       623       633       643       653  
           ISDH_STAAM   544 LTDLQEAHFVVFESEENSESVMDGFVEHPFYTATLNGQKYVVMKTKDDSYWKDLIVEGKRVTTVSKDPKNNSRTLIFPYIPDKAVYNAIVKVVVANIGYEGQYHVRIINQDI 655
               SCOP domains d3quha_ A: automated matches                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.eeeee.......hhhhhh...eeeeee..eeeeeee..hhh.eeeeee..ee.eeeeee....eeeeeee......eeeeeeeeee....eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 3quh A 544 LTDLQEAHFVVFESEENSESVMDGFVEHPFYTATLNGQKYVVMKTKDDSYWKDLIVEGKRVTTVSKDPKNNSRTLIFPYIPDKAVYNAIVKVVVANIGYEGQYHVRIINQDI 655
                                   553       563       573       583       593       603       613       623       633       643       653  


Chain B from PDB  Type:PROTEIN  Length:112
 aligned with ISDH_STAAM | Q931P4 from UniProtKB/Swiss-Prot  Length:891

    Alignment length:112
                                   553       563       573       583       593       603       613       623       633       643       653  
           ISDH_STAAM   544 LTDLQEAHFVVFESEENSESVMDGFVEHPFYTATLNGQKYVVMKTKDDSYWKDLIVEGKRVTTVSKDPKNNSRTLIFPYIPDKAVYNAIVKVVVANIGYEGQYHVRIINQDI 655
               SCOP domains d3quhb_ B: automated matches                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) NEAT-3quhB01 B:544-655                                                                                           Pfam domains (1)
           Pfam domains (2) NEAT-3quhB02 B:544-655                                                                                           Pfam domains (2)
         Sec.struct. author .eeeeee.eeeee......hhhhhh....eeeeee..eeeeeeee.hhh.eeeeee..ee.eeeeeehhhheeeeeee......eeeeeeeeeehhhheeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 3quh B 544 LTDLQEAHFVVFESEENSESVMDGFVEHPFYTATLNGQKYVVMKTKDDSYWKDLIVEGKRVTTVSKDPKNNSRTLIFPYIPDKAVYNAIVKVVVANIGYEGQYHVRIINQDI 655
                                   553       563       573       583       593       603       613       623       633       643       653
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: NEAT] (8)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (ISDH_STAAM | Q931P4)
cellular component
    GO:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ISDH_STAAM | Q931P4: 2e7d 2z6f 3qug 3vtm 3vua

(-) Related Entries Specified in the PDB File

3qug