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(-) Description

Title :  CRYSTAL STRUCTURE OF SYNECHOCYSTIS HEMOGLOBIN WITH A COVALENT HEME LINKAGE
 
Authors :  J. A. Hoy, S. Kundu, J. T. Trent, S. Ramaswamy, M. S. Hargrove
Date :  10 Dec 03  (Deposition) - 20 Apr 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Synechocystis Hemoglobin, Hexacoordinate, Hemichrome, Truncated, Oxygen Storage-Transport Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Hoy, S. Kundu, J. T. Trent, S. Ramaswamy, M. S. Hargrove
The Crystal Structure Of Synechocystis Hemoglobin With A Covalent Heme Linkage.
J. Biol. Chem. V. 279 16535 2004
PubMed-ID: 14736872  |  Reference-DOI: 10.1074/JBC.M313707200

(-) Compounds

Molecule 1 - CYANOGLOBIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET28A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: GLBN, SLR2097
    Organism Scientific: SYNECHOCYSTIS SP.
    Organism Taxid: 1148
    Strain: PCC 6803
    Synonym: HEMOGLOBIN, HB

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1CD2Ligand/IonCADMIUM ION
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3K1Ligand/IonPOTASSIUM ION
4SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:15 , ASP A:19 , HIS A:33 , HIS A:77BINDING SITE FOR RESIDUE CD A 126
2AC2SOFTWAREGLU A:72 , ASP A:120 , HOH A:130 , HOH A:131BINDING SITE FOR RESIDUE CD A 127
3AC3SOFTWARELYS A:32 , HIS A:33 , ARG A:44 , LYS A:48 , HOH A:136BINDING SITE FOR RESIDUE SO4 A 128
4AC4SOFTWAREHOH A:205 , HOH A:206BINDING SITE FOR RESIDUE K A 129
5AC5SOFTWAREPHE A:34 , VAL A:38 , LYS A:42 , HIS A:46 , PHE A:50 , TYR A:53 , TYR A:61 , TYR A:65 , MET A:66 , HIS A:70 , LEU A:73 , LEU A:79 , PHE A:84 , HIS A:117 , HOH A:207BINDING SITE FOR RESIDUE HEM A 125

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1RTX)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1RTX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1RTX)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLOBIN_FAM_2PS01213 Protozoan/cyanobacterial globins signature.TRHBN_SYNY350-70  1A:50-70

(-) Exons   (0, 0)

(no "Exon" information available for 1RTX)

(-) 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:123
 aligned with TRHBN_SYNY3 | P73925 from UniProtKB/Swiss-Prot  Length:124

    Alignment length:123
                                    11        21        31        41        51        61        71        81        91       101       111       121   
          TRHBN_SYNY3     2 STLYEKLGGTTAVDLAVDKFYERVLQDDRIKHFFADVDMAKQRAHQKAFLTYAFGGTDKYDGRYMREAHKELVENHGLNGEHFDAVAEDLLATLKEMGVPEDLIAEVAAVAGAPAHKRDVLNQ 124
               SCOP domains d1rtxa_ A: Protozoan/bacterial hemoglobin                                                                                   SCOP domains
               CATH domains 1rtxA00 A:2-124 Globins                                                                                                     CATH domains
               Pfam domains -Bac_globin-1rtxA01 A:3-121                                                                                             --- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------GLOBIN_FAM_2         ------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rtx A   2 STLYEKLGGTTAVDLAVDKFYERVLQDDRIKHFFADVDMAKQRAHQKAFLTYAFGGTDKYDGRYMREAHKELVENHGLNGEHFDAVAEDLLATLKEMGVPEDLIAEVAAVAGAPAHKRDVLNQ 124
                                    11        21        31        41        51        61        71        81        91       101       111       121
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Globin (291)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (TRHBN_SYNY3 | P73925)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0019825    oxygen binding    Interacting selectively and non-covalently with oxygen (O2).
    GO:0005344    oxygen transporter activity    Enables the directed movement of oxygen into, out of or within a cell, or between cells.
biological process
    GO:0015671    oxygen transport    The directed movement of oxygen (O2) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TRHBN_SYNY3 | P73925: 1mwb 1s69 1s6a 2hz1 2hz2 2hz3

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