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(-) Description

Title :  CRYSTAL STRUCTURE OF FERRIC COMPLEXES OF THE YELLOW LUPIN LEGHEMOGLOBIN WITH ISOQUINOLINE AT 1.8 ANGSTROMS RESOLUTION (RUSSIAN)
 
Authors :  E. Harutyunyan, T. Safonova, I. Kuranova
Date :  14 Sep 94  (Deposition) - 27 Feb 95  (Release) - 22 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. H. Harutyunyan, T. N. Safonova, I. P. Kuranova, A. N. Popov, A. V. Teplyakov, G. V. Obmolova, B. K. Valnshtein, G. G. Dodson, J. C. Wilson
The Binding Of Carbon Monoxide And Nitric Oxide To Leghaemoglobin In Comparison With Other Haemoglobins.
J. Mol. Biol. V. 264 152 1996
PubMed-ID: 8950274  |  Reference-DOI: 10.1006/JMBI.1996.0630
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LEGHEMOGLOBIN (CARBONMONOXY)
    Chains: A
    Engineered: YES
    Organism Common: YELLOW LUPINE
    Organism Scientific: LUPINUS LUTEUS
    Organism Taxid: 3873

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1CMO1Ligand/IonCARBON MONOXIDE
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:43 , PHE A:44 , SER A:45 , HIS A:63 , LYS A:66 , LEU A:93 , HIS A:97 , LYS A:100 , VAL A:102 , HIS A:106 , PHE A:107 , VAL A:110 , TYR A:138 , CMO A:155 , HOH A:434BINDING SITE FOR RESIDUE HEM A 154
2AC2SOFTWAREHIS A:63 , VAL A:67 , HEM A:154BINDING SITE FOR RESIDUE CMO A 155

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLOBINPS01033 Globin family profile.LGB2_LUPLU2-151  1A:1-149
2PLANT_GLOBINPS00208 Plant hemoglobins signature.LGB2_LUPLU58-69  1A:57-68

(-) Exons   (0, 0)

(no "Exon" information available for 1GDI)

(-) 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:153
 aligned with LGB2_LUPLU | P02240 from UniProtKB/Swiss-Prot  Length:154

    Alignment length:153
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151   
           LGB2_LUPLU     2 GALTESQAALVKSSWEEFNANIPKHTHRFFILVLEIAPAAKDLFSFLKGTSEVPQNNPELQAHAGKVFKLVYEAAIQLQVTGVVVTDATLKNLGSVHVSKGVADAHFPVVKEAILKTIKEVVGAKWSEELNSAWTIAYDELAIVIKKEMNDAA 154
               SCOP domains d1gdia_ A: Leghemoglobin                                                                                                                                  SCOP domains
               CATH domains 1gdiA00 A:1-153 Globins                                                                                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) GLOBIN  PDB: A:1-149 UniProt: 2-151                                                                                                                   --- PROSITE (1)
                PROSITE (2) --------------------------------------------------------PLANT_GLOBIN------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gdi A   1 GALTESQAALVKSSWEEFNANIPKHTHRFFILVLEIAPAAKDLFSFLKGTSEVPQNNPELQAHAGKVFKLVYEAAIQLEVTGVVVTDATLKNLGSVHVSKGVADAHFPVVKEAILKTIKEVVGAKWSEELNSAWTIAYDELAIVIKKEMDDAA 153
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "Pfam Domain" information available for 1GDI)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LGB2_LUPLU | P02240)
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:0009399    nitrogen fixation    The process in which nitrogen is taken from its relatively inert molecular form (N2) in the atmosphere and converted into nitrogen compounds useful for other chemical processes, such as ammonia, nitrate and nitrogen dioxide.
    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
        LGB2_LUPLU | P02240: 1gdj 1gdk 1gdl 1lh1 1lh2 1lh3 1lh5 1lh6 1lh7 2gdm 2lh1 2lh2 2lh3 2lh5 2lh6 2lh7

(-) Related Entries Specified in the PDB File

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