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(-) Description

Title :  HIGH RESOLUTION CRYSTALLOGRAPHIC ANALYSIS OF A COOPERATIVE DIMERIC HEMOGLOBIN
 
Authors :  W. E. Royerjunior
Date :  23 Jun 93  (Deposition) - 31 Oct 93  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. E. Royer Jr.
High-Resolution Crystallographic Analysis Of A Co-Operative Dimeric Hemoglobin.
J. Mol. Biol. V. 235 657 1994
PubMed-ID: 8289287  |  Reference-DOI: 10.1006/JMBI.1994.1019
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HEMOGLOBIN I (CARBONMONOXY)
    ChainsA, B
    EngineeredYES
    Organism CommonARK CLAM
    Organism ScientificSCAPHARCA INAEQUIVALVIS
    Organism Taxid6561

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1CMO2Ligand/IonCARBON MONOXIDE
2HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:50 , PHE A:51 , ARG A:53 , LEU A:73 , PHE A:97 , ASN A:100 , HIS A:101 , ARG A:104 , GLU A:110 , PHE A:111 , HOH A:208 , HOH A:216 , HOH A:255 , HOH A:280 , CMO A:501 , LYS B:96 , ASN B:100 , HOH B:259BINDING SITE FOR RESIDUE HEM A 147
2AC2SOFTWAREMET A:37 , PHE A:51 , HIS A:69 , LEU A:73 , HEM A:147BINDING SITE FOR RESIDUE CMO A 501
3AC3SOFTWARELYS A:96 , ASN A:100 , TYR B:50 , PHE B:51 , ARG B:53 , LEU B:73 , PHE B:97 , ASN B:100 , HIS B:101 , ARG B:104 , GLU B:110 , PHE B:111 , HOH B:207 , HOH B:209 , HOH B:250 , HOH B:259 , HOH B:289 , HOH B:432 , CMO B:501BINDING SITE FOR RESIDUE HEM B 147
4AC4SOFTWAREMET B:37 , PHE B:51 , HIS B:69 , LEU B:73 , HEM B:147BINDING SITE FOR RESIDUE CMO B 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SDH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLOBINPS01033 Globin family profile.GLB1_ANAIN10-146
 
  2A:10-146
B:10-146

(-) Exons   (0, 0)

(no "Exon" information available for 3SDH)

(-) 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:145
 aligned with GLB1_ANAIN | P02213 from UniProtKB/Swiss-Prot  Length:146

    Alignment length:145
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     
           GLB1_ANAIN     2 SVYDAAAQLTADVKKDLRDSWKVIGSDKKGNGVALMTTLFADNQETIGYFKRLGDVSQGMANDKLRGHSITLMYALQNFIDQLDNPDDLVCVVEKFAVNHITRKISAAEFGKINGPIKKVLASKNFGDKYANAWAKLVAVVQAAL 146
               SCOP domains d3sdha_ A: Hemoglobin I                                                                                                                           SCOP domains
               CATH domains 3sdhA00 A:2-146 Globins                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.hhhhhh.............hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------GLOBIN  PDB: A:10-146 UniProt: 10-146                                                                                                     PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sdh A   2 SVYDAAAQLTADVKKDLRDSWKVIGSDKKGNGVALMTTLFADNQETIGYFKRLGNVSQGMANDKLRGHSITLMYALQNFIDQLDNPDDLVCVVEKFAVNHITRKISAAEFGKINGPIKKVLASKNFGDKYANAWAKLVAVVQAAL 146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     

Chain B from PDB  Type:PROTEIN  Length:145
 aligned with GLB1_ANAIN | P02213 from UniProtKB/Swiss-Prot  Length:146

    Alignment length:145
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     
           GLB1_ANAIN     2 SVYDAAAQLTADVKKDLRDSWKVIGSDKKGNGVALMTTLFADNQETIGYFKRLGDVSQGMANDKLRGHSITLMYALQNFIDQLDNPDDLVCVVEKFAVNHITRKISAAEFGKINGPIKKVLASKNFGDKYANAWAKLVAVVQAAL 146
               SCOP domains d3sdhb_ B: Hemoglobin I                                                                                                                           SCOP domains
               CATH domains 3sdhB00 B:2-146 Globins                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.hhhhhh.............hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------GLOBIN  PDB: B:10-146 UniProt: 10-146                                                                                                     PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sdh B   2 SVYDAAAQLTADVKKDLRDSWKVIGSDKKGNGVALMTTLFADNQETIGYFKRLGNVSQGMANDKLRGHSITLMYALQNFIDQLDNPDDLVCVVEKFAVNHITRKISAAEFGKINGPIKKVLASKNFGDKYANAWAKLVAVVQAAL 146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141     

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SDH)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (GLB1_ANAIN | P02213)
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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GLB1_ANAIN | P022131hbi 1jwn 1jzk 1jzl 1jzm 1nwi 1nwn 1nxf 2auo 2aup 2auq 2aur 2av0 2av3 2grf 2grh 2grz 2r4w 2r4x 2r4y 2r4z 2z85 2z8a 3g46 3g4q 3g4r 3g4u 3g4v 3g4w 3g4y 3g52 3g53 3ugy 3ugz 3uh3 3uh5 3uh6 3uh7 3uhb 3uhc 3uhd 3uhe 3uhg 3uhh 3uhi 3uhk 3uhn 3uhq 3uhr 3uhs 3uht 3uhu 3uhv 3uhw 3uhx 3uhy 3uhz 3ui0 4hbi 4sdh 5hbi 6hbi 7hbi

(-) Related Entries Specified in the PDB File

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