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(-) Description

Title :  HBI (L36F) DEOXY
 
Authors :  Z. Ren, V. Srajer, J. E. Knapp, W. E. Royer Jr.
Date :  03 Nov 11  (Deposition) - 28 Dec 11  (Release) - 18 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Allostery, Oxygen Binding, Oxygen Storage, Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Z. Ren, V. Srajer, J. E. Knapp, W. E. Royer
Cooperative Macromolecular Device Revealed By Meta-Analysis Of Static And Time-Resolved Structures.
Proc. Natl. Acad. Sci. Usa V. 109 107 2012
PubMed-ID: 22171006  |  Reference-DOI: 10.1073/PNAS.1109213108

(-) Compounds

Molecule 1 - GLOBIN-1
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPCS-26
    Expression System StrainW3110LACIQ L8
    Expression System Taxid562
    Expression System Vector TypePLASMID
    MutationYES
    Organism CommonARK CLAM
    Organism ScientificSCAPHARCA INAEQUIVALVIS
    Organism Taxid6561
    SynonymDIMERIC HEMOGLOBIN, GLOBIN I, HBI

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

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

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:50 , PHE A:51 , ARG A:53 , LEU A:54 , HIS A:69 , LEU A:73 , PHE A:97 , ASN A:100 , HIS A:101 , ARG A:104 , PHE A:111 , HOH A:159 , HOH A:193 , HOH A:218 , LYS B:96 , ASN B:100BINDING SITE FOR RESIDUE HEM A 147
2AC2SOFTWARELYS A:96 , ASN A:100 , TYR B:50 , PHE B:51 , ARG B:53 , HIS B:69 , LEU B:73 , PHE B:97 , ASN B:100 , HIS B:101 , ARG B:104 , ILE B:106 , PHE B:111 , HOH B:155 , HOH B:168 , HOH B:177 , HOH B:212BINDING SITE FOR RESIDUE HEM B 147

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) 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 3UHR)

(-) 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 d3uhra_ A: automated matches                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------GLOBIN  PDB: A:10-146 UniProt: 10-146                                                                                                     PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3uhr A   2 SVYDAAAQLTADVKKDLRDSWKVIGSDKKGNGVAFMTTLFADNQETIGYFKRLGDVSQGMANDKLRGHSITLMYALQNFIDQLDNPDDLVCVVEKFAVNHITRKISAAEFGKINGPIKKVLASKNFGDKYANAWAKLVAVVQAAL 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 d3uhrb_ B: automated matches                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------GLOBIN  PDB: B:10-146 UniProt: 10-146                                                                                                     PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3uhr B   2 SVYDAAAQLTADVKKDLRDSWKVIGSDKKGNGVAFMTTLFADNQETIGYFKRLGDVSQGMANDKLRGHSITLMYALQNFIDQLDNPDDLVCVVEKFAVNHITRKISAAEFGKINGPIKKVLASKNFGDKYANAWAKLVAVVQAAL 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  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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 3sdh 3ugy 3ugz 3uh3 3uh5 3uh6 3uh7 3uhb 3uhc 3uhd 3uhe 3uhg 3uhh 3uhi 3uhk 3uhn 3uhq 3uhs 3uht 3uhu 3uhv 3uhw 3uhx 3uhy 3uhz 3ui0 4hbi 4sdh 5hbi 6hbi 7hbi

(-) Related Entries Specified in the PDB File

3sdh HBI WT WITH CO
3ugy HBI F80Y WITH CO
3ugz HBI L36A WITH CO
3uh3 HBI L36V WITH CO
3uh5 HBI L36F WITH CO
3uh6 HBI T72A WITH CO
3uh7 HBI T72G WITH CO
3uhb HBI R104K WITH CO
3uhc HBI N79A WITH CO
3uhd HBI N100A WITH CO
3uhe HBI M37V,L73I WITH CO
3uhg HBI L36M WITH CO
3uhh HBI M37A WITH CO
3uhi HBI K96R WITH CO
3uhk HBI K96R WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhn HBI F80Y WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhq HBI L36A WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhs HBI L36M WITHOUT LIGAND BOUND TO THE HEME GROUP
3uht HBI L36V WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhu HBI M37A WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhv HBI M37V,L73I WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhw HBI N79A WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhx HBI N100A WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhy HBI R104K WITHOUT LIGAND BOUND TO THE HEME GROUP
3uhz HBI T72A WITHOUT LIGAND BOUND TO THE HEME GROUP
3ui0 HBI T72G WITHOUT LIGAND BOUND TO THE HEME GROUP
4sdh HBI WT WITHOUT LIGAND BOUND TO THE HEME GROUP