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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  X-RAY STRUCTURE OF HUMAN SOUL
 
Authors :  F. Freire, A. L. Carvalho, S. S. Aveiro, P. Charbonnier, J. M. Moulis, M. B. J. Goodfellow, A. L. Macedo
Date :  22 Jun 12  (Deposition) - 11 Jul 12  (Release) - 11 Jul 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Apoptosis, Heme Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Freire, A. L. Carvalho, S. S. Aveiro, P. Charbonnier, J. M. Moulis, M. J. Romao, B. J. Goodfellow, A. L. Macedo
Human Soul: A Heme-Binding Or A Bh3 Domain-Containing Protein
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HEME-BINDING PROTEIN 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTYB12
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HSOUL, PLACENTAL PROTEIN 23, PP23, PROTEIN SOUL
 
Molecule 2 - HEME-BINDING PROTEIN 2
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTYB12
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HSOUL, PLACENTAL PROTEIN 23, PP23, PROTEIN SOUL

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric/Biological Unit (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 4AYZ)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4AYZ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ala A:87 -Pro A:88
2Ala B:87 -Pro B:88

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 4)

Asymmetric/Biological Unit (2, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_053364R140QHEBP2_HUMANPolymorphism3734303A/BR140Q
2UniProtVAR_053365E191AHEBP2_HUMANPolymorphism14812A/BE191A
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4AYZ)

(-) Exons   (0, 0)

(no "Exon" information available for 4AYZ)

(-) 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:184
 aligned with HEBP2_HUMAN | Q9Y5Z4 from UniProtKB/Swiss-Prot  Length:205

    Alignment length:184
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194    
          HEBP2_HUMAN    15 AAAQAVETPGWKAPEDAGPQPGSYEIRHYGPAKWVSTSVESMDWDSAIQTGFTKLNSYIQGKNEKEMKIKMTAPVTSYVEPGSGPFSESTITISLYIPSEQQFDPPRPLESDVFIEDRAEMTVFVRSFDGFSSAQKNQEQLLTLASILREDGKVFDEKVYYTAGYNSPVKLLNRNNEVWLIQKN 198
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee............eeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhh..............eeeeee........eeeeeeee..hhhh..........eeeeee..eeeeeeee.....hhhhhhhhhhhhhhhhhh........eeeee...........eeeeee... Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------------Q--------------------------------------------------A------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ayz A  15 AAAQAVETPGWKAPEDAGPQPGSYEIRHYGPAKWVSTSVESmDWDSAIQTGFTKLNSYIQGKNEKEmKIKmTAPVTSYVEPGSGPFSESTITISLYIPSEQQFDPPRPLESDVFIEDRAEmTVFVRSFDGFSSAQKNQEQLLTLASILREDGKVFDEKVYYTAGYNSPVKLLNRNNEVWLIQKN 198
                                    24        34        44        54 |      64        74      | 84|       94       104       114       124       134|      144       154       164       174       184       194    
                                                                    56-MSE                   81-MSE                                               135-MSE                                                           
                                                                                                 85-MSE                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:180
 aligned with HEBP2_HUMAN | Q9Y5Z4 from UniProtKB/Swiss-Prot  Length:205

    Alignment length:180
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198
          HEBP2_HUMAN    19 AVETPGWKAPEDAGPQPGSYEIRHYGPAKWVSTSVESMDWDSAIQTGFTKLNSYIQGKNEKEMKIKMTAPVTSYVEPGSGPFSESTITISLYIPSEQQFDPPRPLESDVFIEDRAEMTVFVRSFDGFSSAQKNQEQLLTLASILREDGKVFDEKVYYTAGYNSPVKLLNRNNEVWLIQKN 198
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......ee............eeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhh..............eeeeee........eeeeeeee..hhhh..........eeeeee..eeeeeeee.....hhhhhhhhhhhhhhhhhh........eeeee...........eeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------Q--------------------------------------------------A------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ayz B  19 AVETPGWKAPEDAGPQPGSYEIRHYGPAKWVSTSVESmDWDSAIQTGFTKLNSYIQGKNEKEmKIKmTAPVTSYVEPGSGPFESSTITISLYIPSEQQFDPPRPLESDVFIEDRAEmTVFVRSFDGFSSAQKNQEQLLTLASILREDGKVFDEKVYYTAGYNSPVKLLNRNNEVWLIQKN 198
                                    28        38        48       |58        68        78  |   | 88        98       108       118       128      |138       148       158       168       178       188       198
                                                                56-MSE                   81-MSE                                               135-MSE                                                           
                                                                                             85-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 4AYZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4AYZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4AYZ)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (HEBP2_HUMAN | Q9Y5Z4)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0010917    negative regulation of mitochondrial membrane potential    Any process that stops, prevents, or reduces the frequency, rate or extent of establishment or extent of a mitochondrial membrane potential, the electric potential existing across any mitochondrial membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane.
    GO:0035794    positive regulation of mitochondrial membrane permeability    Any process that increases the frequency, rate or extent of the passage or uptake of molecules by the mitochondrial membrane.
    GO:0010940    positive regulation of necrotic cell death    Any process that increases the rate, frequency or extent of necrotic cell death. Necrotic cell death is a cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents.
    GO:1901031    regulation of response to reactive oxygen species    Any process that modulates the frequency, rate or extent of response to reactive oxygen species.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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  4ayz
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 Related Entries

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

UniProtKB/Swiss-Prot
        HEBP2_HUMAN | Q9Y5Z4: 3r85 3r8j 3r8k 4b0y 5gqq

(-) Related Entries Specified in the PDB File

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