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(-) Description

Title :  SOLUTION STRUCTURE OF HUMAN ALPHA-PARVALBUMIN REFINED WITH A PARAMAGNETISM-BASED STRATEGY
 
Authors :  I. Baig, I. Bertini, C. Del Bianco, Y. K. Gupta, Y. M. Lee, C. Luchinat, A. Quattrone, Structural Proteomics In Europe (Spine)
Date :  20 Nov 03  (Deposition) - 25 May 04  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (19x)
Keywords :  Calcium, Parvalbumin, Ef-Hand, Nmr, Lanthanide, Structural Proteomics In Europe, Spine, Structural Genomics, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Baig, I. Bertini, C. Del Bianco, Y. K. Gupta, Y. M. Lee, C. Luchinat, A. Quattrone
Paramagnetism-Based Refinement Strategy For The Solution Structure Of Human Alpha-Parvalbumin.
Biochemistry V. 43 5562 2004
PubMed-ID: 15122922  |  Reference-DOI: 10.1021/BI035879K
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PARVALBUMIN ALPHA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE-30 XA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PVALB
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  
NMR Structure (19x): 

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 2)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION

(-) Sites  (2, 2)

NMR Structure (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:91 , ASP A:93 , ASP A:95 , LYS A:97 , GLU A:102BINDING SITE FOR RESIDUE CA A 111
2AC2SOFTWAREASP A:52 , ASP A:54 , SER A:56 , PHE A:58 , GLU A:60 , GLU A:63BINDING SITE FOR RESIDUE CA A 112

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 4)

NMR Structure (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EF_HAND_2PS50222 EF-hand calcium-binding domain profile.PRVA_HUMAN39-74
78-110		  2A:39-74
A:78-110
2EF_HAND_1PS00018 EF-hand calcium-binding domain.PRVA_HUMAN52-64
91-103		  2A:52-64
A:91-103

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002162001aENSE00001830866chr22:37215523-3721547549PRVA_HUMAN-00--
1.3bENST000002162003bENSE00000880082chr22:37213056-3721298968PRVA_HUMAN1-21211A:1-2121
1.5ENST000002162005ENSE00001750824chr22:37211279-37211147133PRVA_HUMAN21-65451A:21-6545
1.6aENST000002162006aENSE00002160254chr22:37209799-37209690110PRVA_HUMAN65-102381A:65-10238
1.8cENST000002162008cENSE00001044920chr22:37196962-37196728235PRVA_HUMAN102-11091A:102-1109

(-) Sequences/Alignments

NMR Structure
   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:110
 aligned with PRVA_HUMAN | P20472 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:110
                                    10        20        30        40        50        60        70        80        90       100       110
           PRVA_HUMAN     1 MSMTDLLNAEDIKKAVGAFSATDSFDHKKFFQMVGLKKKSADDVKKVFHMLDKDKSGFIEEDELGFILKGFSPDARDLSAKETKMLMAAGDKDGDGKIGVDEFSTLVAES 110
               SCOP domains d1rjva_ A: Parvalbumin                                                                                         SCOP domains
               CATH domains 1rjvA00 A:1-110 EF-hand                                                                                        CATH domains
           Pfam domains (1) ---EF_hand_5-1rjvA01 A:4-107                                                                               --- Pfam domains (1)
           Pfam domains (2) ------------------------------------------------------------------EF_hand_6-1rjvA02 A:67-110                   Pfam domains (2)
         Sec.struct. author .......hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh.hhhhhh......hhhhhhhhhhhhh.......hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------EF_HAND_2  PDB: A:39-74             ---EF_HAND_2  PDB: A:78-110          PROSITE (1)
                PROSITE (2) ---------------------------------------------------EF_HAND_1    --------------------------EF_HAND_1    ------- PROSITE (2)
           Transcript 1 (1) Exon 1.3b  PDB: A:1-2-------------------------------------------Exon 1.6a  PDB: A:65-102              -------- Transcript 1 (1)
           Transcript 1 (2) --------------------Exon 1.5  PDB: A:21-65 UniProt: 21-65        ------------------------------------Exon 1.8c Transcript 1 (2)
                 1rjv A   1 MSMTDLLNAEDIKKAVGAFSATDSFDHKKFFQMVGLKKKSADDVKKVFHMLDKDKSGFIEEDELGFILKGFSPDARDLSAKETKMLMAAGDKDGDGKIGVDEFSTLVAES 110
                                    10        20        30        40        50        60        70        80        90       100       110
   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, 1)

NMR Structure
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 2)

NMR Structure
(-)
Clan: EF_hand (270)

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (PRVA_HUMAN | P20472)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
    GO:0051480    regulation of cytosolic calcium ion concentration    Any process involved in the maintenance of an internal steady state of calcium ions within the cytosol of a cell or between the cytosol and its surroundings.
cellular component
    GO:0030424    axon    The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    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:0043025    neuronal cell body    The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
    GO:0043195    terminal bouton    Terminal inflated portion of the axon, containing the specialized apparatus necessary to release neurotransmitters. The axon terminus is considered to be the whole region of thickening and the terminal bouton is a specialized region of it.

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  1rjv
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 Related Entries

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UniProtKB/Swiss-Prot
        PRVA_HUMAN | P20472: 1rk9

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