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(-) Description

Title :  STRUCTURE OF HUMAN ARTEMIN
 
Authors :  L. Silvian, P. Jin, P. Carmillo, P. A. Boriack-Sjodin, C. Pelletier, M. Rushe, B. J. Gong, D. Sah, B. Pepinsky, A. Rossomando
Date :  23 Aug 05  (Deposition) - 13 Jun 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Biol. Unit 3:  A,B  (2x)
Keywords :  Glial Cell Derived Family Ligand, Neurotrphoic Growth Factor, Sulfates, Hormone/Growth Factor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  L. Silvian, P. Jin, P. Carmillo, P. A. Boriack-Sjodin, C. Pelletier, M. Rushe, B. J. Gong, D. Sah, B. Pepinsky, A. Rossomando
Artemin Crystal Structure Reveals Insights Into Heparan Sulfate Binding.
Biochemistry V. 45 6801 2006
PubMed-ID: 16734417  |  Reference-DOI: 10.1021/BI060035X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ARTEMIN
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)PLYSS
    Expression System Taxid562
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)AB
Biological Unit 2 (2x)AB
Biological Unit 3 (2x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 2 (1, 12)
No.NameCountTypeFull Name
1SO412Ligand/IonSULFATE ION
Biological Unit 3 (1, 12)
No.NameCountTypeFull Name
1SO412Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:99 , SER B:46 , CYS B:47 , ARG B:48 , ARG B:49BINDING SITE FOR RESIDUE SO4 B 501
2AC2SOFTWARESER A:46 , ARG A:48 , ARG A:49 , HOH A:613BINDING SITE FOR RESIDUE SO4 A 502
3AC3SOFTWAREARG A:14 , SER A:46 , ARG A:48 , HOH A:514 , HOH A:537 , HOH A:588 , GLY B:72 , SER B:73 , ARG B:99BINDING SITE FOR RESIDUE SO4 A 503
4AC4SOFTWAREHIS A:32 , ARG A:33 , SER A:34 , ASP A:93 , VAL A:94 , HOH A:541 , HOH A:572 , HOH A:623 , HOH B:516BINDING SITE FOR RESIDUE SO4 A 504
5AC5SOFTWAREARG A:14 , SER A:20 , GLN A:21 , LEU A:22 , ARG A:39 , HOH A:512 , HOH A:534 , HOH A:546 , HOH A:560 , ARG B:68BINDING SITE FOR RESIDUE SO4 A 505
6AC6SOFTWAREARG A:48 , ARG A:51 , ALA A:59BINDING SITE FOR RESIDUE SO4 A 506

(-) SS Bonds  (7, 7)

Asymmetric Unit
No.Residues
1A:16 -A:81
2A:43 -A:109
3A:47 -A:111
4A:80 -B:80
5B:16 -B:81
6B:43 -B:109
7B:47 -B:111

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ASK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ASK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2ASK)

(-) Exons   (1, 2)

Asymmetric Unit (1, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003723591aENSE00001358452chr1:44398992-44399557566ARTN_HUMAN-00--
1.2aENST000003723592aENSE00001358432chr1:44399784-44399932149ARTN_HUMAN-00--
1.4bENST000003723594bENSE00002181172chr1:44401262-44401388127ARTN_HUMAN1-20200--
1.5eENST000003723595eENSE00002155901chr1:44401765-44401903139ARTN_HUMAN21-67470--
1.5jENST000003723595jENSE00002201753chr1:44401974-44402913940ARTN_HUMAN67-2201542A:13-113
B:13-113
101
101

(-) Sequences/Alignments

Asymmetric 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:101
 aligned with ARTN_HUMAN | Q5T4W7 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:101
                                   129       139       149       159       169       179       189       199       209       219 
           ARTN_HUMAN   120 ARGCRLRSQLVPVRALGLGHRSDELVRFRFCSGSCRRARSPHDLSLASLLGAGALRPPPGSRPVSQPCCRPTRYEAVSFMDVNSTWRTVDRLSATACGCLG 220
               SCOP domains d2aska_ A: automated matches                                                                          SCOP domains
               CATH domains 2askA00 A:13-113 Cystine-knot cytokines                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.hhhh.......eeeeeeee..hhhhhhhhhhhhhhhhhh...............eeeeeeeeeeeee.....eeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.5j  PDB: A:13-113 UniProt: 67-220 [INCOMPLETE]                                                 Transcript 1
                 2ask A  13 ARGCRLRSQLVPVRALGLGHRSDELVRFRFCSGSCRRARSPHDLSLASLLGAGALRPPPGSRPVSQPCCRPTRYEAVSFMDVNSTWRTVDRLSATACGCLG 113
                                    22        32        42        52        62        72        82        92       102       112 

Chain B from PDB  Type:PROTEIN  Length:101
 aligned with ARTN_HUMAN | Q5T4W7 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:101
                                   129       139       149       159       169       179       189       199       209       219 
           ARTN_HUMAN   120 ARGCRLRSQLVPVRALGLGHRSDELVRFRFCSGSCRRARSPHDLSLASLLGAGALRPPPGSRPVSQPCCRPTRYEAVSFMDVNSTWRTVDRLSATACGCLG 220
               SCOP domains d2askb_ B: automated matches                                                                          SCOP domains
               CATH domains 2askB00 B:13-113 Cystine-knot cytokines                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.hhhh.......eeeeeeee..hhhhhhhhhhhhhhhhhh...............eeeeeeeeeeeee.....eeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.5j  PDB: B:13-113 UniProt: 67-220 [INCOMPLETE]                                                 Transcript 1
                 2ask B  13 ARGCRLRSQLVPVRALGLGHRSDELVRFRFCSGSCRRARSPHDLSLASLLGAGALRPPPGSRPVSQPCCRPTRYEAVSFMDVNSTWRTVDRLSATACGCLG 113
                                    22        32        42        52        62        72        82        92       102       112 

   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 Unit

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2ASK)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (ARTN_HUMAN | Q5T4W7)
molecular function
    GO:0005088    Ras guanyl-nucleotide exchange factor activity    Stimulates the exchange of guanyl nucleotides associated with a GTPase of the Ras superfamily. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
    GO:0008083    growth factor activity    The function that stimulates a cell to grow or proliferate. Most growth factors have other actions besides the induction of cell growth or proliferation.
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
biological process
    GO:0000165    MAPK cascade    An intracellular protein kinase cascade containing at least a MAPK, a MAPKK and a MAP3K. The cascade can also contain two additional tiers: the upstream MAP4K and the downstream MAP Kinase-activated kinase (MAPKAPK). The kinases in each tier phosphorylate and activate the kinases in the downstream tier to transmit a signal within a cell.
    GO:0061146    Peyer's patch morphogenesis    The process in which a Peyer's patch is generated and organized. Peyer's patches are typically found as nodules associated with gut epithelium with distinct internal structures including B- and T-zones for the activation of lymphocytes.
    GO:0007411    axon guidance    The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues.
    GO:0050930    induction of positive chemotaxis    Any process that initiates the directed movement of a motile cell or organism towards a higher concentration in a concentration gradient of a specific chemical.
    GO:0097021    lymphocyte migration into lymphoid organs    The movement of a lymphocyte within the lymphatic system into lymphoid organs such as lymph nodes, spleen or Peyer's patches, and its subsequent positioning within defined functional compartments such as sites of cell activation by antigen.
    GO:0007405    neuroblast proliferation    The expansion of a neuroblast population by cell division. A neuroblast is any cell that will divide and give rise to a neuron.
    GO:0007422    peripheral nervous system development    The process whose specific outcome is the progression of the peripheral nervous system over time, from its formation to the mature structure. The peripheral nervous system is one of the two major divisions of the nervous system. Nerves in the PNS connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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 Related Entries

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

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        ARTN_HUMAN | Q5T4W72gh0 2gyr 2gyz

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