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(-) Description

Title :  STRUCTURAL AND FUNCTIONAL CHARACTERIZATION OF CC CHEMOKINE CCL14
 
Authors :  K. Y. Blain
Date :  11 Jun 07  (Deposition) - 11 Sep 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.82
Chains :  Asym. Unit :  E,F,G,H
Biol. Unit 1:  E,H  (1x)
Biol. Unit 2:  F,G  (1x)
Keywords :  Common Cc Chemokine Fold, Cytokine (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. Y. Blain, W. Kwiatkowski, Q. Zhao, D. La Fleur, C. Naik, T. -W. Chun, T. Tsareva, P. Kanakaraj, M. W. Laird, R. Shah, L. George, I. Sanyal, P. A. Moore, B. Demeler, S. Choe
Structural And Functional Characterization Of Cc Chemokine Ccl14
Biochemistry V. 46 10008 2007
PubMed-ID: 17691823  |  Reference-DOI: 10.1021/BI700936W

(-) Compounds

Molecule 1 - CCL14
    ChainsE, F, G, H
    FragmentSEQUENCE DATABASE RESIDUES 28-93
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSMALL INDUCIBLE CYTOKINE A14, CHEMOKINE CC-1/CC-3, HCC- 1/HCC-3, HCC-1(1-74), NCC-2

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit EFGH
Biological Unit 1 (1x)E  H
Biological Unit 2 (1x) FG 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2Q8R)

(-) Sites  (0, 0)

(no "Site" information available for 2Q8R)

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1E:8 -E:32
2E:9 -E:48
3F:8 -F:32
4F:9 -F:48
5G:8 -G:32
6G:9 -G:48
7H:8 -H:32
8H:9 -H:48

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Q8R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 4)

Asymmetric Unit (1, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_048707K61ECCL14_HUMANPolymorphism16971802E/F/G/HK34E

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_048707K61ECCL14_HUMANPolymorphism16971802E/HK34E

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (1, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_048707K61ECCL14_HUMANPolymorphism16971802F/GK34E

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SMALL_CYTOKINES_CCPS00472 Small cytokines (intercrine/chemokine) C-C subfamily signature.CCL14_HUMAN35-76
 
 
 
  4E:8-49
F:8-49
G:8-49
H:8-49
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SMALL_CYTOKINES_CCPS00472 Small cytokines (intercrine/chemokine) C-C subfamily signature.CCL14_HUMAN35-76
 
 
 
  2E:8-49
-
-
H:8-49
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SMALL_CYTOKINES_CCPS00472 Small cytokines (intercrine/chemokine) C-C subfamily signature.CCL14_HUMAN35-76
 
 
 
  2-
F:8-49
G:8-49
-

(-) Exons   (0, 0)

(no "Exon" information available for 2Q8R)

(-) 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 E from PDB  Type:PROTEIN  Length:66
 aligned with CCL14_HUMAN | Q16627 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:66
                                    37        47        57        67        77        87      
           CCL14_HUMAN   28 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDMKEN 93
               SCOP domains d2q8re_ E: automated matches                                       SCOP domains
               CATH domains 2q8rE00 E:1-66  [code=2.40.50.40, no name defined]                 CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eee.........hhh.eeeeee.........eeeee....eeee...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------E-------------------------------- SAPs(SNPs)
                    PROSITE -------SMALL_CYTOKINES_CC  PDB: E:8-49           ----------------- PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  2q8r E  1 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDMKEN 66
                                    10        20        30        40        50        60      

Chain F from PDB  Type:PROTEIN  Length:63
 aligned with CCL14_HUMAN | Q16627 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:63
                                    37        47        57        67        77        87   
           CCL14_HUMAN   28 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDM 90
               SCOP domains d2q8rf_ F: automated matches                                    SCOP domains
               CATH domains 2q8rF00 F:1-63  [code=2.40.50.40, no name defined]              CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.........hhh.eeeeee.........eeeee....eeee...hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------E----------------------------- SAPs(SNPs)
                    PROSITE -------SMALL_CYTOKINES_CC  PDB: F:8-49           -------------- PROSITE
                 Transcript --------------------------------------------------------------- Transcript
                  2q8r F  1 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDM 63
                                    10        20        30        40        50        60   

Chain G from PDB  Type:PROTEIN  Length:63
 aligned with CCL14_HUMAN | Q16627 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:63
                                    37        47        57        67        77        87   
           CCL14_HUMAN   28 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDM 90
               SCOP domains d2q8rg_ G: automated matches                                    SCOP domains
               CATH domains 2q8rG00 G:1-63  [code=2.40.50.40, no name defined]              CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.........hhh.eeeeee.........eeeee....eeee...hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------E----------------------------- SAPs(SNPs)
                    PROSITE -------SMALL_CYTOKINES_CC  PDB: G:8-49           -------------- PROSITE
                 Transcript --------------------------------------------------------------- Transcript
                  2q8r G  1 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDM 63
                                    10        20        30        40        50        60   

Chain H from PDB  Type:PROTEIN  Length:63
 aligned with CCL14_HUMAN | Q16627 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:63
                                    37        47        57        67        77        87   
           CCL14_HUMAN   28 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDM 90
               SCOP domains d2q8rh_ H: automated matches                                    SCOP domains
               CATH domains 2q8rH00 H:1-63  [code=2.40.50.40, no name defined]              CATH domains
           Pfam domains (1) IL8-2q8rH01 H:1-63                                              Pfam domains (1)
           Pfam domains (2) IL8-2q8rH02 H:1-63                                              Pfam domains (2)
           Pfam domains (3) IL8-2q8rH03 H:1-63                                              Pfam domains (3)
           Pfam domains (4) IL8-2q8rH04 H:1-63                                              Pfam domains (4)
         Sec.struct. author .....eee.........hhh.eeeeee.........eeeee....eeee...hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------E----------------------------- SAPs(SNPs)
                    PROSITE -------SMALL_CYTOKINES_CC  PDB: H:8-49           -------------- PROSITE
                 Transcript --------------------------------------------------------------- Transcript
                  2q8r H  1 GPYHPSECCFTYTTYKIPRQRIMDYYETNSQCSKPGIVFITKRGHSVCTNPSDKWVQDYIKDM 63
                                    10        20        30        40        50        60   

   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, 4)

Asymmetric Unit

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Family: IL8 (55)
1aIL8-2q8rH01H:1-63
1bIL8-2q8rH02H:1-63
1cIL8-2q8rH03H:1-63
1dIL8-2q8rH04H:1-63

(-) Gene Ontology  (21, 21)

Asymmetric Unit(hide GO term definitions)
Chain E,F,G,H   (CCL14_HUMAN | Q16627)
molecular function
    GO:0048020    CCR chemokine receptor binding    Interacting selectively and non-covalently with a CCR chemokine receptor.
    GO:0008009    chemokine activity    The function of a family of small chemotactic cytokines; their name is derived from their ability to induce directed chemotaxis in nearby responsive cells. All chemokines possess a number of conserved cysteine residues involved in intramolecular disulfide bond formation. Some chemokines are considered pro-inflammatory and can be induced during an immune response to recruit cells of the immune system to a site of infection, while others are considered homeostatic and are involved in controlling the migration of cells during normal processes of tissue maintenance or development. Chemokines are found in all vertebrates, some viruses and some bacteria.
    GO:0005125    cytokine activity    Functions to control the survival, growth, differentiation and effector function of tissues and cells.
biological process
    GO:0007186    G-protein coupled receptor signaling pathway    A series of molecular signals that proceeds with an activated receptor promoting the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. The GTP-bound activated alpha-G-protein then dissociates from the beta- and gamma-subunits to further transmit the signal within the cell. The pathway begins with receptor-ligand interaction, or for basal GPCR signaling the pathway begins with the receptor activating its G protein in the absence of an agonist, and ends with regulation of a downstream cellular process, e.g. transcription. The pathway can start from the plasma membrane, Golgi or nuclear membrane (PMID:24568158 and PMID:16902576).
    GO:0006874    cellular calcium ion homeostasis    Any process involved in the maintenance of an internal steady state of calcium ions at the level of a cell.
    GO:0071346    cellular response to interferon-gamma    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interferon-gamma stimulus. Interferon gamma is the only member of the type II interferon found so far.
    GO:0071347    cellular response to interleukin-1    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interleukin-1 stimulus.
    GO:0071356    cellular response to tumor necrosis factor    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a tumor necrosis factor stimulus.
    GO:0070098    chemokine-mediated signaling pathway    A series of molecular signals initiated by the binding of a chemokine to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0048247    lymphocyte chemotaxis    The directed movement of a lymphocyte in response to an external stimulus.
    GO:0002548    monocyte chemotaxis    The movement of a monocyte in response to an external stimulus.
    GO:0030593    neutrophil chemotaxis    The directed movement of a neutrophil cell, the most numerous polymorphonuclear leukocyte found in the blood, in response to an external stimulus, usually an infection or wounding.
    GO:0070374    positive regulation of ERK1 and ERK2 cascade    Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0008284    positive regulation of cell proliferation    Any process that activates or increases the rate or extent of cell proliferation.
    GO:0050729    positive regulation of inflammatory response    Any process that activates or increases the frequency, rate or extent of the inflammatory response.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CCL14_HUMAN | Q166272q8t

(-) Related Entries Specified in the PDB File

2q8t