1CM9 - JenaLib

Title :   CRYSTAL STRUCTURE OF VIRAL MACROPHAGE INFLAMMATORY PROTEIN-II

Authors :   E. J. Fernandez, E. Lolis

Date :   19 May 99 (Deposition) - 24 Jun 99 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym./Biol. Unit : A,B

Keywords :   Chemokine, Herpesvirus-8, Karposi'S Sarcoma (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. J. Fernandez, J. Wilken, D. A. Thompson, S. C. Peiper, E. Lolis
Comparison Of The Structure Of Vmip-Ii With Eotaxin-1, Rantes, And Mcp-3 Suggests A Unique Mechanism For Ccr3 Activation.
Biochemistry V. 39 12837 2000
PubMed-ID: 11041848 | Reference-DOI: 10.1021/BI001166F

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (0, 0)

SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

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
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Chain A from PDB  Type:PROTEIN  Length:68
 aligned with VMI2_HHV8P | Q98157 from UniProtKB/Swiss-Prot  Length:94

    Alignment length:68
                                    36        46        56        66        76        86        
            VMI2_HHV8P   27 SWHRPDKCCLGYQKRPLPQVLLSSWYPTSQLCSKPGVIFLTKRGRQVCADKSKDWVKKLMQQLPVTAR 94
               SCOP domains d1cm9a_ A: Macrophage inflammatory protein, MIP                      SCOP domains
               CATH domains 1cm9A00 A:7-74  [code=2.40.50.40, no name defined]                   CATH domains
               Pfam domains -------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhheeeeee.........eeeee....eeee....hhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------SMALL_CYTOKINES_CC  PDB: A:14-55          ------------------- PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                  1cm9 A  7 SWHRPDKCCLGYQKRPLPQVLLSSWYPTSQLCSKPGVIFLTKRGRQVCADKSKDWVKKLmQQLPVTAR 74
                                    16        26        36        46        56        66        
                                                                                      66-MSE

Chain B from PDB  Type:PROTEIN  Length:67
 aligned with VMI2_HHV8P | Q98157 from UniProtKB/Swiss-Prot  Length:94

    Alignment length:67
                                    37        47        57        67        77        87       
            VMI2_HHV8P   28 WHRPDKCCLGYQKRPLPQVLLSSWYPTSQLCSKPGVIFLTKRGRQVCADKSKDWVKKLMQQLPVTAR 94
               SCOP domains d1cm9b_ B: Macrophage inflammatory protein, MIP                     SCOP domains
               CATH domains 1cm9B00 B:8-74  [code=2.40.50.40, no name defined]                  CATH domains
               Pfam domains ------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhheeeeee.........eeeee....eeee....hhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------SMALL_CYTOKINES_CC  PDB: B:14-55          ------------------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  1cm9 B  8 WHRPDKCCLGYQKRPLPQVLLSSWYPTSQLCSKPGVIFLTKRGRQVCADKSKDWVKKLmQQLPVTAR 74
                                    17        27        37        47        57        67       
                                                                                     66-MSE

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	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)

CATH Domains (1, 2)

Pfam Domains (0, 0)

Gene Ontology (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (VMI2_HHV8P | Q98157)

molecular function
	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:0060326	cell chemotaxis	The directed movement of a motile cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis).
	GO:0006955	immune response	Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
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.

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