1L9L - JenaLib

Title :   GRANULYSIN FROM HUMAN CYTOLYTIC T LYMPHOCYTES

Authors :   D. H. Anderson, M. R. Sawaya, D. Cascio, W. Ernst, A. Krensky, R. Modlin, D. Eisenberg

Date :   25 Mar 02 (Deposition) - 06 Nov 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   0.92

Chains :   Asym./Biol. Unit : A

Keywords :   Granulysin, Saposin Fold, Membrane-Lytic, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. H. Anderson, M. R. Sawaya, D. Cascio, W. Ernst, R. Modlin, A. Krensky, D. Eisenberg
Granulysin Crystal Structure And A Structure-Derived Lytic Mechanism
J. Mol. Biol. V. 325 355 2002
PubMed-ID: 12488100 | Reference-DOI: 10.1016/S0022-2836(02)01234-2
(for further references see the PDB file header)

Compounds

Molecule 1 - GRANULYSIN
	Cell	:	LYMPHOCYTE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28A (NOVAGEN)
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	T-CELL ACTIVATION PROTEIN 519, NKG5 PROTEIN, LYMPHOKINE LAG-2

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 8)

Sites (8, 8)

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:39 , ARG A:42 , ARG A:51 , HOH A:1011 , HOH A:1045 , HOH A:1076 , HOH A:1100	BINDING SITE FOR RESIDUE SO4 A 81
2	AC2	SOFTWARE	ARG A:2 , ARG A:38 , ASN A:47 , ARG A:51 , HOH A:1001 , HOH A:1091	BINDING SITE FOR RESIDUE SO4 A 82
3	AC3	SOFTWARE	ARG A:2 , HOH A:1061 , HOH A:1099	BINDING SITE FOR RESIDUE SO4 A 83
4	AC4	SOFTWARE	ARG A:42 , ARG A:46 , HOH A:1102	BINDING SITE FOR RESIDUE SO4 A 84
5	AC5	SOFTWARE	GLY A:1 , ARG A:35 , ARG A:42 , ARG A:50 , LEU A:73 , ARG A:74	BINDING SITE FOR RESIDUE MPO A 111
6	AC6	SOFTWARE	LYS A:15 , VAL A:18 , ASP A:19	BINDING SITE FOR RESIDUE EOH A 101
7	AC7	SOFTWARE	ARG A:55 , ILE A:69 , ASP A:72 , LEU A:73 , HOH A:1028	BINDING SITE FOR RESIDUE EOH A 102
8	AC8	SOFTWARE	LYS A:16 , GLN A:58 , HOH A:1018 , HOH A:1064 , HOH A:1072	BINDING SITE FOR RESIDUE EOH A 103

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

PROSITE Motifs (0, 0)

Exons (2, 2)

Asymmetric/Biological Unit (2, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.2a	ENST00000263863	2a	ENSE00001919524	chr2:85921414-85921593	180	GNLY_HUMAN	1-18	18	0	-	-
1.2p	ENST00000263863	2p	ENSE00001135227	chr2:85922443-85922546	104	GNLY_HUMAN	18-52	35	0	-	-
1.3a	ENST00000263863	3a	ENSE00000767621	chr2:85923081-85923179	99	GNLY_HUMAN	53-85	33	1	A:1-23	23
1.4c	ENST00000263863	4c	ENSE00000799876	chr2:85924629-85924800	172	GNLY_HUMAN	86-143	58	1	A:24-74	51
1.6d	ENST00000263863	6d	ENSE00001886592	chr2:85925687-85925977	291	GNLY_HUMAN	143-145	3	0	-	-

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:74
 aligned with GNLY_HUMAN | P22749 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:74
                                    72        82        92       102       112       122       132    
           GNLY_HUMAN    63 GRDYRTCLTIVQKLKKMVDKPTQRSVSNAATRVCRTGRSRWRDVCRNFMRRYQSRVTQGLVAGETAQQICEDLR 136
               SCOP domains d1l9la_ A: Granulysin, NKG5 protein                                        SCOP domains
               CATH domains 1l9lA00 A:1-74 NK-Lysin                                                    CATH domains
               Pfam domains -----------------------------------------SapB_2-1l9lA01 A:42-74            Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------I----------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.3a  PDB: A:1-23 Exon 1.4c  PDB: A:24-74 UniProt: 86-143             Transcript 1
                 1l9l A   1 GRDYRTCLTIVQKLKKMVDKPTQRSVSNAATRVCRTGRSRWRDVCRNFMRRYQSRVIQGLVAGETAQQICEDLR  74
                                    10        20        30        40        50        60        70

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Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (GNLY_HUMAN | P22749)

biological process
	GO:0006968	cellular defense response	A defense response that is mediated by cells.
	GO:0042742	defense response to bacterium	Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
	GO:0050832	defense response to fungus	Reactions triggered in response to the presence of a fungus that act to protect the cell or organism.
	GO:0031640	killing of cells of other organism	Any process in an organism that results in the killing of cells of another organism, including in some cases the death of the other organism. Killing here refers to the induction of death in one cell by another cell, not cell-autonomous death due to internal or other environmental conditions.
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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