4A1H - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   HUMAN MYELIN P2 PROTEIN, K45S MUTANT

Authors :   M. Lehtimaki, P. Kursula

Date :   15 Sep 11 (Deposition) - 26 Sep 12 (Release) - 26 Sep 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)

Keywords :   Transport, Lipid-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Lehtimaki, P. Kursula
Structure-Function Relationships In The Myelin Peripheral Membrane Protein P2
To Be Published
PubMed: search

Molecule 1 - MYELIN P2 PROTEIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTH27
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	ROSETTA
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	PERIPHERAL MYELIN PROTEIN 2

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 7)

No.	Name	Count	Type	Full Name
1	CL	3	Ligand/Ion	CHLORIDE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	PLM	3	Ligand/Ion	PALMITIC ACID

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	PLM	1	Ligand/Ion	PALMITIC ACID

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GOL	-1	Ligand/Ion	GLYCEROL
3	PLM	1	Ligand/Ion	PALMITIC ACID

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GOL	-1	Ligand/Ion	GLYCEROL
3	PLM	1	Ligand/Ion	PALMITIC ACID

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:29 , GLY A:33 , PRO A:38 , THR A:53 , PHE A:57 , LYS A:58 , ARG A:106 , ARG A:126 , TYR A:128 , HOH A:2040 , HOH A:2076	BINDING SITE FOR RESIDUE PLM A1132
2	AC2	SOFTWARE	SER B:55 , PHE B:57 , ASP B:76 , ARG B:106 , ARG B:126 , TYR B:128 , HOH B:2071	BINDING SITE FOR RESIDUE PLM B1132
3	AC3	SOFTWARE	PHE C:16 , THR C:29 , SER C:55 , ARG C:106 , ARG C:126 , TYR C:128 , HOH C:2018 , HOH C:2033	BINDING SITE FOR RESIDUE PLM C1132
4	AC4	SOFTWARE	GLU A:69 , LYS A:81 , HOH A:2094 , ARG B:88	BINDING SITE FOR RESIDUE GOL A1133
5	AC5	SOFTWARE	LYS B:37 , THR B:56	BINDING SITE FOR RESIDUE CL B1133
6	AC6	SOFTWARE	LYS A:37 , SER A:55 , THR A:56 , HOH A:2042	BINDING SITE FOR RESIDUE CL A1134
7	AC7	SOFTWARE	LYS C:37 , SER C:55 , THR C:56	BINDING SITE FOR RESIDUE CL C1133

(no "SS Bond" information available for 4A1H)

(no "Cis Peptide Bond" information available for 4A1H)

(no "SAP(SNP)/Variant" information available for 4A1H)

Asymmetric Unit (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	MYP2_HUMAN	7-24	3	A:6-23 B:6-23 C:6-23

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	MYP2_HUMAN	7-24	1	A:6-23 - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	MYP2_HUMAN	7-24	1	- B:6-23 -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	MYP2_HUMAN	7-24	1	- - C:6-23

(no "Exon" information available for 4A1H)

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:133
 aligned with MYP2_HUMAN | P02689 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:133
                             1                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129   
           MYP2_HUMAN     - -MSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKKGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 132
               SCOP domains d4a1ha_ A: automated matches                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhheeeeeeeeehhhhhhhhhh.hhhhhhhhh....eeeeeee..eeeeeee....eeeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------FABP  PDB: A:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1h A  -1 GMSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKSGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 131
                                     8        18        28        38        48        58        68        78        88        98       108       118       128

Chain B from PDB  Type:PROTEIN  Length:133
 aligned with MYP2_HUMAN | P02689 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:133
                             1                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129   
           MYP2_HUMAN     - -MSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKKGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 132
               SCOP domains d4a1hb_ B: automated matches                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeeehhhhhhhhh..hhhhhhhhhhh..eeeeeee..eeeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------FABP  PDB: B:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1h B  -1 GMSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKSGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 131
                                     8        18        28        38        48        58        68        78        88        98       108       118       128

Chain C from PDB  Type:PROTEIN  Length:133
 aligned with MYP2_HUMAN | P02689 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:133
                             1                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129   
           MYP2_HUMAN     - -MSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKKGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 132
               SCOP domains d4a1hc_ C: automated matches                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhheeeeeeeeehhhhhhhhhh.hhhhhhhhhhh..eeeeeee..eeeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeee.....eeeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------FABP  PDB: C:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1h C  -1 GMSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKSGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 131
                                     8        18        28        38        48        58        68        78        88        98       108       118       128

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Lipocalins (514)

Superfamily: Lipocalins (514)

Family: Fatty acid binding protein-like (183)

Protein domain: automated matches (26)

Human (Homo sapiens) [TaxId: 9606] (15)

1a	d4a1ha_	A:
1b	d4a1hb_	B:
1c	d4a1hc_	C:

(no "CATH Domain" information available for 4A1H)

(no "Pfam Domain" information available for 4A1H)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (MYP2_HUMAN | P02689)

molecular function
	GO:0015485	cholesterol binding	Interacting selectively and non-covalently with cholesterol (cholest-5-en-3-beta-ol); the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
	GO:0005504	fatty acid binding	Interacting selectively and non-covalently with fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0005215	transporter activity	Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
	GO:0061024	membrane organization	A process which results in the assembly, arrangement of constituent parts, or disassembly of a membrane. A membrane is a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	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:0043209	myelin sheath	An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system.

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	MYP2_HUMAN \| P02689	:	2wut 3nr3 4a1y 4a8z 4bvm 4d6a 4d6b

2wut	CRYSTAL STRUCTURE OF HUMAN MYELIN PROTEIN P2 IN COMPLEX WITH PALMITATE

Description

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Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

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