1PMP - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   CRYSTALLOGRAPHIC STUDIES ON A FAMILY OF CELLULAR LIPOPHILIC TRANSPORT PROTEINS. REFINEMENT OF P2 MYELIN PROTEIN AND THE STRUCTURE DETERMINATION AND REFINEMENT OF CELLULAR RETINOL-BINDING PROTEIN IN COMPLEX WITH ALL-TRANS-RETINOL

Authors :   S. W. Cowan, M. E. Newcomer, T. A. Jones

Date :   10 Feb 93 (Deposition) - 26 Jan 95 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

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

Keywords :   Cellular Lipophilic Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. W. Cowan, M. E. Newcomer, T. A. Jones
Crystallographic Studies On A Family Of Cellular Lipophilic Transport Proteins. Refinement Of P2 Myelin Protein And The Structure Determination And Refinement Of Cellular Retinol-Binding Protein In Complex With All-Trans-Retinol.
J. Mol. Biol. V. 230 1225 1993
PubMed-ID: 7683727 | Reference-DOI: 10.1006/JMBI.1993.1238
(for further references see the PDB file header)

Molecule 1 - P2 MYELIN PROTEIN
	Chains	:	A, B, C
	Engineered	:	YES
	Organism Common	:	CATTLE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 3)

No.	Name	Count	Type	Full Name
1	OLA	3	Ligand/Ion	OLEIC ACID

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	OLA	1	Ligand/Ion	OLEIC ACID

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	OLA	1	Ligand/Ion	OLEIC ACID

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	OLA	1	Ligand/Ion	OLEIC ACID

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MET A:20 , THR A:29 , ARG A:106 , ARG A:126 , TYR A:128	BINDING SITE FOR RESIDUE OLA A 200
2	AC2	SOFTWARE	MET B:20 , THR B:29 , GLY B:33 , THR B:53 , ARG B:106 , ARG B:126 , TYR B:128	BINDING SITE FOR RESIDUE OLA B 200
3	AC3	SOFTWARE	PHE C:16 , THR C:29 , THR C:53 , ARG C:106 , ARG C:126 , TYR C:128	BINDING SITE FOR RESIDUE OLA C 200

(no "SS Bond" information available for 1PMP)

(no "Cis Peptide Bond" information available for 1PMP)

(no "SAP(SNP)/Variant" information available for 1PMP)

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_BOVIN	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_BOVIN	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_BOVIN	7-24	1	- - C: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_BOVIN	7-24	1	- B:6-23 -

Asymmetric Unit (4, 12)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSBTAT00000046521	1	ENSBTAE00000346097	chr14:41928456-41928331	126	MYP2_BOVIN	1-27	27	3	A:1-26 B:1-26 C:1-26	26 26 26
1.2	ENSBTAT00000046521	2	ENSBTAE00000041809	chr14:41926141-41925969	173	MYP2_BOVIN	27-84	58	3	A:26-83 B:26-83 C:26-83	58 58 58
1.3	ENSBTAT00000046521	3	ENSBTAE00000041810	chr14:41925758-41925657	102	MYP2_BOVIN	85-118	34	3	A:84-117 B:84-117 C:84-117	34 34 34
1.4	ENSBTAT00000046521	4	ENSBTAE00000346103	chr14:41924402-41923323	1080	MYP2_BOVIN	119-134	16	3	A:118-131 B:118-131 C:118-131	14 14 14

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:131
 aligned with MYP2_BOVIN | P02690 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:131
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 
           MYP2_BOVIN     2 SNKFLGTWKLVSSENFDEYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTESPFKNTEISFKLGQEFEETTADNRKTKSTVTLARGSLNQVQKWDGNETTIKRKLVDGKMVVECKMKDVVCTRIYEKV 132
               SCOP domains d1pmpa_ A: P2 myelin protein                                                                                                        SCOP domains
               CATH domains 1pmpA00 A:1-131  [code=2.40.128.20, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee...hhhhhhhh...hhhhhhhh....eeeeeee..eeeeeee....eeeeee....eeeee.....eeeeeeeee..eeeeeeee..eeeeeeeee...eeeeeee....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----FABP  PDB: A:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: A:1-26     ---------------------------------------------------------Exon 1.3  PDB: A:84-117           Exon 1.4       Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: A:26-83 UniProt: 27-84                     ------------------------------------------------ Transcript 1 (2)
                 1pmp A   1 SNKFLGTWKLVSSENFDEYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTESPFKNTEISFKLGQEFEETTADNRKTKSTVTLARGSLNQVQKWNGNETTIKRKLVDGKMVVECKMKDVVCTRIYEKV 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

Chain B from PDB  Type:PROTEIN  Length:131
 aligned with MYP2_BOVIN | P02690 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:131
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 
           MYP2_BOVIN     2 SNKFLGTWKLVSSENFDEYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTESPFKNTEISFKLGQEFEETTADNRKTKSTVTLARGSLNQVQKWDGNETTIKRKLVDGKMVVECKMKDVVCTRIYEKV 132
               SCOP domains d1pmpb_ B: P2 myelin protein                                                                                                        SCOP domains
               CATH domains 1pmpB00 B:1-131  [code=2.40.128.20, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee...hhhhhhhh...hhhhhhhh....eeeeeee..eeeeeee.....eeeee....eeeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeee....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----FABP  PDB: B:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: B:1-26     ---------------------------------------------------------Exon 1.3  PDB: B:84-117           Exon 1.4       Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: B:26-83 UniProt: 27-84                     ------------------------------------------------ Transcript 1 (2)
                 1pmp B   1 SNKFLGTWKLVSSENFDEYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTESPFKNTEISFKLGQEFEETTADNRKTKSTVTLARGSLNQVQKWNGNETTIKRKLVDGKMVVECKMKDVVCTRIYEKV 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

Chain C from PDB  Type:PROTEIN  Length:131
 aligned with MYP2_BOVIN | P02690 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:131
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 
           MYP2_BOVIN     2 SNKFLGTWKLVSSENFDEYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTESPFKNTEISFKLGQEFEETTADNRKTKSTVTLARGSLNQVQKWDGNETTIKRKLVDGKMVVECKMKDVVCTRIYEKV 132
               SCOP domains d1pmpc_ C: P2 myelin protein                                                                                                        SCOP domains
               CATH domains 1pmpC00 C:1-131  [code=2.40.128.20, no name defined]                                                                                CATH domains
           Pfam domains (1) ----Lipocalin-1pmpC01 C:5-131                                                                                                       Pfam domains (1)
           Pfam domains (2) ----Lipocalin-1pmpC02 C:5-131                                                                                                       Pfam domains (2)
           Pfam domains (3) ----Lipocalin-1pmpC03 C:5-131                                                                                                       Pfam domains (3)
         Sec.struct. author .....eeeeeee...hhhhhhhh...hhhhhhhh....eeeeeee..eeeeeee.....eeeee....eeeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeee....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----FABP  PDB: C:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: C:1-26     ---------------------------------------------------------Exon 1.3  PDB: C:84-117           Exon 1.4       Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: C:26-83 UniProt: 27-84                     ------------------------------------------------ Transcript 1 (2)
                 1pmp C   1 SNKFLGTWKLVSSENFDEYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTESPFKNTEISFKLGQEFEETTADNRKTKSTVTLARGSLNQVQKWNGNETTIKRKLVDGKMVVECKMKDVVCTRIYEKV 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

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 '\|'

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: P2 myelin protein (2)

Cow (Bos taurus), caudal spinal root myelin [TaxId: 9913] (1)

1a	d1pmpa_	A:
1b	d1pmpb_	B:
1c	d1pmpc_	C:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: Lipocalin (526)

Homologous Superfamily: [code=2.40.128.20, no name defined] (352)

Cattle (Bos taurus) (38)

1a	1pmpA00	A:1-131
1b	1pmpB00	B:1-131
1c	1pmpC00	C:1-131

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Calycin (163)

Family: Lipocalin (123)

Bos taurus (Bovine) (14)

1a	Lipocalin-1pmpC01	C:5-131
1b	Lipocalin-1pmpC02	C:5-131
1c	Lipocalin-1pmpC03	C:5-131

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (MYP2_BOVIN | P02690)

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: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.

Asymmetric Unit
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	1pmp
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Description

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Chains, Units

Ligands, Modified Residues, Ions (1, 3)

Sites (3, 3)

SS Bonds (0, 0)

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