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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, T. A. Jones

Date :   10 Feb 93 (Deposition) - 20 Dec 94 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym./Biol. Unit : A

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 - CELLULAR RETINOL BINDING PROTEIN
	Chains	:	A
	Engineered	:	YES
	Organism Common	:	BLACK RAT
	Organism Scientific	:	RATTUS RATTUS
	Organism Taxid	:	10117

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 3)

No.	Name	Count	Type	Full Name
1	CD	2	Ligand/Ion	CADMIUM ION
2	RTL	1	Ligand/Ion	RETINOL

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:18 , ASP A:91	BINDING SITE FOR RESIDUE CD A 201
2	AC2	SOFTWARE	GLU A:102 , GLU A:118	BINDING SITE FOR RESIDUE CD A 202
3	AC3	SOFTWARE	ALA A:33 , LYS A:40 , ILE A:51 , THR A:53 , ARG A:58 , TRP A:106 , GLN A:108	BINDING SITE FOR RESIDUE RTL A 200

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

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

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

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	RET1_RAT	7-24	1	A:6-23

Asymmetric/Biological Unit (4, 4)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSRNOT00000018622	1	ENSRNOE00000131422	chr8:103605870-103606037	168	RET1_RAT	1-25	25	1	A:1-24	24
1.2	ENSRNOT00000018622	2	ENSRNOE00000131736	chr8:103606421-103606599	179	RET1_RAT	25-84	60	1	A:24-83	60
1.3	ENSRNOT00000018622	3	ENSRNOE00000132019	chr8:103625505-103625606	102	RET1_RAT	85-118	34	1	A:84-117	34
1.4	ENSRNOT00000018622	4	ENSRNOE00000132311	chr8:103627144-103627390	247	RET1_RAT	119-135	17	1	A:118-134	17

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:134
 aligned with RET1_RAT | P02696 from UniProtKB/Swiss-Prot  Length:135

    Alignment length:134
                                    11        21        31        41        51        61        71        81        91       101       111       121       131    
             RET1_RAT     2 PVDFNGYWKMLSNENFEEYLRALDVNVALRKIANLLKPDKEIVQDGDHMIIRTLSTFRNYIMDFQVGKEFEEDLTGIDDRKCMTTVSWDGDKLQCVQKGEKEGRGWTQWIEGDELHLEMRAEGVTCKQVFKKVH 135
               SCOP domains d1crba_ A: Cellular retinol-binding protein II (CRBP)                                                                                  SCOP domains
               CATH domains 1crbA00 A:1-134  [code=2.40.128.20, no name defined]                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhheeeeeeeee.hhhhhhhh...hhhhhhhhh.eeeeeeeee..eeeeeeee...eeeeeee...eeeeee.....eeeeeeeeee..eeeeeeee....eeeeeeee..eeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----FABP  PDB: A:6-23 --------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: A:1-24   -----------------------------------------------------------Exon 1.3  PDB: A:84-117           Exon 1.4          Transcript 1 (1)
           Transcript 1 (2) -----------------------Exon 1.2  PDB: A:24-83 UniProt: 25-84                       --------------------------------------------------- Transcript 1 (2)
                 1crb A   1 PVDFNGYWKMLSNENFEEYLRALDVNVALRKIANLLKPDKEIVQDGDHMIIRTLSTFRNYIMDFQVGKEFEEDLTGIDDRKCMTTVSWDGDKLQCVQKGEKEGRGWTQWIEGDELHLEMRAEGVTCKQVFKKVH 134
                                    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/Biological 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: Cellular retinol-binding protein II (CRBP) (11)

Norway rat (Rattus norvegicus) [TaxId: 10116] (9)

d1crba_

Asymmetric/Biological 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)

Black rat (Rattus rattus) (4)

1crbA00

A:1-134

(no "Pfam Domain" information available for 1CRB)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (RET1_RAT | P02696)

molecular function
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0016918	retinal binding	Interacting selectively and non-covalently with retinal, one of the forms of vitamin A. Retinal plays an important role in the visual process in most vertebrates, combining with opsins to form visual pigments in the retina.
	GO:0019841	retinol binding	Interacting selectively and non-covalently with retinol, vitamin A1, 2,6,6-trimethyl-1-(9'-hydroxy-3',7'-dimethylnona-1',3',5',7'-tetraenyl)cyclohex-1-ene, one of the three components that makes up vitamin A. Retinol is an intermediate in the vision cycle and it also plays a role in growth and differentiation.
	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:0030852	regulation of granulocyte differentiation	Any process that modulates the frequency, rate or extent of granulocyte differentiation.
	GO:0033189	response to vitamin A	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a vitamin A stimulus.
	GO:0002138	retinoic acid biosynthetic process	The chemical reactions and pathways resulting in the biosynthesis of retinoic acid, one of the three components that makes up vitamin A.
	GO:0042573	retinoic acid metabolic process	The chemical reactions and pathways involving retinoic acid, one of the three components that makes up vitamin A.
	GO:0042572	retinol metabolic process	The chemical reactions and pathways involving retinol, one of the three compounds that makes up vitamin A.
	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.
	GO:0006776	vitamin A metabolic process	The chemical reactions and pathways involving any of the vitamin A compounds, retinol, retinal (retinaldehyde) and retinoic acid, all of which are derivatives of beta-carotene.
cellular component
	GO:0044297	cell body	The portion of a cell bearing surface projections such as axons, dendrites, cilia, or flagella that includes the nucleus, but excludes all cell projections.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Asymmetric/Biological Unit
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