1HB8 - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   STRUCTURE OF BOVINE ACYL-COA BINDING PROTEIN IN TETRAGONAL CRYSTAL FORM

Authors :   J. Y. Zou, G. J. Kleywegt, T. Bergfors, J. Knudsen, T. A. Jones

Date :   12 Apr 01 (Deposition) - 11 Mar 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Acyl-Coenzyme A Binding Protein, Acyl-Coa, Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. M. F. Van Aalten, K. G. Milne, J. Y. Zou, G. J. Kleywegt, T. Bergfors, M. A. J. Ferguson, J. Knudsen, T. A. Jones
Binding Site Differences Revealed By Crystal Structures Of Plasmodium Falciparum And Bovine Acyl-Coa Binding Protein
J. Mol. Biol. V. 309 181 2001
PubMed-ID: 11491287 | Reference-DOI: 10.1006/JMBI.2001.4749

Molecule 1 - ACYL-COA BINDING PROTEIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organ	:	LIVER
	Organism Common	:	BOVINE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913
	Synonym	:	ACBP, DIAZEPAM BINDING INHIBITOR, DBI ENDOZEPINE, EP
	Synthetic	:	YES

		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 (1, 3)

No.	Name	Count	Type	Full Name
1	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:50 , LYS A:54 , ARG B:43 , PHE B:49 , LYS B:52	BINDING SITE FOR RESIDUE SO4 A 87
2	AC2	SOFTWARE	LYS B:50 , LYS B:54 , HOH B:2076 , HOH B:2077 , HOH B:2078 , HOH B:2079 , ARG C:43 , PHE C:49 , LYS C:52	BINDING SITE FOR RESIDUE SO4 B 87
3	AC3	SOFTWARE	ARG A:43 , PHE A:49 , LYS A:52 , HOH B:2015 , LYS C:50 , LYS C:54 , HOH C:2080 , HOH C:2081 , HOH C:2082	BINDING SITE FOR RESIDUE SO4 C 87

(no "SS Bond" information available for 1HB8)

(no "Cis Peptide Bond" information available for 1HB8)

(no "SAP(SNP)/Variant" information available for 1HB8)

Asymmetric Unit (2, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ACB_2	PS51228	Acyl-CoA-binding (ACB) domain profile.	ACBP_BOVIN	2-87	3	A:1-86 B:1-86 C:1-86
2	ACB_1	PS00880	Acyl-CoA-binding (ACB) domain signature.	ACBP_BOVIN	20-38	3	A:19-37 B:19-37 C:19-37

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ACB_2	PS51228	Acyl-CoA-binding (ACB) domain profile.	ACBP_BOVIN	2-87	1	A:1-86 - -
2	ACB_1	PS00880	Acyl-CoA-binding (ACB) domain signature.	ACBP_BOVIN	20-38	1	A:19-37 - -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ACB_2	PS51228	Acyl-CoA-binding (ACB) domain profile.	ACBP_BOVIN	2-87	1	- B:1-86 -
2	ACB_1	PS00880	Acyl-CoA-binding (ACB) domain signature.	ACBP_BOVIN	20-38	1	- B:19-37 -

Biological Unit 3 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ACB_2	PS51228	Acyl-CoA-binding (ACB) domain profile.	ACBP_BOVIN	2-87	1	- - C:1-86
2	ACB_1	PS00880	Acyl-CoA-binding (ACB) domain signature.	ACBP_BOVIN	20-38	1	- - C:19-37

Asymmetric Unit (4, 12)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSBTAT00000012523	1	ENSBTAE00000400304	chr2:74658281-74658413	133	ACBP_BOVIN	1-3	3	3	A:1-2 B:1-2 C:1-2	2 2 2
1.2	ENSBTAT00000012523	2	ENSBTAE00000102049	chr2:74659451-74659568	118	ACBP_BOVIN	4-43	40	3	A:3-42 B:3-42 C:3-42	40 40 40
1.3	ENSBTAT00000012523	3	ENSBTAE00000102057	chr2:74661785-74661847	63	ACBP_BOVIN	43-64	22	3	A:42-63 B:42-63 C:42-63	22 22 22
1.4	ENSBTAT00000012523	4	ENSBTAE00000102063	chr2:74663168-74663461	294	ACBP_BOVIN	64-87	24	3	A:63-86 B:63-86 C:63-86	24 24 24

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:86
 aligned with ACBP_BOVIN | P07107 from UniProtKB/Swiss-Prot  Length:87

    Alignment length:86
                                    11        21        31        41        51        61        71        81      
            ACBP_BOVIN    2 SQAEFDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGTSKEDAMKAYIDKVEELKKKYGI 87
               SCOP domains d1hb8a_ A: Acyl-CoA binding protein                                                    SCOP domains
               CATH domains 1hb8A00 A:1-86  [code=1.20.80.10, no name defined]                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ACB_2  PDB: A:1-86 UniProt: 2-87                                                       PROSITE (1)
                PROSITE (2) ------------------ACB_1  PDB: A:19-37------------------------------------------------- PROSITE (2)
           Transcript 1 (1) 1.Exon 1.2  PDB: A:3-42 UniProt: 4-43     --------------------Exon 1.4  PDB: A:63-86   Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------Exon 1.3  PDB: A:42-63----------------------- Transcript 1 (2)
                  1hb8 A  1 SQAEFDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGTSKEDAMKAYIDKVEELKKKYGI 86
                                    10        20        30        40        50        60        70        80

Chain B from PDB  Type:PROTEIN  Length:86
 aligned with ACBP_BOVIN | P07107 from UniProtKB/Swiss-Prot  Length:87

    Alignment length:86
                                    11        21        31        41        51        61        71        81      
            ACBP_BOVIN    2 SQAEFDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGTSKEDAMKAYIDKVEELKKKYGI 87
               SCOP domains d1hb8b_ B: Acyl-CoA binding protein                                                    SCOP domains
               CATH domains 1hb8B00 B:1-86  [code=1.20.80.10, no name defined]                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ACB_2  PDB: B:1-86 UniProt: 2-87                                                       PROSITE (1)
                PROSITE (2) ------------------ACB_1  PDB: B:19-37------------------------------------------------- PROSITE (2)
           Transcript 1 (1) 1.Exon 1.2  PDB: B:3-42 UniProt: 4-43     --------------------Exon 1.4  PDB: B:63-86   Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------Exon 1.3  PDB: B:42-63----------------------- Transcript 1 (2)
                  1hb8 B  1 SQAEFDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGTSKEDAMKAYIDKVEELKKKYGI 86
                                    10        20        30        40        50        60        70        80

Chain C from PDB  Type:PROTEIN  Length:86
 aligned with ACBP_BOVIN | P07107 from UniProtKB/Swiss-Prot  Length:87

    Alignment length:86
                                    11        21        31        41        51        61        71        81      
            ACBP_BOVIN    2 SQAEFDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGTSKEDAMKAYIDKVEELKKKYGI 87
               SCOP domains d1hb8c_ C: Acyl-CoA binding protein                                                    SCOP domains
               CATH domains 1hb8C00 C:1-86  [code=1.20.80.10, no name defined]                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ACB_2  PDB: C:1-86 UniProt: 2-87                                                       PROSITE (1)
                PROSITE (2) ------------------ACB_1  PDB: C:19-37------------------------------------------------- PROSITE (2)
           Transcript 1 (1) 1.Exon 1.2  PDB: C:3-42 UniProt: 4-43     --------------------Exon 1.4  PDB: C:63-86   Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------Exon 1.3  PDB: C:42-63----------------------- Transcript 1 (2)
                  1hb8 C  1 SQAEFDKAAEEVKHLKTKPADEEMLFIYSHYKQATVGDINTERPGMLDFKGKAKWDAWNELKGTSKEDAMKAYIDKVEELKKKYGI 86
                                    10        20        30        40        50        60        70        80

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(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All alpha proteins (14657)

Fold: Acyl-CoA binding protein-like (48)

Superfamily: Acyl-CoA binding protein (15)

Family: Acyl-CoA binding protein (10)

Protein domain: Acyl-CoA binding protein (7)

Cow (Bos taurus) [TaxId: 9913] (6)

1a	d1hb8a_	A:
1b	d1hb8b_	B:
1c	d1hb8c_	C:

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Acyl-CoA Binding Protein (47)

Homologous Superfamily: [code=1.20.80.10, no name defined] (37)

[unclassified] (2)

1a	1hb8A00	A:1-86
1b	1hb8B00	B:1-86
1c	1hb8C00	C:1-86

(no "Pfam Domain" information available for 1HB8)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (ACBP_BOVIN | P07107)

molecular function
	GO:0000062	fatty-acyl-CoA binding	Interacting selectively and non-covalently with acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty acyl group.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0036042	long-chain fatty acyl-CoA binding	Interacting selectively and non-covalently with a long-chain fatty acyl-CoA. A long-chain fatty acyl-CoA is any derivative of coenzyme A in which the sulfhydryl group is in a thioester linkage with a long-chain fatty-acyl group. Long-chain fatty-acyl-CoAs have chain lengths of C13 or more.
	GO:0046983	protein dimerization activity	The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
biological process
	GO:0036151	phosphatidylcholine acyl-chain remodeling	Remodeling the acyl chains of phosphatidylcholine, through sequential deacylation and re-acylation reactions, to generate phosphatidylcholine containing different types of fatty acid acyl chains.
	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:0005794	Golgi apparatus	A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
	GO:0005783	endoplasmic reticulum	The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
	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:0097038	perinuclear endoplasmic reticulum	The portion of endoplasmic reticulum, the intracellular network of tubules and cisternae, that occurs near the nucleus. The lumen of the perinuclear endoplasmic reticulum is contiguous with the nuclear envelope lumen (also called perinuclear space), the region between the inner and outer nuclear membranes.

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	1hb8
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	ACBP_BOVIN \| P07107
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	ACBP_BOVIN \| P07107	:	1aca 1hb6 1nti 1nvl 2abd

1aca	ACYL-COENZYME A BINDING PROTEIN (ACBP) COMPLEX WITH PALMITOYL-COENZYME A (NMR, 20 STRUCTURES)
1hb6	STRUCTURE OF BOVINE ACYL-COA BINDING PROTEIN IN ORTHORHOMBIC CRYSTAL FORM
2abd	ACYL-COENZYME A BINDING PROTEIN (ACBP)

Description

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Ligands, Modified Residues, Ions (1, 3)

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