1GAJ - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF A NUCLEOTIDE-FREE ATP-BINDING CASSETTE FROM AN ABC TRANSPORTER

Authors :   N. Karpowich, Y. -R. Yuan, P. L. Dai, O. Martsinkevich, L. Millen, P. J. T J. F. Hunt

Date :   30 Nov 00 (Deposition) - 18 Jul 01 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A
Biol. Unit 1: A  (1x)
Biol. Unit 2: A  (24x)

Keywords :   Abc Transporter, Active Transport, Atpase, Nucleotide-Binding Domain, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. Karpowich, O. Martsinkevich, L. Millen, Y. R. Yuan, P. L. Dai, K. Macvey, P. J. Thomas, J. F. Hunt
Crystal Structures Of The Mj1267 Atp Binding Cassette Revea An Induced-Fit Effect At The Atpase Active Site Of An Abc Transporter.
Structure V. 9 571 2001
PubMed-ID: 11470432 | Reference-DOI: 10.1016/S0969-2126(01)00617-7

Molecule 1 - HIGH-AFFINITY BRANCHED CHAIN AMINO ACID TRANSPORT ATP- BINDING PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21(DE3)RIL+
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190
	Synonym	:	BRAF

		1
Asymmetric Unit	:	A
Biological Unit 1 (1x)	:	A
Biological Unit 2 (24x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 8)

No.	Name	Count	Type	Full Name
1	CL	2	Ligand/Ion	CHLORIDE ION
2	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
3	SO4	1	Ligand/Ion	SULFATE ION
4	TBU	3	Ligand/Ion	TERTIARY-BUTYL ALCOHOL

Biological Unit 1 (3, 6)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
3	SO4	1	Ligand/Ion	SULFATE ION
4	TBU	3	Ligand/Ion	TERTIARY-BUTYL ALCOHOL

Biological Unit 2 (3, 144)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	PEG	48	Ligand/Ion	DI(HYDROXYETHYL)ETHER
3	SO4	24	Ligand/Ion	SULFATE ION
4	TBU	72	Ligand/Ion	TERTIARY-BUTYL ALCOHOL

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:41 , ASN A:42 , GLY A:43 , SER A:44 , GLY A:45 , LYS A:46 , SER A:47 , HOH A:430	BINDING SITE FOR RESIDUE SO4 A 301
2	AC2	SOFTWARE	GLY A:183 , ARG A:212	BINDING SITE FOR RESIDUE CL A 700
3	AC3	SOFTWARE	LYS A:15 , LYS A:58	BINDING SITE FOR RESIDUE CL A 701
4	AC4	SOFTWARE	TYR A:254 , TBU A:353 , HOH A:509	BINDING SITE FOR RESIDUE TBU A 351
5	AC5	SOFTWARE	LYS A:121 , LYS A:122	BINDING SITE FOR RESIDUE TBU A 352
6	AC6	SOFTWARE	HIS A:211 , LEU A:213 , ASP A:214 , TBU A:351 , HOH A:407	BINDING SITE FOR RESIDUE TBU A 353
7	AC7	SOFTWARE	ASN A:51 , PHE A:56 , PEG A:601	BINDING SITE FOR RESIDUE PEG A 600
8	AC8	SOFTWARE	PEG A:600	BINDING SITE FOR RESIDUE PEG A 601

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

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

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

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ABC_TRANSPORTER_1	PS00211	ABC transporters family signature.	LIVG_METJA	154-168	1	A:154-168

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ABC_TRANSPORTER_1	PS00211	ABC transporters family signature.	LIVG_METJA	154-168	1	A:154-168

Biological Unit 2 (1, 24)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ABC_TRANSPORTER_1	PS00211	ABC transporters family signature.	LIVG_METJA	154-168	24	A:154-168

(no "Exon" information available for 1GAJ)

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:253
 aligned with LIVG_METJA | Q58663 from UniProtKB/Swiss-Prot  Length:257

    Alignment length:253
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254   
           LIVG_METJA     5 MEILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIGE 257
               SCOP domains d1gaja_ A: MJ1267                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1gajA00 A:5-257 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee..eeeeeeeeeeee...eeeee.....hhhhhhhhhh......eeeeee..ee....hhhhhh...eee....hhhhhh.hhhhhhhhhhh....hhhhhhhhh.....hhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhhhh..eeeee..hhhhhh.....eeeee..eeeeee.hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------ABC_TRANSPORTER----------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gaj A   5 MEILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDQPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIGE 257
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254

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: Alpha and beta proteins (a/b) (23833)

Fold: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: ABC transporter ATPase domain-like (94)

Protein domain: MJ1267 (3)

Methanococcus jannaschii [TaxId: 2190] (3)

d1gaja_

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: P-loop containing nucleotide triphosphate hydrolases (1378)

Methanocaldococcus jannaschii. Organism_taxid: 2190. (4)

1gajA00

A:5-257

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

Asymmetric Unit(hide GO term definitions)

Chain A (LIVG_METJA | Q58663)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016887	ATPase activity	Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0006865	amino acid transport	The directed movement of amino acids, organic acids containing one or more amino substituents, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	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.

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	1gaj
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	LIVG_METJA \| Q58663	:	1g6h 1g9x

1g6h	MGADP-BOUND MJ1267

Description

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Ligands, Modified Residues, Ions (4, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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