1G9X - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   CHARACTERIZATION OF THE TWINNING STRUCTURE OF MJ1267, AN ATP-BINDING CASSETTE OF AN ABC TRANSPORTER

Authors :   Y. -R. Yuan, J. F. Hunt

Date :   28 Nov 00 (Deposition) - 11 Feb 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Hemihedral Twinning Structure, Atp-Binding Cassette, Abc Transporter, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. R. Yuan, O. Martsinkevich, J. F. Hunt
Structural Characterization Of An Mj1267 Atp-Binding Cassette Crystal With A Complex Pattern Of Twinning Caused By Promiscuous Fiber Packing.
Acta Crystallogr. , Sect. D V. 59 225 2003
PubMed-ID: 12554933 | Reference-DOI: 10.1107/S0907444902018954
(for further references see the PDB file header)

Molecule 1 - HIGH-AFFINITY BRANCHED-CHAIN AMINO ACID TRANSPORT ATP-BINDING PROTEIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	MJ1267
	Gene	:	STRUCTURAL DNA
	Mutation	:	YES
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190

		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, 9)

No.	Name	Count	Type	Full Name
1	ADP	3	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	3	Ligand/Ion	MAGNESIUM ION
3	MMC	3	Ligand/Ion	METHYL MERCURY ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MMC	1	Ligand/Ion	METHYL MERCURY ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MMC	1	Ligand/Ion	METHYL MERCURY ION

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MMC	1	Ligand/Ion	METHYL MERCURY ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:47 , ADP A:300 , HOH A:3038	BINDING SITE FOR RESIDUE MG A 301
2	AC2	SOFTWARE	SER B:1047 , ASP B:1178 , GLU B:1179 , ADP B:1300 , HOH B:3030	BINDING SITE FOR RESIDUE MG B 1301
3	AC3	SOFTWARE	SER C:2047 , ADP C:2300	BINDING SITE FOR RESIDUE MG C 2301
4	AC4	SOFTWARE	THR A:4 , MET A:5 , GLU A:6 , CYS A:31	BINDING SITE FOR RESIDUE MMC A 302
5	AC5	SOFTWARE	PHE A:17 , PHE A:20 , PRO A:41 , ASN A:42 , GLY A:43 , SER A:44 , GLY A:45 , LYS A:46 , SER A:47 , THR A:48 , MG A:301 , HOH A:3013 , HOH A:3034 , HOH A:3038 , ARG B:1236	BINDING SITE FOR RESIDUE ADP A 300
6	AC6	SOFTWARE	CYS B:1031 , ARG B:1236	BINDING SITE FOR RESIDUE MMC B 1302
7	AC7	SOFTWARE	ASN A:68 , PHE B:1017 , PHE B:1020 , PRO B:1041 , GLY B:1043 , SER B:1044 , GLY B:1045 , LYS B:1046 , SER B:1047 , THR B:1048 , MG B:1301 , HOH B:3030	BINDING SITE FOR RESIDUE ADP B 1300
8	AC8	SOFTWARE	THR C:2004 , CYS C:2031	BINDING SITE FOR RESIDUE MMC C 2302
9	AC9	SOFTWARE	GLY A:256 , PHE C:2017 , PRO C:2041 , GLY C:2043 , SER C:2044 , GLY C:2045 , LYS C:2046 , SER C:2047 , THR C:2048 , MG C:2301 , HOH C:3008	BINDING SITE FOR RESIDUE ADP C 2300

(no "SS Bond" information available for 1G9X)

(no "Cis Peptide Bond" information available for 1G9X)

(no "SAP(SNP)/Variant" information available for 1G9X)

Asymmetric Unit (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ABC_TRANSPORTER_1	PS00211	ABC transporters family signature.	LIVG_METJA	154-168	3	A:154-168 B:1154-1168 C:2154-2168

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, 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	- B:1154-1168 -

Biological Unit 3 (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	- - C:2154-2168

(no "Exon" information available for 1G9X)

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
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253   
          LIVG_METJA      4 TMEILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIG  256
               SCOP domains d1g9xa_ A: MJ1267                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1g9xA00 A:4-256 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeee..eeeeeee........eeeee.....hhhhhhhhhh......eeeeee........hhhhhh...eee.............hhhhhh.......hhhhhhh.......hhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhhh......eeeee......hhhhhhhhhhhhhhhhh...eeeeee...........eeeeee..eeeeee.hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ABC_TRANSPORTER---------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1g9x A    4 TMEILRTENIVKYFGEFKALDGVSISVCKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIG  256
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253

Chain B from PDB  Type:PROTEIN  Length:253
 aligned with LIVG_METJA | Q58663 from UniProtKB/Swiss-Prot  Length:257

    Alignment length:253
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253   
          LIVG_METJA      4 TMEILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIG  256
               SCOP domains d1g9xb_ B: MJ1267                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1g9xB00 B:1004-1256 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.........eeeeeee....eeeee......hhhhhhhhh......eeeee.........hhhhhh....ee.....hhhhh...hhhhhhhhhh...hhhhhhhh.......hhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhh..eee........hhhhhhhhhhhhhhhhhhh.eeeee....hhhhhhh..eeee....eeee..hhhhhhhhh.hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ABC_TRANSPORTER---------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1g9x B 1004 TMEILRTENIVKYFGEFKALDGVSISVCKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIG 1256
                                  1013      1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143      1153      1163      1173      1183      1193      1203      1213      1223      1233      1243      1253

Chain C from PDB  Type:PROTEIN  Length:253
 aligned with LIVG_METJA | Q58663 from UniProtKB/Swiss-Prot  Length:257

    Alignment length:253
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253   
          LIVG_METJA      4 TMEILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIG  256
               SCOP domains d1g9xc_ C: MJ1267                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1g9xC00 C:2004-2256 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee....eeeeee..ee....eeeee.....hhhhhhhhhh......eeee..........hhhhhh...........hhhhhh..hhhhhh.........hhhhhh.............hhhhhhhhhhhhh........hhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhhhh...eeeee............eeeee....eeeeeehhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ABC_TRANSPORTER---------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1g9x C 2004 TMEILRTENIVKYFGEFKALDGVSISVCKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEINPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEEEIKNVLSDPKVVEIYIG 2256
                                  2013      2023      2033      2043      2053      2063      2073      2083      2093      2103      2113      2123      2133      2143      2153      2163      2173      2183      2193      2203      2213      2223      2233      2243      2253

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)

1a	d1g9xa_	A:
1b	d1g9xb_	B:
1c	d1g9xc_	C:

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. (2)

1a	1g9xA00	A:4-256
1b	1g9xB00	B:1004-1256
1c	1g9xC00	C:2004-2256

(no "Pfam Domain" information available for 1G9X)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (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.

Asymmetric Unit
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	1g9x
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	LIVG_METJA \| Q58663	:	1g6h 1gaj

1g6h	CRYSTAL STRUCTURE OF MJ1267

Description

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Ligands, Modified Residues, Ions (3, 9)

Sites (9, 9)

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