4AYT - JenaLib

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Title :   STRUCTURE OF THE HUMAN MITOCHONDRIAL ABC TRANSPORTER, ABCB10

Authors :   A. C. W. Pike, C. A. Shintre, Q. Li, J. Kim, F. Von Delft, A. J. Barr, S. Das A. Chaikuad, X. Xia, A. Quigley, Y. Dong, L. Dong, T. Krojer, M. Vollmar J. R. C. Muniz, J. E. Bray, G. Berridge, R. Chalk, O. Gileadi, N. Burgess L. Shrestha, S. Goubin, J. Yang, P. Mahajan, S. Mukhopadhyay, A. N. Bul C. H. Arrowsmith, J. Weigelt, C. Bountra, A. M. Edwards, E. P. Carpente

Date :   22 Jun 12 (Deposition) - 11 Jul 12 (Release) - 25 Mar 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.85

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

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

Reference :   C. A. Shintre, A. C. W. Pike, Q. Li, J. Kim, A. J. Barr, S. Goubin, L. Shrestha, J. Yang, G. Berridge, J. Ross, P. J. Stansfeld, M. S. P. Sansom, A. M. Edwards, C. Bountra, B. D. Marsden, F. Von Delft, A. N. Bullock, O. Gileadi, N. A. Burgess-Brown, E. P. Carpenter
Structures Of Abcb10, A Human Atp-Binding Cassette Transporter In Apo- And Nucleotide-Bound States
Proc. Natl. Acad. Sci. Usa V. 110 9710 2013
PubMed-ID: 23716676 | Reference-DOI: 10.1073/PNAS.1217042110

Molecule 1 - ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 10 MITOCHONDRIAL
	Chains	:	A
	Engineered	:	YES
	Expression System	:	SPODOPTERA FRUGIPERDA
	Expression System Cell Line	:	SF9
	Expression System Common	:	FALL ARMYWORM
	Expression System Plasmid	:	PFB-CT10HF-LIC
	Expression System Taxid	:	7108
	Expression System Vector Type	:	BACULOVIRUS
	Fragment	:	ABC TRANSPORTER, RESIDUES 152-738
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	ATP-BINDING CASSETTE TRANSPORTER 10, ABC TRANSPORTER 10 PROTEIN, MITOCHONDRIAL ATP-BINDING CASSETTE 2, M-ABC2

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 8)

No.	Name	Count	Type	Full Name
1	ACP	1	Ligand/Ion	PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
2	CDL	2	Ligand/Ion	CARDIOLIPIN
3	GLY	1	Mod. Amino Acid	GLYCINE
4	LMT	3	Ligand/Ion	DODECYL-BETA-D-MALTOSIDE
5	MG	1	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (4, 14)

No.	Name	Count	Type	Full Name
1	ACP	2	Ligand/Ion	PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
2	CDL	4	Ligand/Ion	CARDIOLIPIN
3	GLY	2	Mod. Amino Acid	GLYCINE
4	LMT	6	Ligand/Ion	DODECYL-BETA-D-MALTOSIDE
5	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:534 , GLN A:575 , ASP A:658 , ACP A:900	BINDING SITE FOR RESIDUE MG A 801
2	AC2	SOFTWARE	ASP A:264 , TYR A:501 , ALA A:503 , ILE A:509 , SER A:529 , GLY A:530 , SER A:531 , GLY A:532 , LYS A:533 , SER A:534 , THR A:535 , TYR A:544 , GLN A:575 , MG A:801 , HOH A:2055	BINDING SITE FOR RESIDUE ACP A 900
3	AC3	SOFTWARE	ARG A:170 , TYR A:234 , ARG A:242	BINDING SITE FOR RESIDUE GLY A1717
4	AC4	SOFTWARE	ASP A:197 , TYR A:200 , THR A:201 , PRO A:203 , LEU A:214 , GLY A:418 , MET A:421 , THR A:427 , VAL A:428 , ASN A:484 , LYS A:486 , HOH A:2033	BINDING SITE FOR RESIDUE LMT A1720
5	AC5	SOFTWARE	PRO A:312 , ASN A:313 , THR A:316 , PHE A:317 , SER A:405 , LYS A:416 , LMT A:1724	BINDING SITE FOR RESIDUE CDL A1721
6	AC6	SOFTWARE	SER A:449	BINDING SITE FOR RESIDUE LMT A1723
7	AC7	SOFTWARE	SER A:405 , SER A:412 , TYR A:415 , LYS A:416 , LEU A:420 , SER A:423 , HIS A:425 , CDL A:1721 , HOH A:2032	BINDING SITE FOR RESIDUE LMT A1724
8	AC8	SOFTWARE	PHE A:191 , LEU A:214 , PHE A:222 , ASN A:407	BINDING SITE FOR RESIDUE CDL A1727

(no "SS Bond" information available for 4AYT)

(no "Cis Peptide Bond" information available for 4AYT)

Asymmetric Unit (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_048133	R	242	G	ABCBA_HUMAN	Polymorphism	17584642	A	R	242	G
2	UniProt	VAR_035735	R	471	T	ABCBA_HUMAN	Unclassified	---	A	R	471	T
3	UniProt	VAR_031435	D	545	N	ABCBA_HUMAN	Polymorphism	35698797	A	D	545	N

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (3, 6)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_048133	R	242	G	ABCBA_HUMAN	Polymorphism	17584642	A	R	242	G
2	UniProt	VAR_035735	R	471	T	ABCBA_HUMAN	Unclassified	---	A	R	471	T
3	UniProt	VAR_031435	D	545	N	ABCBA_HUMAN	Polymorphism	35698797	A	D	545	N

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ABC_TM1F	PS50929	ABC transporter integral membrane type-1 fused domain profile.	ABCBA_HUMAN	172-457	1	A:172-457
2	ABC_TRANSPORTER_1	PS00211	ABC transporters family signature.	ABCBA_HUMAN	634-648	1	A:634-648

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ABC_TM1F	PS50929	ABC transporter integral membrane type-1 fused domain profile.	ABCBA_HUMAN	172-457	2	A:172-457
2	ABC_TRANSPORTER_1	PS00211	ABC transporters family signature.	ABCBA_HUMAN	634-648	2	A:634-648

(no "Exon" information available for 4AYT)

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:565
 aligned with ABCBA_HUMAN | Q9NRK6 from UniProtKB/Swiss-Prot  Length:738

    Alignment length:571
                                   163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723 
         ABCBA_HUMAN    154 LPEARKLLGLAYPERRRLAAAVGFLTMSSVISMSAPFFLGKIIDVIYTNPTVDYSDNLTRLCLGLSAVFLCGAAANAIRVYLMQTSGQRIVNRLRTSLFSSILRQEVAFFDKTRTGELINRLSSDTALLGRSVTENLSDGLRAGAQASVGISMMFFVSPNLATFVLSVVPPVSIIAVIYGRYLRKLTKVTQDSLAQATQLAEERIGNVRTVRAFGKEMTEIEKYASKVDHVMQLARKEAFARAGFFGATGLSGNLIVLSVLYKGGLLMGSAHMTVGELSSFLMYAFWVGISIGGLSSFYSELMKGLGAGGRLWELLEREPKLPFNEGVILNEKSFQGALEFKNVHFAYPARPEVPIFQDFSLSIPSGSVTALVGPSGSGKSTVLSLLLRLYDPASGTISLDGHDIRQLNPVWLRSKIGTVSQEPILFSCSIAENIAYGADDPSSVTAEEIQRVAEVANAVAFIRNFPQGFNTVVGEKGVLLSGGQKQRIAIARALLKNPKILLLDEATSALDAENEYLVQEALDRLMDGRTVLVIAHRLSTIKNANMVAVLDQGKITEYGKHEELLSKPNG  724
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....................eeeeeeee..........eeeeeeee....eeeee.......hhhhhhhh......eeeeee..ee....hhhhhhhheeee.........hhhhhhhh........hhhhhhhhhhhh.hhhhhhh..hhhhh.........hhhhhhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhhhhhh..eeeee..hhhhhhh..eeeeee..eeeeee....------. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T-------------------------------------------------------------------------N----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------ABC_TM1F  PDB: A:172-457 UniProt: 172-457                                                                                                                                                                                                                                                     --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ABC_TRANSPORTER---------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ayt A  154 LPEARKLLGLAYPERRRLAAAVGFLTMSSVISMSAPFFLGKIIDVIYTNPTVDYSDNLTRLCLGLSAVFLCGAAANAIRVYLMQTSGQRIVNRLRTSLFSSILRQEVAFFDKTRTGELINRLSSDTALLGRSVTENLSDGLRAGAQASVGISMMFFVSPNLATFVLSVVPPVSIIAVIYGRYLRKLTKVTQDSLAQATQLAEERIGNVRTVRAFGKEMTEIEKYASKVDHVMQLARKEAFARAGFFGATGLSGNLIVLSVLYKGGLLMGSAHMTVGELSSFLMYAFWVGISIGGLSSFYSELMKGLGAGGRLWELLEREPKLPFNEGVILNEKSFQGALEFKNVHFAYPARPEVPIFQDFSLSIPSGSVTALVGPSGSGKSTVLSLLLRLYDPASGTISLDGHDIRQLNPVWLRSKIGTVSQEPILFSCSIAENIAYGADDPSSVTAEEIQRVAEVANAVAFIRNFPQGFNTVVGEKGVLLSGGQKQRIAIARALLKNPKILLLDEATSALDAENEYLVQEALDRLMDGRTVLVIAHRLSTIKNANMVAVLDQGKITEYGKHEE------G 1717
                                   163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713   |     -|
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             717   1717

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 '\|'

(no "SCOP Domain" information available for 4AYT)

(no "CATH Domain" information available for 4AYT)

(no "Pfam Domain" information available for 4AYT)

Asymmetric Unit(hide GO term definitions)

Chain A (ABCBA_HUMAN | Q9NRK6)

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:0042626	ATPase activity, coupled to transmembrane movement of substances	Catalysis of the reaction: ATP + H2O = ADP + phosphate, to directly drive the active transport of a substance across a membrane.
	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.
	GO:0042803	protein homodimerization activity	Interacting selectively and non-covalently with an identical protein to form a homodimer.
	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:0055085	transmembrane transport	The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
	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:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0032592	integral component of mitochondrial membrane	The component of the mitochondrial membrane consisting of the gene products having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005743	mitochondrial inner membrane	The inner, i.e. lumen-facing, lipid bilayer of the mitochondrial envelope. It is highly folded to form cristae.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

Asymmetric Unit
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	Cis Peptide Bonds
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Biological Unit
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	4ayt
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	ABCBA_HUMAN \| Q9NRK6	:	3zdq 4ayw 4ayx

4ayw	STRUCTURE OF THE HUMAN MITOCHONDRIAL ABC TRANSPORTER, ABCB10 (PLATE FORM)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (3, 3)

PROSITE Motifs (2, 2)

Exons (0, 0)

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Gene Ontology (13, 13)

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