2C43 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   STRUCTURE OF AMINOADIPATE-SEMIALDEHYDE DEHYDROGENASE-PHOSPHOPANTETHEINYL TRANSFERASE IN COMPLEX WITH COENZYME A

Authors :   G. Bunkoczi, X. Wu, E. Dubinina, C. Johansson, C. Smee, A. Turnbull, F. V C. Arrowsmith, A. Edwards, M. Sundstrom, J. Weigelt, U. Oppermann

Date :   14 Oct 05 (Deposition) - 24 Oct 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.93

Chains :   Asym./Biol. Unit : A

Keywords :   Transferase, Fatty Acid Biosynthesis, Coenzyme A (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Bunkoczi, S. Pasta, A. Joshi, X. Wu, K. L. Kavanagh, S. Smith, U. Oppermann
Mechanism And Substrate Recognition Of Human Holo Acp Synthase.
Chem. Biol. V. 14 1243 2007
PubMed-ID: 18022563 | Reference-DOI: 10.1016/J.CHEMBIOL.2007.10.013

Molecule 1 - AMINOADIPATE-SEMIALDEHYDE DEHYDROGENASE- PHOSPHOPANTETHEINYL TRANSFERASE
	Chains	:	A
	EC Number	:	1.2.1.31
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Cell Line	:	DE3
	Expression System Plasmid	:	PCOEX-1
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 3)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	COA	1	Ligand/Ion	COENZYME A
3	MG	1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:139 , MET A:141 , GLU A:191 , COA A:1316 , HOH A:2176	BINDING SITE FOR RESIDUE MG A1317
2	AC2	SOFTWARE	GLN A:51 , ARG A:74 , ARG A:78	BINDING SITE FOR RESIDUE CL A1318
3	AC3	SOFTWARE	ARG A:57 , ARG A:96 , LYS A:99 , GLY A:100 , LYS A:101 , PRO A:102 , ASN A:118 , ILE A:119 , SER A:120 , HIS A:121 , ASP A:139 , TRP A:187 , GLU A:191 , ILE A:194 , LYS A:195 , GLY A:198 , GLY A:200 , LEU A:201 , LEU A:205 , MG A:1317 , HOH A:2036 , HOH A:2066 , HOH A:2102 , HOH A:2175 , HOH A:2176 , HOH A:2177 , HOH A:2178 , HOH A:2179 , HOH A:2180	BINDING SITE FOR RESIDUE COA A1316

(no "SS Bond" information available for 2C43)

Asymmetric/Biological Unit

No.	Residues
1	Ser A:213	-	Pro A:214

(no "SAP(SNP)/Variant" information available for 2C43)

(no "PROSITE Motif" information available for 2C43)

Asymmetric/Biological Unit (6, 6)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.3a	ENST00000278618	3a	ENSE00001290916	chr11:105948216-105948620	405	ADPPT_HUMAN	1-61	61	1	A:18-71 (gaps)	61
1.4	ENST00000278618	4	ENSE00000989988	chr11:105950194-105950419	226	ADPPT_HUMAN	62-137	76	1	A:72-147 (gaps)	76
1.5	ENST00000278618	5	ENSE00001251591	chr11:105961284-105961405	122	ADPPT_HUMAN	137-177	41	1	A:147-187	41
1.6b	ENST00000278618	6b	ENSE00000989990	chr11:105962043-105962204	162	ADPPT_HUMAN	178-231	54	1	A:188-241	54
1.6d	ENST00000278618	6d	ENSE00002142662	chr11:105965310-105965381	72	ADPPT_HUMAN	232-255	24	1	A:242-257	16
1.7c	ENST00000278618	7c	ENSE00002154468	chr11:105967470-105969437	1968	ADPPT_HUMAN	256-309	54	1	A:274-315	42

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
	(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:280
 aligned with ADPPT_HUMAN | Q9NRN7 from UniProtKB/Swiss-Prot  Length:309

    Alignment length:305
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300     
          ADPPT_HUMAN     1 MVFPAKRFCLVPSMEGVRWAFSCGTWLPSRAEWLLAVRSIQPEEKERIGQFVFARDAKAAMAGRLMIRKLVAEKLNIPWNHIRLQRTAKGKPVLAKDSSNPYPNFNFNISHQGDYAVLAAEPELQVGIDIMKTSFPGRGSIPEFFHIMKRKFTNKEWETIRSFKDEWTQLDMFYRNWALKESFIKAIGVGLGFELQRLEFDLSPLNLDIGQVYKETRLFLDGEEEKEWAFEESKIDEHHFVAVALRKPDGSRHQDVPSQDDSKPTQRQFTILNFNDLMSSAVPMTPEDPSFWDCFCFTEEIPIRN 305
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....-------....eeeee.hhhh..hhhhhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eee.....eee...--......eeeeeee..eeeeeee...eeeeeeee.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh.....hhh.eeee...............eeee..ee...eeeeeeeee..eeeeeeee.----------------......eeehhhhhh.........hhhhh....hhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.3a  PDB: A:18-71 (gaps) UniProt: 1-61                 Exon 1.4  PDB: A:72-147 (gaps) UniProt: 62-137                              ----------------------------------------Exon 1.6b  PDB: A:188-241 UniProt: 178-231            Exon 1.6d  PDB: A:242-25Exon 1.7c  PDB: A:274-315 UniProt: 256-309         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------Exon 1.5  PDB: A:147-187 UniProt: 137-177-------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2c43 A  18 LYFQG-------HMEGVRWAFSCGTWLPSRAEWLLAVRSIQPEEKERIGQFVFARDAKAAMAGRLMIRKLVAEKLNIPWNHIRLQRTAKGKPVLAKD--NPYPNFNFNISHQGDYAVLAAEPELQVGIDIMKTSFPGRGSIPEFFHIMKRKFTNKEWETIRSFKDEWTQLDMFYRNWALKESFIKAIGVGLGFELQRLEFDLSPLNLDIGQVYKETRLFLDGEEEKEWAFEESKIDEHHFVAVALRK----------------PTQRQFTILNFNDLMSSAVPMTPEDPSFWDCFCFTEEIPIRN 315
                                |    -  |     30        40        50        60        70        80        90       100      |110       120       130       140       150       160       170       180       190       200       210       220       230       240       250      |  -         -   |   280       290       300       310     
                               22      23                                                                                 107  |                                                                                                                                                257              274                                         
                                                                                                                             110

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 2C43)

(no "CATH Domain" information available for 2C43)

(no "Pfam Domain" information available for 2C43)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (ADPPT_HUMAN | Q9NRN7)

molecular function
	GO:0008897	holo-[acyl-carrier-protein] synthase activity	Catalysis of the reaction: CoA + substrate-serine = adenosine 3',5'-bisphosphate + substrate-serine-4'-phosphopantetheine. The transfer of the 4'-phosphopantetheine (Ppant) co-factor from coenzyme A to the hydroxyl side chain of the serine residue of acyl- or peptidyl-carrier protein (ACP or PCP) to convert them from the apo to the holo form.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0019878	lysine biosynthetic process via aminoadipic acid	The chemical reactions and pathways resulting in the formation of lysine by the aminoadipic pathway.
	GO:0015939	pantothenate metabolic process	The chemical reactions and pathways involving pantothenate, the anion of pantothenic acid, the amide of beta-alanine and pantoic acid. It is a B complex vitamin that is a constituent of coenzyme A and is distributed ubiquitously in foods.
cellular component
	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.
	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.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Ser A:213 - Pro A:214	[ RasMol ]

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	2c43
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	ADPPT_HUMAN \| Q9NRN7
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	1.2.1.31
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UniProtKB/Swiss-Prot
	ADPPT_HUMAN \| Q9NRN7	:	2byd 2cg5

2byd	STRUCTURE OF AMINOADIPATE-SEMIALDEHYDE DEHYDROGENASE-PHOSPHOPANTETHEINYL TRANSFERASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (6, 6)

Sequences/Alignments

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SCOP Domains (0, 0)

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Gene Ontology (10, 10)

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