1T16 - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE BACTERIAL FATTY ACID TRANSPORTER FADL FROM ESCHERICHIA COLI

Authors :   B. Van Den Berg, P. N. Black, W. M. Clemons Jr. , T. A. Rapoport

Date :   15 Apr 04 (Deposition) - 15 Jun 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Beta-Barrel, Lipid Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Van Den Berg, P. N. Black, W. M. Clemons Jr. , T. A. Rapoport
Crystal Structure Of The Long-Chain Fatty Acid Transporter Fadl.
Science V. 304 1506 2004
PubMed-ID: 15178802 | Reference-DOI: 10.1126/SCIENCE.1097524
(for further references see the PDB file header)

Molecule 1 - LONG-CHAIN FATTY ACID TRANSPORT PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PBAD22
	Expression System Strain	:	C43(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	FADL, TTR, B2344
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	OUTER MEMBRANE FADL PROTEIN, OUTER MEMBRANE FLP PROTEIN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 13)

No.	Name	Count	Type	Full Name
1	C8E	3	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	CU	6	Ligand/Ion	COPPER (II) ION
3	LDA	4	Ligand/Ion	LAURYL DIMETHYLAMINE-N-OXIDE

Biological Unit 1 (2, 3)

No.	Name	Count	Type	Full Name
1	C8E	1	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	CU	-1	Ligand/Ion	COPPER (II) ION
3	LDA	2	Ligand/Ion	LAURYL DIMETHYLAMINE-N-OXIDE

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	C8E	2	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	CU	-1	Ligand/Ion	COPPER (II) ION
3	LDA	2	Ligand/Ion	LAURYL DIMETHYLAMINE-N-OXIDE

Asymmetric Unit (13, 13)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS B:423 , HIS B:426	BINDING SITE FOR RESIDUE CU B 428
02	AC2	SOFTWARE	ASP A:90 , HIS A:423 , HIS A:426	BINDING SITE FOR RESIDUE CU A 428
03	AC3	SOFTWARE	HIS A:422 , HIS A:424 , HOH A:509	BINDING SITE FOR RESIDUE CU A 429
04	AC4	SOFTWARE	HIS A:425 , HIS A:427	BINDING SITE FOR RESIDUE CU A 430
05	AC5	SOFTWARE	HIS B:422 , HIS B:424	BINDING SITE FOR RESIDUE CU B 429
06	AC6	SOFTWARE	HIS B:425	BINDING SITE FOR RESIDUE CU B 430
07	AC7	SOFTWARE	LEU A:104 , THR A:121 , ALA A:153 , ILE A:155 , ARG A:157 , ASN A:201 , LEU A:304 , GLU A:319 , SER A:360 , ILE A:361 , HOH A:519	BINDING SITE FOR RESIDUE LDA A 431
08	AC8	SOFTWARE	THR B:121 , ALA B:153 , ILE B:155 , ARG B:157 , LEU B:200 , ASN B:201 , LEU B:304 , PHE B:315 , LYS B:317 , GLU B:319 , SER B:360 , ILE B:361 , HOH B:493	BINDING SITE FOR RESIDUE LDA B 431
09	AC9	SOFTWARE	PRO A:54 , ALA A:77 , PRO A:362 , ASP A:363 , GLN A:364 , ARG A:366	BINDING SITE FOR RESIDUE LDA A 432
10	BC1	SOFTWARE	LEU B:5 , PRO B:54 , ALA B:77 , GLY B:103 , LEU B:104 , ASP B:122 , LEU B:123 , GLU B:124	BINDING SITE FOR RESIDUE LDA B 432
11	BC2	SOFTWARE	SER B:116 , LEU B:162 , VAL B:166 , ILE B:197 , PHE B:247 , PRO B:253 , ILE B:254 , PRO B:255 , GLN B:316 , C8E B:434	BINDING SITE FOR RESIDUE C8E B 433
12	BC3	SOFTWARE	THR B:187 , ASN B:244 , ALA B:246 , TYR B:250 , C8E B:433	BINDING SITE FOR RESIDUE C8E B 434
13	BC4	SOFTWARE	SER A:116 , LEU A:162 , VAL A:166 , ILE A:254 , PRO A:255 , GLN A:316	BINDING SITE FOR RESIDUE C8E A 433

(no "SS Bond" information available for 1T16)

(no "Cis Peptide Bond" information available for 1T16)

(no "SAP(SNP)/Variant" information available for 1T16)

(no "PROSITE Motif" information available for 1T16)

(no "Exon" information available for 1T16)

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:427
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:427
                                                                                                                                                                                                                                                                                                                                                                                                                                                              446      
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445|      
           FADL_ECOLI    26 AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF------   -
               SCOP domains d1t16a_ A: Long-chain fatty acid transport protein FadL                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1t16A00 A:1-427 Outer membrane protein transport protein (OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeeee................eeeeeeeeeee....eeeeeeee....eeee......hhhhh.eeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeeeeeeeeeee..eeeeeeee..eeeeeeeeee...hhhhh..............eeeeeeeee..eeeeeeeeeee..eeeeeeeeee.hhhh.eeeee.....eeeeee.....eeeeeeeeee.....eeeeeeeeee.................eeeeeeeeeee....eeeeeeeeeeee..eeeee..eeeeeeeeeeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t16 A   1 AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAFHHHHHH 427
                                    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       310       320       330       340       350       360       370       380       390       400       410       420

Chain B from PDB  Type:PROTEIN  Length:427
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:427
                                                                                                                                                                                                                                                                                                                                                                                                                                                              446      
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445|      
           FADL_ECOLI    26 AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF------   -
               SCOP domains d1t16b_ B: Long-chain fatty acid transport protein FadL                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1t16B00 B:1-427 Outer membrane protein transport protein (OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                                  CATH domains
           Pfam domains (1) Toluene_X-1t16B01 B:1-421                                                                                                                                                                                                                                                                                                                                                                                                            ------ Pfam domains (1)
           Pfam domains (2) Toluene_X-1t16B02 B:1-421                                                                                                                                                                                                                                                                                                                                                                                                            ------ Pfam domains (2)
         Sec.struct. author ........hhhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeeee................eeeeeeeeeee....eeeeeeee....eeee......hhhhh.eeeeeeeeeeeeeee.......eeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeeeeeeeeeee..eeeeeeee..eeeeeeeeee...hhhhh..............eeeeeeeee..eeeeeeeee....eeeeeeeeee.hhhh.eeeeee....eeeeee.....eeeeeeeeee.....eeeeeeeeee.................eeeeeeeeeee....eeeeeeeeeeee..eeeee..eeeeeeeeeeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t16 B   1 AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAFHHHHHH 427
                                    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       310       320       330       340       350       360       370       380       390       400       410       420

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: Membrane and cell surface proteins and peptides (2046)

Fold: Transmembrane beta-barrels (143)

Superfamily: Porins (99)

Family: Outer membrane protein transport protein (10)

Protein domain: Long-chain fatty acid transport protein FadL (2)

Escherichia coli [TaxId: 562] (2)

1a	d1t16a_	A:
1b	d1t16b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: Porin (92)

Homologous Superfamily: Outer membrane protein transport protein (OMPP1/FadL/TodX) (14)

Escherichia coli. Organism_taxid: 562. (8)

1a	1t16A00	A:1-427
1b	1t16B00	B:1-427

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: MBB (97)

Family: Toluene_X (12)

Escherichia coli (strain K12) (12)

1a	Toluene_X-1t16B01	B:1-421
1b	Toluene_X-1t16B02	B:1-421

Asymmetric Unit(hide GO term definitions)

Chain A,B (FADL_ECOLI | P10384)

molecular function
	GO:0022834	ligand-gated channel activity	Enables the transmembrane transfer of a solute by a channel that opens when a specific ligand has been bound by the channel complex or one of its constituent parts.
	GO:0015483	long-chain fatty acid transporting porin activity	Enables the transfer of long-chain fatty acids from one side of the membrane to the other. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22. This transporter is a porin and so enables the energy independent passage of substances, sized less than 1000 Da, across a membrane. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
biological process
	GO:0006869	lipid transport	The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
	GO:0015909	long-chain fatty acid transport	The directed movement of long-chain fatty acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
	GO:0015718	monocarboxylic acid transport	The directed movement of monocarboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	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:0009279	cell outer membrane	A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
	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:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1t16)

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	1t16
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	FADL_ECOLI \| P10384	:	1t1l 2r4l 2r4n 2r4o 2r4p 2r88 2r89 2r8a 3dwn 3pf1 3pgr 3pgs 3pgu

1t1l	THE SAME PROTEIN (FADL) CRYSTALLIZED IN HEXAGONAL CRYSTAL FORM (P3121)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 13)

Sites (13, 13)

SS Bonds (0, 0)

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