2R89 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE LONG-CHAIN FATTY ACID TRANSPORTER FADL MUTANT DELTA N3

Authors :   E. M. Hearn, D. R. Patel, B. W. Lepore, M. Indic, B. Van Den Berg

Date :   10 Sep 07 (Deposition) - 23 Sep 08 (Release) - 06 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.40

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

Keywords :   Beta Barrel, Outer Membrane Protein, Lipid Transport, Phage Recognition, Transmembrane, Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. W. Lepore, M. Indic, H. Pham, E. M. Hearn, D. R. Patel, B. Van Den Ber
From The Cover: Ligand-Gated Diffusion Across The Bacterial Outer Membrane.
Proc. Natl. Acad. Sci. Usa V. 108 10121 2011
PubMed-ID: 21593406 | Reference-DOI: 10.1073/PNAS.1018532108
(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
	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)

(no "Ligand,Modified Residues,Ions" information available for 2R89)

(no "Site" information available for 2R89)

(no "SS Bond" information available for 2R89)

(no "Cis Peptide Bond" information available for 2R89)

(no "SAP(SNP)/Variant" information available for 2R89)

(no "PROSITE Motif" information available for 2R89)

(no "Exon" information available for 2R89)

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:363
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:420
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446
           FADL_ECOLI    27 GFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 446
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2   r89A00 A:5-421 Outer membrane protein transport protein (OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .---...hhhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeeeee...............eeeeeeeeeee....eeeeeeee...eeeee............eeeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeee...hhhhhhhhhh......hhhhhhhhh.........eeeeeeeeeeeeeeeee..eeee..eeeeeeee..eee..-------------------------------..eee.eeeeeeeeeeee..eeeeeeeeeee..-----------------------.eeeeeeeeee.....eeeeeeeeee....hhhhh........eeeeeeeeeeeee..eeeeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2r89 A   5 G---NEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKTAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDF-------------------------------LTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWS-----------------------DAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 421
                            |   |   11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231   |     -         -         -     | 271       281       291       | -         -         - |     331       341       351       361       371       381       391       401       411       421
                            |   6                                                                                                                                                                                                                                  235                             267                             299                     323                                                                                                  
                            5

Chain B from PDB  Type:PROTEIN  Length:363
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:420
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446
           FADL_ECOLI    27 GFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 446
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2   r89B00 B:5-421 Outer membrane protein transport protein (OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                        CATH domains
           Pfam domains (1) -   Toluene_X-2r89B01 B:6-421                                                                                                                                                                                                                                                                                                                                                                                                        Pfam domains (1)
           Pfam domains (2) -   Toluene_X-2r89B02 B:6-421                                                                                                                                                                                                                                                                                                                                                                                                        Pfam domains (2)
         Sec.struct. author .---...hhhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeeeee...............eeeeeeeeeee....eeeeeeee...eeeee............eeeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeee...hhhhhhhhhh......hhhhhhhhh.........eeeeeeeeeeeeeeeee..eeee..eeeeeeee..eee..-------------------------------..eee.eeeeeeeeeeee..eeeeeeeeeee..-----------------------.eeeeeeeeee.....eeeeeeeeee....hhhhh........eeeeeeeeeeeee..eeeeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2r89 B   5 G---NEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKTAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDF-------------------------------LTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWS-----------------------DAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 421
                            |   |   11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231   |     -         -         -     | 271       281       291       | -         -         - |     331       341       351       361       371       381       391       401       411       421
                            5   6                                                                                                                                                                                                                                  235                             267                             299                     323

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 2R89)

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	2r89A00	A:5-421
1b	2r89B00	B:5-421

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: MBB (97)

Family: Toluene_X (12)

Escherichia coli (strain K12) (12)

1a	Toluene_X-2r89B01	B:6-421
1b	Toluene_X-2r89B02	B:6-421

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.

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Biological Units
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	2r89
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UniProtKB/Swiss-Prot
	FADL_ECOLI \| P10384	:	1t16 1t1l 2r4l 2r4n 2r4o 2r4p 2r88 2r8a 3dwn 3pf1 3pgr 3pgs 3pgu

1t16	CRYSTAL STRUCTURE OF THE BACTERIAL FATTY ACID TRANSPORTER FADL (WILD-TYPE, MONOCLINIC SPACE GROUP P21)
1t1l	CRYSTAL STRUCTURE OF THE BACTERIAL FATTY ACID TRANSPORTER FADL (WILD-TYPE, HEXAGONAL SPACE GROUP P3121)
2r4l	FADL MUTANT P34A
2r4m	FADL MUTANT A77E/S100R
2r4n	FADL MUTANT N33A
2r4o	FADL MUTANT DELTA NPA
2r4p	FADL MUTANT G212E
2r88	FADL MUTANT DELTA S3 KINK
2r8a	FADL MUTANT DELTA N8
3dwn	FADL MUTANT A77E/S100R
3dwo	FADL HOMOLOGUE IN PSEUDOMONAS AERUGINOSA

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