3WBG - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   STRUCTURE OF THE HUMAN HEART FATTY ACID-BINDING PROTEIN IN COMPLEX WITH 1-ANILINONAPHTALENE-8-SULPHONIC ACID

Authors :   M. Hirose, S. Sugiyama, H. Ishida, M. Niiyama, D. Matsuoka, T. Hara, F. S E. Mizohata, S. Murakami, T. Inoue, S. Matsuoka, M. Murata

Date :   16 May 13 (Deposition) - 30 Oct 13 (Release) - 30 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

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

Reference :   M. Hirose, S. Sugiyama, H. Ishida, M. Niiyama, D. Matsuoka, T. Hara, E. Mizohata, S. Murakami, T. Inoue, S. Matsuoka, M. Murata
Structure Of The Human-Heart Fatty-Acid-Binding Protein 3 I Complex With The Fluorescent Probe 1-Anilinonaphthalene-8-Sulphonic Acid
J. Synchrotron Radiat. V. 20 923 2013
PubMed-ID: 24121341 | Reference-DOI: 10.1107/S0909049513021298

Molecule 1 - FATTY ACID-BINDING PROTEIN, HEART
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	FABP3
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	FATTY ACID-BINDING PROTEIN 3, HEART-TYPE FATTY ACID-BINDING PROTEIN, H-FABP, MAMMARY-DERIVED GROWTH INHIBITOR, MDGI, MUSCLE FATTY ACID-BINDING PROTEIN, M-FABP

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	2AN	4	Ligand/Ion	8-ANILINO-1-NAPHTHALENE SULFONATE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	2AN	1	Ligand/Ion	8-ANILINO-1-NAPHTHALENE SULFONATE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	2AN	1	Ligand/Ion	8-ANILINO-1-NAPHTHALENE SULFONATE

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	2AN	1	Ligand/Ion	8-ANILINO-1-NAPHTHALENE SULFONATE

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	2AN	1	Ligand/Ion	8-ANILINO-1-NAPHTHALENE SULFONATE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:19 , LEU A:23 , ALA A:33 , THR A:36 , SER A:55 , ASP A:76 , HOH A:334 , HOH A:336	BINDING SITE FOR RESIDUE 2AN A 201
2	AC2	SOFTWARE	LEU B:23 , ALA B:33 , SER B:55 , ASP B:76 , ARG B:78 , HOH B:344	BINDING SITE FOR RESIDUE 2AN B 201
3	AC3	SOFTWARE	SER C:55 , LYS C:58 , ALA C:75 , ARG C:126	BINDING SITE FOR RESIDUE 2AN C 201
4	AC4	SOFTWARE	SER D:55 , ARG D:126 , HOH D:334	BINDING SITE FOR RESIDUE 2AN D 201

(no "SS Bond" information available for 3WBG)

(no "Cis Peptide Bond" information available for 3WBG)

Asymmetric Unit (1, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_061165	K	53	R	FABPH_HUMAN	Polymorphism	2228194	A/B/C/D	K	52	R

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

Biological Unit 1 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_061165	K	53	R	FABPH_HUMAN	Polymorphism	2228194	A	K	52	R

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

Biological Unit 2 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_061165	K	53	R	FABPH_HUMAN	Polymorphism	2228194	B	K	52	R

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

Biological Unit 3 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_061165	K	53	R	FABPH_HUMAN	Polymorphism	2228194	C	K	52	R

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

Biological Unit 4 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_061165	K	53	R	FABPH_HUMAN	Polymorphism	2228194	D	K	52	R

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

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	FABPH_HUMAN	7-24	4	A:6-23 B:6-23 C:6-23 D:6-23

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	FABPH_HUMAN	7-24	1	A:6-23 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	FABPH_HUMAN	7-24	1	- B:6-23 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	FABPH_HUMAN	7-24	1	- - C:6-23 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FABP	PS00214	Cytosolic fatty-acid binding proteins signature.	FABPH_HUMAN	7-24	1	- - - D:6-23

Asymmetric Unit (4, 16)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.3a	ENST00000373713	3a	ENSE00001178232	chr1:31845923-31845789	135	FABPH_HUMAN	1-25	25	4	A:0-24 B:0-24 C:0-24 D:0-24	25 25 25 25
1.4b	ENST00000373713	4b	ENSE00000825256	chr1:31842404-31842232	173	FABPH_HUMAN	25-82	58	4	A:24-81 B:24-81 C:24-81 D:24-81	58 58 58 58
1.6	ENST00000373713	6	ENSE00000825255	chr1:31840341-31840240	102	FABPH_HUMAN	83-116	34	4	A:82-115 B:82-115 C:82-115 D:82-115	34 34 34 34
1.7d	ENST00000373713	7d	ENSE00001461361	chr1:31838786-31838472	315	FABPH_HUMAN	117-133	17	4	A:116-131 B:116-131 C:116-131 D:116-131	16 16 16 16

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:132
 aligned with FABPH_HUMAN | P05413 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
          FABPH_HUMAN     1 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 132
               SCOP domains d3wbga_ A: Muscle fatty acid binding protein (m-fabp)                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhheeeeeeeeehhhhhhhhh..hhhhhhhhhhh..eeeeeee..eeeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------R------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------FABP  PDB: A:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.3a  PDB: A:0-24   ---------------------------------------------------------Exon 1.6  PDB: A:82-115           Exon 1.7d        Transcript 1 (1)
           Transcript 1 (2) ------------------------Exon 1.4b  PDB: A:24-81 UniProt: 25-82                    -------------------------------------------------- Transcript 1 (2)
                 3wbg A   0 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 131
                                     9        19        29        39        49        59        69        79        89        99       109       119       129

Chain B from PDB  Type:PROTEIN  Length:132
 aligned with FABPH_HUMAN | P05413 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
          FABPH_HUMAN     1 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 132
               SCOP domains d3wbgb_ B: Muscle fatty acid binding protein (m-fabp)                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhheeeeeeeeehhhhhhhhh..hhhhhhhhhhh..eeeeeee..eeeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------R------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------FABP  PDB: B:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.3a  PDB: B:0-24   ---------------------------------------------------------Exon 1.6  PDB: B:82-115           Exon 1.7d        Transcript 1 (1)
           Transcript 1 (2) ------------------------Exon 1.4b  PDB: B:24-81 UniProt: 25-82                    -------------------------------------------------- Transcript 1 (2)
                 3wbg B   0 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 131
                                     9        19        29        39        49        59        69        79        89        99       109       119       129

Chain C from PDB  Type:PROTEIN  Length:132
 aligned with FABPH_HUMAN | P05413 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
          FABPH_HUMAN     1 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 132
               SCOP domains d3wbgc_ C: Muscle fatty acid binding protein (m-fabp)                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhh.eeeeeeeeehhhhhhhhh..hhhhhhhhh....eeeeee....eeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------R------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------FABP  PDB: C:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.3a  PDB: C:0-24   ---------------------------------------------------------Exon 1.6  PDB: C:82-115           Exon 1.7d        Transcript 1 (1)
           Transcript 1 (2) ------------------------Exon 1.4b  PDB: C:24-81 UniProt: 25-82                    -------------------------------------------------- Transcript 1 (2)
                 3wbg C   0 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 131
                                     9        19        29        39        49        59        69        79        89        99       109       119       129

Chain D from PDB  Type:PROTEIN  Length:132
 aligned with FABPH_HUMAN | P05413 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
          FABPH_HUMAN     1 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 132
               SCOP domains d3wbgd_ D: Muscle fatty acid binding protein (m-fabp)                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhheeeeeeeeehhhhhhhhh..hhhhhhhhh....eeeeeee..eeeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------R------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------FABP  PDB: D:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.3a  PDB: D:0-24   ---------------------------------------------------------Exon 1.6  PDB: D:82-115           Exon 1.7d        Transcript 1 (1)
           Transcript 1 (2) ------------------------Exon 1.4b  PDB: D:24-81 UniProt: 25-82                    -------------------------------------------------- Transcript 1 (2)
                 3wbg D   0 MVDAFLGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDILTLKTHSTFKNTEISFKLGVEFDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELIDGKLILTLTHGTAVCTRTYEKE 131
                                     9        19        29        39        49        59        69        79        89        99       109       119       129

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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: All beta proteins (24004)

Fold: Lipocalins (514)

Superfamily: Lipocalins (514)

Family: Fatty acid binding protein-like (183)

Protein domain: Muscle fatty acid binding protein (m-fabp) (7)

Human (Homo sapiens) [TaxId: 9606] (6)

1a	d3wbga_	A:
1b	d3wbgb_	B:
1c	d3wbgc_	C:
1d	d3wbgd_	D:

(no "CATH Domain" information available for 3WBG)

(no "Pfam Domain" information available for 3WBG)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (FABPH_HUMAN | P05413)

molecular function
	GO:0008092	cytoskeletal protein binding	Interacting selectively and non-covalently with any protein component of any cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton).
	GO:0005504	fatty acid binding	Interacting selectively and non-covalently with fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
	GO:0050543	icosatetraenoic acid binding	Interacting selectively and non-covalently with icosatetraenoic acid, any straight-chain fatty acid with twenty carbon atoms and four double bonds per molecule.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0036041	long-chain fatty acid binding	Interacting selectively and non-covalently with a long-chain fatty acid. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
	GO:0005324	long-chain fatty acid transporter activity	Enables the directed movement of long-chain fatty acids into, out of or within a cell, or between cells. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
	GO:0070538	oleic acid binding	Interacting selectively and non-covalently with oleic acid, the 18-carbon monounsaturated fatty acid (9Z)-octadec-9-enoic acid.
	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: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:0042632	cholesterol homeostasis	Any process involved in the maintenance of an internal steady state of cholesterol within an organism or cell.
	GO:0006631	fatty acid metabolic process	The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
	GO:0044539	long-chain fatty acid import	The directed movement of long-chain fatty acids into a cell or organelle. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
	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:0008285	negative regulation of cell proliferation	Any process that stops, prevents or reduces the rate or extent of cell proliferation.
	GO:0055091	phospholipid homeostasis	Any process involved in the maintenance of an internal steady state of phospholipid within an organism or cell.
	GO:0071073	positive regulation of phospholipid biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of phospholipids.
	GO:0046320	regulation of fatty acid oxidation	Any process that modulates the frequency, rate or extent of fatty acid oxidation.
	GO:0042493	response to drug	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
	GO:0070542	response to fatty acid	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a fatty acid stimulus.
	GO:0032868	response to insulin	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an insulin stimulus. Insulin is a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms.
	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.
	GO:0019433	triglyceride catabolic process	The chemical reactions and pathways resulting in the breakdown of a triglyceride, any triester of glycerol.
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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0016528	sarcoplasm	The cytoplasm of a muscle cell; includes the sarcoplasmic reticulum.

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	3wbg
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	FABPH_HUMAN \| P05413
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(no "Related Entries Specified in the PDB File" available for 3WBG)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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Exons (4, 16)

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