1JNE - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE OF IMAGINAL DISC GROWTH FACTOR-2

Authors :   P. F. Varela, A. S. Llera, R. A. Mariuzza, J. Tormo

Date :   23 Jul 01 (Deposition) - 01 May 02 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym./Biol. Unit : A

Keywords :   Idgf, Imaginal Disc, Growth Factor, Chitinase, Insulin Receptor, Heparin, Hormone-Growth Factor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. F. Varela, A. S. Llera, R. A. Mariuzza, J. Tormo
Crystal Structure Of Imaginal Disc Growth Factor-2. A Membe Of A New Family Of Growth-Promoting Glycoproteins From Drosophila Melanogaster.
J. Biol. Chem. V. 277 13229 2002
PubMed-ID: 11821393 | Reference-DOI: 10.1074/JBC.M110502200

Molecule 1 - IMAGINAL DISC GROWTH FACTOR-2
	Chains	:	A
	Fragment	:	IMAGINAL DISC GROWTH FACTOR-2
	Organism Common	:	FRUIT FLY
	Organism Scientific	:	DROSOPHILA MELANOGASTER
	Organism Taxid	:	7227

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 4)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:200 , THR A:202 , HIS A:252 , PHE A:257 , GLN A:258 , TYR A:261 , HOH A:1033 , HOH A:1079 , HOH A:1222 , NAG A:3101	BINDING SITE FOR RESIDUE NAG A 3100
2	AC2	SOFTWARE	PHE A:257 , GLN A:361 , HOH A:1216 , HOH A:1246 , NAG A:3100 , BMA A:3102	BINDING SITE FOR RESIDUE NAG A 3101
3	AC3	SOFTWARE	LYS A:334 , HOH A:1376 , NAG A:3101 , MAN A:3103	BINDING SITE FOR RESIDUE BMA A 3102
4	AC4	SOFTWARE	HIS A:242 , ALA A:251 , HOH A:1296 , HOH A:1315 , BMA A:3102	BINDING SITE FOR RESIDUE MAN A 3103

Asymmetric/Biological Unit

No.	Residues
1	A:6	-	A:33
2	A:322	-	A:405

Asymmetric/Biological Unit

No.	Residues
1	Gly A:39	-	Tyr A:40
2	Pro A:295	-	Val A:296
3	Phe A:394	-	Asp A:395

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

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

(no "Exon" information available for 1JNE)

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:400
 aligned with IDGF2_DROME | Q9V3D4 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:419
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431         
          IDGF2_DROME    22 SNLVCYYDSSSYTREGLGKLLNPDLEIALQFCSHLVYGYAGLRGENLQAYSMNENLDIYKHQFSEVTSLKRKYPHLKVLLSVGGDHDIDPDHPNKYIDLLEGEKVRQIGFIRSAYDLVKTYGFDGLDLAYQFPKNKPRKVHGDLGLAWKSIKKLFTGDFIVDPHAALHKEQFTALVRDVKDSLRADGFLLSLTVLPNVNSTWYFDIPALNGLVDFVNLATFDFLTPARNPEEADYSAPIYHPDGSKDRLAHLNADFQVEYWLSQGFPSNKINLGVATYGNAWKLTKDSGLEGVPVVPETSGPAPEGFQSQKPGLLSYAEICGKLSNPQNQFLKGNESPLRRVSDPTKRFGGIAYRPVDGQITEGIWVSYDDPDSASNKAAYARVKNLGGVALFDLSYDDFRGQCSGDKYPILRAIKYRL 440
               SCOP domains d1jnea1 A:2-278,A:371-420 Imaginal disc growth factor-2                                                                                                                                                                                                                              d1jnea2 A:279-370 Imaginal disc growth factor-2                                             d1jnea1 A:2-278,A:371-420                          SCOP domains
               CATH domains 1jneA01 A:2-277,A:372-420 Glycosidases                                                                                                                                                                                                                                              1jneA02 A:278-371  [code=3.10.50.10, no name defined]                                         1jneA01 A:2-277,A:372-420 Glycosidases            CATH domains
               Pfam domains Glyco_hydro_18-1jneA01 A:2-399                                                                                                                                                                                                                                                                                                                                                                                --------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhh.hhhhhhhhhhh..eeeeeeeee......eee.hhhhhh..hhhhhhhhhhhh....eeeeeee..........hhhhhhhh.hhhhhhhhhhhhhhhhhhh...eeeee...........-------------------....hhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhh....eeee..................................hhhhhhhhhhhh..hhh.eeeeee.eeeeee.hhhhh........................eeehhhhhh....hhhhhhhhhhh..eee........eeeee.........eeeee.hhhhhhhhhhhhhhh...eeeeehhhhh..........hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jne A   2 SNLVCYYDSSSYTREGLGKLLNPDLEIALQFCSHLVYGYAGLRGENLQAYSMNENLDIYKHQFSEVTSLKRKYPHLKVLLSVGGDHDIDPDHPNKYIDLLEGEKVRQIGFIRSAYELVKTYGFDGLDLAYQFPKNKPRKV-------------------IVDPHAALHKEQFTALVRDVKDSLRADGFLLSLTVLPNVNSTWYFDIPALNGLVDFVNLATFDFLTPARNPEEADYSAPIYHPDGSKDRLAHLNADFQVEYWLSQGFPSNKINLGVATYGNAWKLTKDSGLEGVPVVPETSGPAPEGFQSQKPGLLSYAEICGKLSNPQNQFLKGNESPLRRVSDPTKRFGGIAYRPVDGQITEGIWVSYDDPDSASNKAAYARVKNLGGVALFDLSYDDFRGQCSGDKYPILRAIKYRL 420
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141         -       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411         
                                                                                                                                                                     141                 161

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Glycosidases (843)

Fruit fly (Drosophila melanogaster) (2)

1jneA01

A:2-277,A:372-420

Architecture: Roll (3276)

Topology: Chitinase A; domain 3 (225)

Homologous Superfamily: [code=3.10.50.10, no name defined] (121)

Fruit fly (Drosophila melanogaster) (2)

1jneA02

A:278-371

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Glyco_hydro_tim (488)

Family: Glyco_hydro_18 (72)

Drosophila melanogaster (Fruit fly) (2)

Glyco_hydro_18-1jneA01

A:2-399

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (IDGF2_DROME | Q9V3D4)

molecular function
	GO:0008061	chitin binding	Interacting selectively and non-covalently with chitin, a linear polysaccharide consisting of beta-(1->4)-linked N-acetyl-D-glucosamine residues.
	GO:0004568	chitinase activity	Catalysis of the hydrolysis of (1->4)-beta linkages of N-acetyl-D-glucosamine (GlcNAc) polymers of chitin and chitodextrins.
	GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	Catalysis of the hydrolysis of any O-glycosyl bond.
	GO:0008084	imaginal disc growth factor receptor binding	Interacting selectively and non-covalently with an imaginal disc growth factor receptor.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0006032	chitin catabolic process	The chemical reactions and pathways resulting in the breakdown of chitin, a linear polysaccharide consisting of beta-(1->4)-linked N-acetyl-D-glucosamine residues.
	GO:0007444	imaginal disc development	The process whose specific outcome is the progression of the imaginal disc over time, from its formation to the metamorphosis to form adult structures. Imaginal discs are epithelial infoldings in the larvae of holometabolous insects that develop into adult structures (legs, antennae, wings, etc.).
	GO:0007275	multicellular organism development	The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Gly A:39 - Tyr A:40	[ RasMol ]
		Phe A:394 - Asp A:395	[ RasMol ]
		Pro A:295 - Val A:296	[ RasMol ]

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(no "Related Entries Specified in the PDB File" available for 1JNE)

Description

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Ligands, Modified Residues, Ions (3, 4)

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SS Bonds (2, 2)

Cis Peptide Bonds (3, 3)

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