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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF TRANSLATION INITIATION FACTOR EIF4E FROM WHEAT

Authors :   A. F. Monzingo, J. Sadow, S. Dhaliwal, A. Lyon, D. W. Hoffman, J. D. Robertus, K. S. Browning

Date :   15 Sep 06 (Deposition) - 12 Jun 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

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

Keywords :   Eukaryotic Initiation Factor 4E, Eif4E, Translation Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. F. Monzingo, S. Dhaliwal, A. Dutt-Chaudhuri, A. Lyon, J. H. Sadow, D. W. Hoffman, J. D. Robertus, K. S. Browning
The Structure Of Eukaryotic Translation Initiation Factor-4E From Wheat Reveals A Novel Disulfide Bond.
Plant Physiol. V. 143 1504 2007
PubMed-ID: 17322339 | Reference-DOI: 10.1104/PP.106.093146
(for further references see the PDB file header)

Molecule 1 - EUKARYOTIC TRANSLATION INITIATION FACTOR 4E-1
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 39-215
	Organism Common	:	BREAD WHEAT
	Organism Scientific	:	TRITICUM AESTIVUM
	Organism Taxid	:	4565
	Synonym	:	EIF4E-1, EIF-4E-1, MRNA CAP-BINDING PROTEIN, EIF- 4F 25 KDA SUBUNIT, EIF-4F P26 SUBUNIT

		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 2IDR)

(no "Site" information available for 2IDR)

Asymmetric Unit

No.	Residues
1	A:113	-	A:151
2	B:113	-	B:151

Asymmetric Unit

No.	Residues
1	Gly A:208	-	Pro A:209
2	Gly B:208	-	Pro B:209

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IF4E	PS00813	Eukaryotic initiation factor 4E signature.	IF4E1_WHEAT	96-119	2	A:96-119 B:96-119

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IF4E	PS00813	Eukaryotic initiation factor 4E signature.	IF4E1_WHEAT	96-119	1	A:96-119 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IF4E	PS00813	Eukaryotic initiation factor 4E signature.	IF4E1_WHEAT	96-119	1	- B:96-119

(no "Exon" information available for 2IDR)

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
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Chain A from PDB  Type:PROTEIN  Length:177
 aligned with IF4E1_WHEAT | P29557 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:177
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       
          IF4E1_WHEAT    39 AHPLENAWTFWFDNPQGKSRQVAWGSTIHPIHTFSTVEDFWGLYNNIHNPSKLNVGADFHCFKNKIEPKWEDPICANGGKWTISCGRGKSDTFWLHTLLAMIGEQFDFGDEICGAVVSVRQKQERVAIWTKNAANEAAQISIGKQWKEFLDYKDSIGFIVHEDAKRSDKGPKNRYTV 215
               SCOP domains d2idra_ A: automated matches                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeee.......eee..eee..eeeeeehhhhhhhhh...hhhhh....eeeeee.hhh...........eeeeeee....hhhhhhhhhhhhhh....hhh.eeeeeeee....eeeeeee....hhhhhhhhhhhhhhhhh.....eeee.hhhhh........ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------IF4E  PDB: A:96-119     ------------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2idr A  39 AHPLENAWTFWFDNPQGKSRQVAWGSTIHPIHTFSTVEDFWGLYNNIHNPSKLNVGADFHCFKNKIEPKWEDPICANGGKWTISCGRGKSDTFWLHTLLAMIGEQFDFGDEICGAVVSVRQKQERVAIWTKNAANEAAQISIGKQWKEFLDYKDSIGFIVHEDAKRSDKGPKNRYTV 215
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208

Chain B from PDB  Type:PROTEIN  Length:177
 aligned with IF4E1_WHEAT | P29557 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:177
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       
          IF4E1_WHEAT    39 AHPLENAWTFWFDNPQGKSRQVAWGSTIHPIHTFSTVEDFWGLYNNIHNPSKLNVGADFHCFKNKIEPKWEDPICANGGKWTISCGRGKSDTFWLHTLLAMIGEQFDFGDEICGAVVSVRQKQERVAIWTKNAANEAAQISIGKQWKEFLDYKDSIGFIVHEDAKRSDKGPKNRYTV 215
               SCOP domains d2idrb_ B: automated matches                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeee.......eee..eee..eeeeeehhhhhhhhh...hhhhh....eeeeee.hhh...........eeeeeee....hhhhhhhhhhhhhh....hhh.eeeeeeee....eeeeeee....hhhhhhhhhhhhhhhhh....eeeee.hhhhh........eee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------IF4E  PDB: B:96-119     ------------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2idr B  39 AHPLENAWTFWFDNPQGKSRQVAWGSTIHPIHTFSTVEDFWGLYNNIHNPSKLNVGADFHCFKNKIEPKWEDPICANGGKWTISCGRGKSDTFWLHTLLAMIGEQFDFGDEICGAVVSVRQKQERVAIWTKNAANEAAQISIGKQWKEFLDYKDSIGFIVHEDAKRSDKGPKNRYTV 215
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208

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: Alpha and beta proteins (a+b) (23004)

Fold: eIF4e-like (28)

Superfamily: eIF4e-like (28)

Family: automated matches (10)

Protein domain: automated matches (10)

Wheat (Triticum aestivum) [TaxId: 4565] (2)

1a	d2idra_	A:
1b	d2idrb_	B:

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

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (IF4E1_WHEAT | P29557)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003743	translation initiation factor activity	Functions in the initiation of ribosome-mediated translation of mRNA into a polypeptide.
biological process
	GO:0006417	regulation of translation	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
	GO:0006413	translational initiation	The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA or circRNA, and an initiation complex that contains the first aminoacyl-tRNA.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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(no "Sites" information available for 2idr)

	Cis Peptide Bonds
		Gly A:208 - Pro A:209	[ RasMol ]
		Gly B:208 - Pro B:209	[ RasMol ]

Biological Units
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		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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	IF4E1_WHEAT \| P29557	:	2idv

Description

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Ligands, Modified Residues, Ions (0, 0)

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SS Bonds (2, 2)

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