4TMT - JenaLib

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Title :   TRANSLATION INITIATION FACTOR EIF5B (517-858) MUTANT D533A FROM C. THERMOPHILUM, BOUND TO GTPGAMMAS

Authors :   B. Kuhle, R. Ficner

Date :   02 Jun 14 (Deposition) - 24 Sep 14 (Release) - 24 Feb 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.58

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

Keywords :   Translation Factor, Initiation, Gtpase, Monovalent Cation, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Kuhle, R. Ficner
A Monovalent Cation Acts As Structural And Catalytic Cofactor In Translational Gtpases.
Embo J. V. 33 2547 2014
PubMed-ID: 25225612 | Reference-DOI: 10.15252/EMBJ.201488517

Molecule 1 - EIF5B
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	ROSETTA2
	Expression System Vector Type	:	PLASMID
	Fragment	:	G DOMAIN AND DOMAIN II
	Mutation	:	YES
	Organism Scientific	:	CHAETOMIUM THERMOPHILUM
	Organism Taxid	:	209285

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 20)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID
2	CL	2	Ligand/Ion	CHLORIDE ION
3	DTT	1	Ligand/Ion	2,3-DIHYDROXY-1,4-DITHIOBUTANE
4	EDO	12	Ligand/Ion	1,2-ETHANEDIOL
5	GSP	2	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
6	MG	2	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (3, 7)

No.	Name	Count	Type	Full Name
1	ACY	-1	Ligand/Ion	ACETIC ACID
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	DTT	1	Ligand/Ion	2,3-DIHYDROXY-1,4-DITHIOBUTANE
4	EDO	5	Ligand/Ion	1,2-ETHANEDIOL
5	GSP	1	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
6	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (3, 9)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	DTT	-1	Ligand/Ion	2,3-DIHYDROXY-1,4-DITHIOBUTANE
4	EDO	7	Ligand/Ion	1,2-ETHANEDIOL
5	GSP	1	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
6	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 3 (4, 16)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	DTT	1	Ligand/Ion	2,3-DIHYDROXY-1,4-DITHIOBUTANE
4	EDO	12	Ligand/Ion	1,2-ETHANEDIOL
5	GSP	2	Ligand/Ion	5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
6	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (20, 20)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ALA A:533 , THR A:534 , GLY A:535 , LYS A:536 , THR A:537 , LYS A:538 , GLN A:549 , GLY A:555 , ILE A:556 , THR A:557 , GLY A:597 , ASN A:648 , LYS A:649 , ASP A:651 , ARG A:652 , SER A:716 , ALA A:717 , HIS A:718 , MG A:902 , HOH A:1064 , HOH A:1065 , HOH A:1070 , HOH A:1232	binding site for residue GSP A 901
02	AC2	SOFTWARE	THR A:537 , THR A:557 , GSP A:901 , HOH A:1064 , HOH A:1065	binding site for residue MG A 902
03	AC3	SOFTWARE	GLY A:694 , PHE A:695 , ASN A:696 , ARG A:708 , TYR A:709 , HOH A:1002	binding site for residue EDO A 903
04	AC4	SOFTWARE	LYS A:542 , ILE A:543 , GLN A:545 , LYS A:573 , ASN A:661 , HOH A:1024	binding site for residue EDO A 904
05	AC5	SOFTWARE	LYS A:704 , ASN A:705 , PHE A:706 , ALA A:707 , HOH A:1013 , HOH A:1254 , HOH A:1304	binding site for residue EDO A 905
06	AC6	SOFTWARE	ILE A:621 , MET A:622 , HIS A:623 , ARG A:682 , GLN A:685 , VAL A:686 , GLN A:689 , HOH A:1228	binding site for residue EDO A 906
07	AC7	SOFTWARE	GLU A:599 , SER A:600 , SER A:602 , HOH A:1200 , HOH A:1241 , LYS B:571 , HOH B:1176	binding site for residue EDO A 907
08	AC8	SOFTWARE	PRO A:642 , PHE A:643 , ARG A:737 , HOH A:1267	binding site for residue CL A 908
09	AC9	SOFTWARE	CYS A:734 , GLN A:735 , GLU A:736 , MET A:738 , SER A:740 , MET A:743 , HOH A:1202 , HOH A:1293	binding site for residue DTT A 909
10	AD1	SOFTWARE	VAL B:532 , ALA B:533 , THR B:534 , GLY B:535 , LYS B:536 , THR B:537 , LYS B:538 , GLN B:549 , GLY B:555 , ILE B:556 , THR B:557 , GLY B:597 , ASN B:648 , LYS B:649 , ASP B:651 , ARG B:652 , SER B:716 , ALA B:717 , HIS B:718 , MG B:902 , HOH B:1071 , HOH B:1072 , HOH B:1086 , HOH B:1203 , HOH B:1214 , HOH B:1237	binding site for residue GSP B 901
11	AD2	SOFTWARE	THR B:537 , THR B:557 , GSP B:901 , HOH B:1071 , HOH B:1072	binding site for residue MG B 902
12	AD3	SOFTWARE	LEU B:521 , EDO B:904 , HOH B:1095 , HOH B:1278	binding site for residue EDO B 903
13	AD4	SOFTWARE	ASP B:519 , EDO B:903 , HOH B:1095 , HOH B:1278 , HOH B:1313	binding site for residue EDO B 904
14	AD5	SOFTWARE	ILE B:560 , GLU B:754 , ASP B:766 , ARG B:806 , HOH B:1098	binding site for residue EDO B 905
15	AD6	SOFTWARE	PRO B:799 , GLU B:804 , LEU B:805 , ILE B:807 , GLY B:809 , GLN B:810 , TYR B:811 , HOH B:1141 , HOH B:1354	binding site for residue EDO B 906
16	AD7	SOFTWARE	LYS B:687 , ASN B:696 , SER B:697 , GLU B:698 , HOH B:1090 , HOH B:1213	binding site for residue EDO B 907
17	AD8	SOFTWARE	VAL B:577 , ASN B:578 , LYS B:579 , ASP B:580 , HOH B:1183	binding site for residue EDO B 908
18	AD9	SOFTWARE	LEU B:748 , GLY B:772 , ILE B:773 , ARG B:775 , HOH B:1167 , HOH B:1358	binding site for residue EDO B 909
19	AE1	SOFTWARE	TYR B:564 , PRO B:801 , GLN B:821 , HOH B:1100 , HOH B:1252	binding site for residue ACY B 910
20	AE2	SOFTWARE	ILE B:543 , ARG B:544 , GLN B:545 , LYS B:573	binding site for residue CL B 911

(no "SS Bond" information available for 4TMT)

Asymmetric Unit

No.	Residues
1	Ala A:819	-	Ala A:820
2	Ala B:819	-	Ala B:820

(no "SAP(SNP)/Variant" information available for 4TMT)

(no "PROSITE Motif" information available for 4TMT)

(no "Exon" information available for 4TMT)

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:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhh...eeeeee....hhhhhhhhhhh.hhhhhhhhhh....eeeeeehhhhhhhhhhhh..........eeeeee...hhhhhhhhhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhh..eeeeee.hhhh.........hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh...eee.hhh......eeeeee......hhhhhhhhhhhhhhhh.hhhhhh....eeeeeeeeee...eeeeeeeeee.eee...eeeeee..eeeeee..eeee.............ee..eee..eeeeee............eee.....hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4tmt A 516 MNKDNLRSPICCILGHVATGKTKLLDKIRQTNVQEGEAGGITQQIGATYFPVEAIKQKTAVVNKDGKFEFKVPGLLIIDTPGHESFSNLRSRGSSLCNIAILVVDIMHGLEPQTIESLRLLRERKTPFVVALNKIDRLYGWKKIENNGFRESFALQNKAVQNEFRNRLDQVKLQFAEQGFNSELFYENKNFARYVSLVPTSAHTGEGIPDMLKLIVQLCQERMASSLMYLSELQATVLEVKAIEGFGVTIDVILSNGILREGDRIVLCGLEGPIKTNIRALLTPAPMRELRIKGQYIHHKEVKAAQGVKISAPGLEGAIAGSRLLVVGPDDDEEELEEEVES 857
                                   525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855

Chain B from PDB  Type:PROTEIN  Length:345
                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeee....hhhhhhhhhhh.hhhhhhhhhh....eeeeeehhhhhhhhhhhh..........eeeeee...hhhhhhhhhhhhhhh.eeeeeee.....hhhhhhhhhhhhhh...eeeeeehhhhh.........hhhhhhh..hhhhhhhhhhhhhhhhhhhhhh...eee..........eeeee.......hhhhhhhhhhhhhhhh.hhhhhh....eeeeeeeeee...eeeeeeeeee.eee...eeee......eeee..eeeee...........eee..eee..eeeeee...........eeee.....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tmt B 514 GHMNKDNLRSPICCILGHVATGKTKLLDKIRQTNVQEGEAGGITQQIGATYFPVEAIKQKTAVVNKDGKFEFKVPGLLIIDTPGHESFSNLRSRGSSLCNIAILVVDIMHGLEPQTIESLRLLRERKTPFVVALNKIDRLYGWKKIENNGFRESFALQNKAVQNEFRNRLDQVKLQFAEQGFNSELFYENKNFARYVSLVPTSAHTGEGIPDMLKLIVQLCQERMASSLMYLSELQATVLEVKAIEGFGVTIDVILSNGILREGDRIVLCGLEGPIKTNIRALLTPAPMRELRIKGQYIHHKEVKAAQGVKISAPGLEGAIAGSRLLVVGPDDDEEELEEEVESD 858
                                   523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853

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 '\|'

(no "SCOP Domain" information available for 4TMT)

(no "CATH Domain" information available for 4TMT)

(no "Pfam Domain" information available for 4TMT)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Ala A:819 - Ala A:820	[ RasMol ]
		Ala B:819 - Ala B:820	[ RasMol ]

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	4tmt
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	IF2P_CHATD \| G0S8G9	:	4n3g 4n3n 4ncl 4ncn 4tmv 4tmw 4tmx 4tmz 4tn1

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 20)

Sites (20, 20)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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Gene Ontology (9, 9)

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