1P9Y - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   RIBOSOME BINDING OF E. COLI TRIGGER FACTOR MUTANT F44L.

Authors :   O. Kristensen, M. Gajhede

Date :   13 May 03 (Deposition) - 16 Dec 03 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

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

Keywords :   Alpha-Beta Protein, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. Kristensen, M. Gajhede
Chaperone Binding At The Ribosomal Exit Tunnel.
Structure V. 11 1547 2003
PubMed-ID: 14656439 | Reference-DOI: 10.1016/J.STR.2003.11.003
(for further references see the PDB file header)

Molecule 1 - TRIGGER FACTOR
	Chains	:	A, B
	EC Number	:	5.2.1.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	RIBOSOME BINDING DOMAIN
	Gene	:	TIG
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	TF

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 3)

No.	Name	Count	Type	Full Name
1	ACY	3	Ligand/Ion	ACETIC ACID

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	ACY	2	Ligand/Ion	ACETIC ACID

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY B:68 , MET B:71 , SER B:72	BINDING SITE FOR RESIDUE ACY B 1001
2	AC2	SOFTWARE	GLY A:68 , SER A:72 , HOH A:1038	BINDING SITE FOR RESIDUE ACY A 1002
3	AC3	SOFTWARE	LEU B:11 , TYR B:112	BINDING SITE FOR RESIDUE ACY B 1003

(no "SS Bond" information available for 1P9Y)

(no "Cis Peptide Bond" information available for 1P9Y)

(no "SAP(SNP)/Variant" information available for 1P9Y)

(no "PROSITE Motif" information available for 1P9Y)

(no "Exon" information available for 1P9Y)

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:117
 aligned with TIG_ECOLI | P0A850 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
            TIG_ECOLI     1 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKVRIDGFRKGKVPMNIVAQRYGASVRQDVLGDLMSRNFIDAIIKEKINPAGAPTYVPGEYKLGEDFTYSVEFEVYPEVEL 117
               SCOP domains d1p9ya_ A: Trigger factor ribosome-binding domain                                                                     SCOP domains
               CATH domains 1p9yA00 A:1-117 Trigger factor ribosome binding domain; domain 1                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....eeeeeeeehhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee........eeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1p9y A   1 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKVRIDGLRKGKVPMNIVAQRYGASVRQDVLGDLMSRNFIDAIIKEKINPAGAPTYVPGEYKLGEDFTYSVEFEVYPEVEL 117
                                    10        20        30        40        50        60        70        80        90       100       110

Chain B from PDB  Type:PROTEIN  Length:117
 aligned with TIG_ECOLI | P0A850 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:117
                                    10        20        30        40        50        60        70        80        90       100       110       
            TIG_ECOLI     1 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKVRIDGFRKGKVPMNIVAQRYGASVRQDVLGDLMSRNFIDAIIKEKINPAGAPTYVPGEYKLGEDFTYSVEFEVYPEVEL 117
               SCOP domains d1p9yb_ B: Trigger factor ribosome-binding domain                                                                     SCOP domains
               CATH domains 1p9yB00 B:1-117 Trigger factor ribosome binding domain; domain 1                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....eeeeeeeehhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeee........eeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1p9y B   1 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKVRIDGLRKGKVPMNIVAQRYGASVRQDVLGDLMSRNFIDAIIKEKINPAGAPTYVPGEYKLGEDFTYSVEFEVYPEVEL 117
                                    10        20        30        40        50        60        70        80        90       100       110

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: Ribosome binding domain-like (8)

Superfamily: Trigger factor ribosome-binding domain (5)

Family: Trigger factor ribosome-binding domain (5)

Protein domain: Trigger factor ribosome-binding domain (5)

Escherichia coli [TaxId: 562] (4)

1a	d1p9ya_	A:
1b	d1p9yb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: Trigger factor ribosome binding domain; domain 1 (4)

Escherichia coli. Organism_taxid: 562. (2)

1a	1p9yA00	A:1-117
1b	1p9yB00	B:1-117

(no "Pfam Domain" information available for 1P9Y)

Asymmetric Unit(hide GO term definitions)

Chain A,B (TIG_ECOLI | P0A850)

molecular function
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	GO:0003755	peptidyl-prolyl cis-trans isomerase activity	Catalysis of the reaction: peptidyl-proline (omega=180) = peptidyl-proline (omega=0).
	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:0044183	protein binding involved in protein folding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules) that contributes to the process of protein folding.
	GO:0043022	ribosome binding	Interacting selectively and non-covalently with any part of a ribosome.
biological process
	GO:0051083	'de novo' cotranslational protein folding	The process of assisting in the correct noncovalent assembly of the ribosome-bound nascent chains of a multidomain protein whilst other parts of the protein are still being translated.
	GO:0007049	cell cycle	The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
	GO:0051301	cell division	The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
	GO:0061077	chaperone-mediated protein folding	The process of inhibiting aggregation and assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure that is dependent on interaction with a chaperone.
	GO:0006457	protein folding	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
	GO:0000413	protein peptidyl-prolyl isomerization	The modification of a protein by cis-trans isomerization of a proline residue.
	GO:0015031	protein transport	The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0043335	protein unfolding	The process of assisting in the disassembly of non-covalent linkages in a protein or protein aggregate, often where the proteins are in a non-functional or denatured state.
	GO:0009408	response to heat	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 heat stimulus, a temperature stimulus above the optimal temperature for that organism.
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:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	TIG_ECOLI \| P0A850	:	1l1p 1oms 1w26 1w2b 2mlx 2mly 2mlz 2vrh 4urd

1oms	SELENO-METHIONINE SUBSTITUTED NATIVE PROTEIN.

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