1T11 - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   TRIGGER FACTOR

Authors :   A. V. Ludlam, B. A. Moore, Z. Xu

Date :   14 Apr 04 (Deposition) - 21 Sep 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Helix-Turn-Helix, Four-Helix-Bundle, Ppiase, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. V. Ludlam, B. A. Moore, Z. Xu
The Crystal Structure Of Ribosomal Chaperone Trigger Factor From Vibrio Cholerae.
Proc. Natl. Acad. Sci. Usa V. 101 13436 2004
PubMed-ID: 15353602 | Reference-DOI: 10.1073/PNAS.0405868101
(for further references see the PDB file header)

Molecule 1 - TRIGGER FACTOR
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PSJ4 (MODIFIED PET21A)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	TF TRUNCATION (RESIDUES 1-389)
	Gene	:	TIG, VC1923
	Organism Scientific	:	VIBRIO CHOLERAE
	Organism Taxid	:	666
	Synonym	:	TF

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1T11)

(no "Site" information available for 1T11)

(no "SS Bond" information available for 1T11)

(no "Cis Peptide Bond" information available for 1T11)

(no "SAP(SNP)/Variant" information available for 1T11)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FKBP_PPIASE	PS50059	FKBP-type peptidyl-prolyl cis-trans isomerase domain profile.	TIG_VIBCH	161-246	2	A:161-246 B:161-246

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FKBP_PPIASE	PS50059	FKBP-type peptidyl-prolyl cis-trans isomerase domain profile.	TIG_VIBCH	161-246	2	A:161-246 B:161-246

Biological Unit 2 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FKBP_PPIASE	PS50059	FKBP-type peptidyl-prolyl cis-trans isomerase domain profile.	TIG_VIBCH	161-246	4	A:161-246 B:161-246

(no "Exon" information available for 1T11)

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:376
 aligned with TIG_VIBCH | Q9KQS5 from UniProtKB/Swiss-Prot  Length:433

    Alignment length:379
                             1                                                                                                                                                                                                                                                                                                                                                                                         
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369         
            TIG_VIBCH     - -MQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRRFDGFRKGKVPMKMVAKMYGKAVRQDVLGEVMQRHFIEAIVKEKINPAGAPTFAPVEIGEGKDLVFTATFEVYPEVELKGLENIAVEKPAAEVTDADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGSIDGVEFEGGKAENFPLEMGAGRMIPGFEDGIVGKTKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKVEARELPELNDEFVARFGVAEGGVDALKAEVRKNMERELKQAIKARIKEQAIEGLVKENEIQVPSALIDQEINVLRQQAAQRFGGNVEAAAQLPRELFEEQAKRRVVVGLLLGEVIRTHELKADEEKVKALITEMATAY 378
               SCOP domains -d1t11a2 A:1-129 Trigger factor ribosome-binding domain                                                                           -----d1t11a3 A:135-247 Trigger factor PPIase domain                                                                   d1t11a1 A:248-376 Trigger factor, C-terminal domain                                                                              -- SCOP domains
               CATH domains 1t11A01 A:0-112 Trigger factor ribosome binding domain; domain 1                                                 1t11A02 A:113-149,   A:247-378       1t11A03 A:150-246  [code=3.10.50.40, no name defined]                                            1t11A02 A:113-149,A:247-378 Trigger factor, domain 2                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....eeeeeeeehhhhhhhhhhhhhhhhhh............hh.hhh.hhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeee......eeeeeeee.............eee....---.hhhhhhhhhhhhhhheeee.........eeeeeeeee.........eeeeeeee.........hhhhh..........eeee.............eeee...eeeeeeee.....hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeehhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------FKBP_PPIASE  PDB: A:161-246 UniProt: 161-246                                          ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t11 A   0 HMQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRRFDGFRKGKVPMKMVAKMYGKAVRQDVLGEVMQRHFIEAIVKEKINPAGAPTFAPVEIGEGKDLVFTATFEVYPEVELKGLENIAVEKPAA---DADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGSIDGVEFEGGKAENFPLEMGAGRMIPGFEDGIVGKTKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKVEARELPELNDEFVARFGVAEGGVDALKAEVRKNMERELKQAIKARIKEQAIEGLVKENEIQVPSALIDQEINVLRQQAAQRFGGNVEAAAQLPRELFEEQAKRRVVVGLLLGEVIRTHELKADEEKVKALITEMATAY 378
                                     9        19        29        39        49        59        69        79        89        99       109       119       129|   |  139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369         
                                                                                                                                                            130 134

Chain B from PDB  Type:PROTEIN  Length:374
 aligned with TIG_VIBCH | Q9KQS5 from UniProtKB/Swiss-Prot  Length:433

    Alignment length:378
                             1                                                                                                                                                                                                                                                                                                                                                                                        
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369        
            TIG_VIBCH     - -MQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRRFDGFRKGKVPMKMVAKMYGKAVRQDVLGEVMQRHFIEAIVKEKINPAGAPTFAPVEIGEGKDLVFTATFEVYPEVELKGLENIAVEKPAAEVTDADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGSIDGVEFEGGKAENFPLEMGAGRMIPGFEDGIVGKTKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKVEARELPELNDEFVARFGVAEGGVDALKAEVRKNMERELKQAIKARIKEQAIEGLVKENEIQVPSALIDQEINVLRQQAAQRFGGNVEAAAQLPRELFEEQAKRRVVVGLLLGEVIRTHELKADEEKVKALITEMATA 377
               SCOP domains -d1t11b2 B:1-129 Trigger factor ribosome-binding domain                                                                           -----d1t11b3 B:135-247 Trigger factor PPIase domain                                                                   d1t11b1 B:248-376 Trigger factor, C-terminal domain                                                                              - SCOP domains
               CATH domains 1t11B01 B:0-112 Trigger factor ribosome binding domain; domain 1                                                 1t11B02 B:113-149    ,B:247-377      1t11B03 B:150-246  [code=3.10.50.40, no name defined]                                            1t11B02 B:113-149,B:247-377 Trigger factor, domain 2                                                                                CATH domains
           Pfam domains (1) -Trigger_N-1t11B05 B:1-145                                                                                                                        --------FKBP_C-1t11B03 B:154-238                                                             -----------------------Trigger_C-1t11B01 B:262-377                                                                                          Pfam domains (1)
           Pfam domains (2) -Trigger_N-1t11B06 B:1-145                                                                                                                        --------FKBP_C-1t11B04 B:154-238                                                             -----------------------Trigger_C-1t11B02 B:262-377                                                                                          Pfam domains (2)
         Sec.struct. author ..eeeeee....eeeeeeeehhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeee......eeeeeeee.............eee...----...hhhhhhhhhhhh.eeee.........eeeeeeeee.........eeeeeeee.........hhhhh.......eeeeeee.............eeeeeeeeeeeeeee....hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeehhhhhhhhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------FKBP_PPIASE  PDB: B:161-246 UniProt: 161-246                                          ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1t11 B   0 HMQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRRFDGFRKGKVPMKMVAKMYGKAVRQDVLGEVMQRHFIEAIVKEKINPAGAPTFAPVEIGEGKDLVFTATFEVYPEVELKGLENIAVEKPA----DADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGSIDGVEFEGGKAENFPLEMGAGRMIPGFEDGIVGKTKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKVEARELPELNDEFVARFGVAEGGVDALKAEVRKNMERELKQAIKARIKEQAIEGLVKENEIQVPSALIDQEINVLRQQAAQRFGGNVEAAAQLPRELFEEQAKRRVVVGLLLGEVIRTHELKADEEKVKALITEMATA 377
                                     9        19        29        39        49        59        69        79        89        99       109       119       129    |  139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369        
                                                                                                                                                           129  134

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(

)

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)

Vibrio cholerae. Organism_taxid: 666. (1)

1a	1t11A01	A:0-112
1b	1t11B01	B:0-112

Architecture: Roll (3276)

Topology: Chitinase A; domain 3 (225)

Homologous Superfamily: [code=3.10.50.40, no name defined] (98)

Vibrio cholerae. Organism_taxid: 666. (1)

2a	1t11A03	A:150-246
2b	1t11B03	B:150-246

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Trigger factor, domain 2 (1)

Homologous Superfamily: Trigger factor, domain 2 (1)

Vibrio cholerae. Organism_taxid: 666. (1)

3a	1t11A02	A:113-149,A:247-378
3b	1t11B02	B:113-149,B:247-377

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Trigger_C (7)

Family: Trigger_C (3)

Vibrio cholerae (1)

1a	Trigger_C-1t11B01	B:262-377
1b	Trigger_C-1t11B02	B:262-377

Clan: no clan defined [family: FKBP_C] (58)

Family: FKBP_C (58)

Vibrio cholerae (1)

2a	FKBP_C-1t11B03	B:154-238
2b	FKBP_C-1t11B04	B:154-238

Clan: no clan defined [family: Trigger_N] (4)

Family: Trigger_N (4)

Vibrio cholerae (1)

3a	Trigger_N-1t11B05	B:1-145
3b	Trigger_N-1t11B06	B:1-145

Asymmetric Unit(hide GO term definitions)

Chain A,B (TIG_VIBCH | Q9KQS5)

molecular function
	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).
biological process
	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: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.
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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