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NMR Structure - model 1 (Jmol Viewer)

NMR Structure - all models (Jmol Viewer)

Title :   SOLUTION STRUCTURE OF PEPTIDYL-TRNA HYDROLASE FROM MYCOBACTERIUM TUBERCULOSIS H37RV.

Authors :   S. V. S. R. K. Pulavarti, A. Jain, P. P. Pathak, A. Arora

Date :   22 Jun 07 (Deposition) - 27 May 08 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (40x)

Keywords :   Pth, Solution Structure, Nmr, Mycobacterium Tuberculosis H37Rv, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. V. Pulavarti, A. Jain, P. P. Pathak, A. Mahmood, A. Arora
Solution Structure And Dynamics Of Peptidyl-Trna Hydrolase From Mycobacterium Tuberculosis H37Rv.
J. Mol. Biol. V. 378 165 2008
PubMed-ID: 18342886 | Reference-DOI: 10.1016/J.JMB.2008.02.027
(for further references see the PDB file header)

Molecule 1 - PEPTIDYL-TRNA HYDROLASE
	Chains	:	A
	EC Number	:	3.1.1.29
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21DE3
	Expression System Vector Type	:	PLASMID
	Gene	:	PTH
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS
	Strain	:	H37RV
	Synonym	:	PTH


NMR Structure (40x)	:

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2JRC)

(no "Site" information available for 2JRC)

(no "SS Bond" information available for 2JRC)

(no "Cis Peptide Bond" information available for 2JRC)

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

NMR Structure (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPT_TRNA_HYDROL_1	PS01195	Peptidyl-tRNA hydrolase signature 1.	PTH_MYCTO	17-30	1	A:17-30
1	PEPT_TRNA_HYDROL_1	PS01195	Peptidyl-tRNA hydrolase signature 1.	PTH_MYCTU	17-30	1	A:17-30
2	PEPT_TRNA_HYDROL_2	PS01196	Peptidyl-tRNA hydrolase signature 2.	PTH_MYCTO	111-121	1	A:111-121
2	PEPT_TRNA_HYDROL_2	PS01196	Peptidyl-tRNA hydrolase signature 2.	PTH_MYCTU	111-121	1	A:111-121

(no "Exon" information available for 2JRC)

NMR Structure

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:191
 aligned with PTH_MYCTO | P9WHN6 from UniProtKB/Swiss-Prot  Length:191

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
            PTH_MYCTO     1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGMEPAQNRVHAW 191
               SCOP domains d2jrca_ A: automated matches                                                                                                                                                                    SCOP domains
               CATH domains 2jrcA00 A:1-191  [code=3.40.50.1470, no name defined]                                                                                                                                           CATH domains
               Pfam domains -----Pept_tRNA_hydro-2jrcA01 A:6-189                                                                                                                                                         -- Pfam domains
         Sec.struct. author ....eeeee.....hhhhhhh.hhhhhhhhhhhhhhh...eee....eeeeeeee..eeeeeee...hhhhhhhhhhhhhhhhh.....eeeeeee....eeeeeee.......hhhhhhhhhhhh....eeeeeee.......hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------PEPT_TRNA_HYDR--------------------------------------------------------------------------------PEPT_TRNA_H---------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jrc A   1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGMEPAQNRVHAW 191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190

Chain A from PDB  Type:PROTEIN  Length:191
 aligned with PTH_MYCTU | P9WHN7 from UniProtKB/Swiss-Prot  Length:191

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
            PTH_MYCTU     1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGMEPAQNRVHAW 191
               SCOP domains d2jrca_ A: automated matches                                                                                                                                                                    SCOP domains
               CATH domains 2jrcA00 A:1-191  [code=3.40.50.1470, no name defined]                                                                                                                                           CATH domains
               Pfam domains -----Pept_tRNA_hydro-2jrcA01 A:6-189                                                                                                                                                         -- Pfam domains
         Sec.struct. author ....eeeee.....hhhhhhh.hhhhhhhhhhhhhhh...eee....eeeeeeee..eeeeeee...hhhhhhhhhhhhhhhhh.....eeeeeee....eeeeeee.......hhhhhhhhhhhh....eeeeeee.......hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ----------------PEPT_TRNA_HYDR--------------------------------------------------------------------------------PEPT_TRNA_H---------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jrc A   1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGMEPAQNRVHAW 191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190

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 '\|'

NMR Structure

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Phosphorylase/hydrolase-like (558)

Superfamily: Peptidyl-tRNA hydrolase-like (33)

Family: automated matches (29)

Protein domain: automated matches (29)

Mycobacterium tuberculosis [TaxId: 83332] (7)

d2jrca_

NMR Structure

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.1470, no name defined] (8)

Mycobacterium tuberculosis. Strain: h37rv. (1)

2jrcA00

A:1-191

NMR Structure

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: Pept_tRNA_hydro] (10)

Family: Pept_tRNA_hydro (10)

Mycobacterium tuberculosis (3)

Pept_tRNA_hydro-2jrcA01

A:6-189

NMR Structure(hide GO term definitions)

Chain A (PTH_MYCTO | P9WHN6)

molecular function
	GO:0004045	aminoacyl-tRNA hydrolase activity	Catalysis of the reaction: N-substituted aminoacyl-tRNA + H2O = N-substituted amino acid + tRNA.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Chain A (PTH_MYCTU | P9WHN7)

molecular function
	GO:0004045	aminoacyl-tRNA hydrolase activity	Catalysis of the reaction: N-substituted aminoacyl-tRNA + H2O = N-substituted amino acid + tRNA.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
	GO:0040007	growth	The increase in size or mass of an entire organism, a part of an organism or a cell.
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

NMR Structure
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	Cis Peptide Bonds
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	3.1.1.29
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UniProtKB/Swiss-Prot
	PTH_MYCTO \| P9WHN6	:	2z2i 2z2j 2z2k 3tck 3tcn 3td2 3td6
	PTH_MYCTU \| P9WHN7	:	2z2i 2z2j 2z2k 3tck 3tcn 3td2 3td6

7055	ENTRY INFORMATION OF CHEMICAL SHIFT ASSIGNMENT

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Ligands, Modified Residues, Ions (0, 0)

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