4LQ6 - JenaLib

Title :   CRYSTAL STRUCTURE OF RV3717 REVEALS A NOVEL AMIDASE FROM M. TUBERCULOSIS

Authors :   A. Kumar, S. Kumar, D. Kumar, A. Mishra, R. P. Dewangan, P. Shrivastava, S. Ramachandran, B. Taneja

Date :   17 Jul 13 (Deposition) - 04 Dec 13 (Release) - 15 Jan 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.68

Chains :   Asym./Biol. Unit : A

Keywords :   Amidase, Cell Wall Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Kumar, S. Kumar, D. Kumar, A. Mishra, R. P. Dewangan, P. Shrivastava S. Ramachandran, B. Taneja
The Structure Of Rv3717 Reveals A Novel Amidase From Mycobacterium Tuberculosis.
Acta Crystallogr. , Sect. D V. 69 2543 2013
PubMed-ID: 24311595 | Reference-DOI: 10.1107/S0907444913026371

Compounds

Molecule 1 - N-ACETYMURAMYL-L-ALANINE AMIDASE-RELATED PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	MT3820, RV3717
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS
	Organism Taxid	:	1773

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 9)

Asymmetric/Biological Unit (4, 9)

No.	Name	Count	Type	Full Name
1	CL	4	Ligand/Ion	CHLORIDE ION
2	PT	3	Ligand/Ion	PLATINUM (II) ION
3	SO4	1	Ligand/Ion	SULFATE ION
4	ZN	1	Ligand/Ion	ZINC ION

Sites (9, 9)

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:11 , GLU A:46 , HIS A:101 , HOH A:409 , HOH A:415 , HOH A:436	BINDING SITE FOR RESIDUE ZN A 301
2	AC2	SOFTWARE	THR A:38 , SER A:39 , LYS A:181 , HOH A:494	BINDING SITE FOR RESIDUE SO4 A 302
3	AC3	SOFTWARE	ARG A:137	BINDING SITE FOR RESIDUE CL A 303
4	AC4	SOFTWARE	ALA A:123	BINDING SITE FOR RESIDUE CL A 304
5	AC5	SOFTWARE	ALA A:163 , GLY A:164 , CL A:306 , PT A:309 , HOH A:420 , HOH A:458	BINDING SITE FOR RESIDUE CL A 305
6	AC6	SOFTWARE	LYS A:31 , ALA A:163 , CL A:305 , PT A:309	BINDING SITE FOR RESIDUE CL A 306
7	AC7	SOFTWARE	MET A:3 , ALA A:63 , LEU A:64 , HOH A:555	BINDING SITE FOR RESIDUE PT A 307
8	AC8	SOFTWARE	PHE A:6 , LEU A:70 , SER A:71 , GLU A:84 , MET A:88 , HOH A:526 , HOH A:533	BINDING SITE FOR RESIDUE PT A 308
9	AC9	SOFTWARE	CL A:305 , CL A:306 , HOH A:438 , HOH A:524	BINDING SITE FOR RESIDUE PT A 309

SS Bonds (1, 1)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological 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:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhh.eee.....eee............hhhhhhhhhhhhhhhhhhhh..eeee..........hhhhhhhhhhhh...eeeeeeee.........eeeee....hhhhhhhhhhhhhhhhhhhhhh............eeee..hhhhhh....eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lq6 A   2 GMVVFIDPGHNGANDASIGRQVPTGRGGTKNCQASGTSTNSGYPEHTFTWETGLRLRAALNALGVRTALSRGNDNALGPCVDERANMANALRPNAIVSLHADGGPASGRGFHVNYSAPPLNAIQAGPSVQFARIMRDQLQASGIPKANYIGQDGLYGRSDLAGLNLAQYPSILVELGNMKNPADSALMESAEGRQKYANALVRGVAGFLATQG 214
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (8, 11)

Visualization

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	Ligands, Modified Residues, Ions
		CL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SO4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
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		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala A:118 - Pro A:119	[ RasMol ]

Still Images

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Description