2ASB | PR0174 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   STRUCTURE OF A MYCOBACTERIUM TUBERCULOSIS NUSA-RNA COMPLEX

Authors :   B. Beuth, S. Pennell, K. B. Arnvig, S. R. Martin, I. A. Taylor

Date :   23 Aug 05 (Deposition) - 11 Oct 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

Chains :   Asym./Biol. Unit : A,B

Keywords :   Protein-Rna Complex, Transcription/Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Beuth, S. Pennell, K. B. Arnvig, S. R. Martin, I. A. Taylor
Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex.
Embo J. V. 24 3576 2005
PubMed-ID: 16193062 | Reference-DOI: 10.1038/SJ.EMBOJ.7600829
(for further references see the PDB file header)

Molecule 1 - RIBOSOMAL RNA (5'- GAACUCAAUAG -3')
	Chains	:	B
	Engineered	:	YES
	Other Details	:	OLIGONUCLEOTIDE SYNTHESIS
	Synthetic	:	YES

Molecule 2 - TRANSCRIPTION ELONGATION PROTEIN NUSA
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET22B
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	NUSA
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS
	Organism Taxid	:	1773

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

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

(no "Site" information available for 2ASB)

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

Asymmetric/Biological Unit

No.	Residues
1	Ser A:273	-	Pro A:274

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

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	S1	PS50126	S1 domain profile.	NUSA_MYCTO	112-184	1	A:112-184
1	S1	PS50126	S1 domain profile.	NUSA_MYCTU	112-184	1	A:112-184
2	KH_TYPE_1	PS50084	Type-1 KH domain profile.	NUSA_MYCTO	287-323	1	A:287-323
2	KH_TYPE_1	PS50084	Type-1 KH domain profile.	NUSA_MYCTU	287-323	1	A:287-323

(no "Exon" information available for 2ASB)

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
	(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:226
 aligned with NUSA_MYCTO | P9WIV2 from UniProtKB/Swiss-Prot  Length:347

    Alignment length:226
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327      
           NUSA_MYCTO   108 STREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDAPPPPPG 333
               SCOP domains d2asba1 A:108-183 S1 domain of NusA                                         d2asba2 A:184-262 Transcription factor NusA, C-terminal domains                d2asba3 A:263-329 Transcription factor NusA, C-terminal domains    ---- SCOP domains
               CATH domains 2asbA01 A:108-182 Nucleic acid-binding proteins                            2asbA02 A:183-261  [code=3.30.300.20, no name defined]                         2asbA03 A:262-333  [code=3.30.300.20, no name defined]                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeee.hhhhhhh..eeeee......eeeeehhhhh..........eeeeeeeeee......eeeee..hhhhhhhhhhhhhhhhhh..eeeeeeeee...eeeeeeee.....hhhhhhhh..hhhhhhhhhhh...eeeeee...hhhhhhhhhh......eeeeee....eeeeeehhhhhhhhhh..hhhhhhhhhhhh.eeeeee........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ----S1  PDB: A:112-184 UniProt: 112-184                                      ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (1) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KH_TYPE_1  PDB: A:287-323            ---------- PROSITE (1)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2asb A 108 STREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDAPPPPPG 333
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327

Chain A from PDB  Type:PROTEIN  Length:226
 aligned with NUSA_MYCTU | P9WIV3 from UniProtKB/Swiss-Prot  Length:347

    Alignment length:226
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327      
           NUSA_MYCTU   108 STREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDAPPPPPG 333
               SCOP domains d2asba1 A:108-183 S1 domain of NusA                                         d2asba2 A:184-262 Transcription factor NusA, C-terminal domains                d2asba3 A:263-329 Transcription factor NusA, C-terminal domains    ---- SCOP domains
               CATH domains 2asbA01 A:108-182 Nucleic acid-binding proteins                            2asbA02 A:183-261  [code=3.30.300.20, no name defined]                         2asbA03 A:262-333  [code=3.30.300.20, no name defined]                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeee.hhhhhhh..eeeee......eeeeehhhhh..........eeeeeeeeee......eeeee..hhhhhhhhhhhhhhhhhh..eeeeeeeee...eeeeeeee.....hhhhhhhh..hhhhhhhhhhh...eeeeee...hhhhhhhhhh......eeeeee....eeeeeehhhhhhhhhh..hhhhhhhhhhhh.eeeeee........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----S1  PDB: A:112-184 UniProt: 112-184                                      ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------KH_TYPE_1  PDB: A:287-323            ---------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2asb A 108 STREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDAPPPPPG 333
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327

Chain B from PDB  Type:RNA  Length:11
                                           
                 2asb B   1 GAACUCAAUAG  11
                                    10

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: GMP Synthetase; Chain A, domain 3 (192)

Homologous Superfamily: [code=3.30.300.20, no name defined] (129)

[unclassified] (2)

1a	2asbA02	A:183-261
1b	2asbA03	A:262-333

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: OB fold (Dihydrolipoamide Acetyltransferase, E2P) (1040)

Homologous Superfamily: Nucleic acid-binding proteins (483)

[unclassified] (49)

2asbA01

A:108-182

(no "Pfam Domain" information available for 2ASB)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (NUSA_MYCTU | P9WIV3)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
	GO:0003700	transcription factor activity, sequence-specific DNA binding	Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
	GO:0006353	DNA-templated transcription, termination	The cellular process that completes DNA-templated transcription; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA.
	GO:0040007	growth	The increase in size or mass of an entire organism, a part of an organism or a cell.
	GO:0031554	regulation of DNA-templated transcription, termination	Any process that modulates the frequency, rate, extent, or location of DNA-templated transcription termination, the process in which transcription is completed; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0031564	transcription antitermination	Regulation of transcription by a mechanism that allows RNA polymerase to continue transcription beyond termination site(s).
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005618	cell wall	The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
	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: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.

Chain A (NUSA_MYCTO | P9WIV2)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
	GO:0003700	transcription factor activity, sequence-specific DNA binding	Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
	GO:0006353	DNA-templated transcription, termination	The cellular process that completes DNA-templated transcription; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA.
	GO:0031554	regulation of DNA-templated transcription, termination	Any process that modulates the frequency, rate, extent, or location of DNA-templated transcription termination, the process in which transcription is completed; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0031564	transcription antitermination	Regulation of transcription by a mechanism that allows RNA polymerase to continue transcription beyond termination site(s).
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2asb)

	Sites
(no "Sites" information available for 2asb)

	Cis Peptide Bonds
		Ser A:273 - Pro A:274	[ RasMol ]

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	NUSA_MYCTO \| P9WIV2	:	1k0r 2atw
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Description

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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