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Title :   CRYSTAL STRUCTURE OF RV1626

Authors :   J. P. Morth, V. Feng, L. J. Perry, D. I. Svergun, P. A. Tucker, Tb Structu Genomics Consortium (Tbsgc)

Date :   13 Feb 04 (Deposition) - 21 Sep 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.68

Chains :   Asym./Biol. Unit : A

Keywords :   Rv1626, Transcriptional, Antiterminator, Two Components System, Structural Genomics, Psi, Protein Structure Initiative, Tb Structural Genomics Consortium, Tbsgc, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. P. Morth, V. Feng, L. J. Perry, D. I. Svergun, P. A. Tucker
The Crystal And Solution Structure Of A Putative Transcriptional Antiterminator From Mycobacterium Tuberculosis.
Structure V. 12 1595 2004
PubMed-ID: 15341725 | Reference-DOI: 10.1016/J.STR.2004.06.018

Molecule 1 - PUTATIVE ANTITERMINATOR
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET22B
	Expression System Strain	:	BL21(DE3)RP
	Expression System Taxid	:	562
	Gene	:	RV1626
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS
	Organism Taxid	:	83332
	Other Details	:	PHOSPHORYLATION DEPENDENT TRANSCRIPTIONAL ANTITERMINATION REGULATOR
	Strain	:	H37RV

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 15)

No.	Name	Count	Type	Full Name
1	IOD	15	Ligand/Ion	IODIDE ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:184	BINDING SITE FOR RESIDUE IOD A 401
2	AC2	SOFTWARE	ARG A:131 , ILE A:135 , ARG A:152	BINDING SITE FOR RESIDUE IOD A 407
3	AC3	SOFTWARE	GLU A:141 , LYS A:189 , HOH A:601	BINDING SITE FOR RESIDUE IOD A 408
4	AC4	SOFTWARE	ARG A:70	BINDING SITE FOR RESIDUE IOD A 410
5	AC5	SOFTWARE	GLN A:48	BINDING SITE FOR RESIDUE IOD A 411
6	AC6	SOFTWARE	GLU A:49 , IOD A:413	BINDING SITE FOR RESIDUE IOD A 412
7	AC7	SOFTWARE	ARG A:185 , IOD A:412	BINDING SITE FOR RESIDUE IOD A 413
8	AC8	SOFTWARE	PRO A:115 , PHE A:116 , GLU A:193	BINDING SITE FOR RESIDUE IOD A 414
9	AC9	SOFTWARE	THR A:198 , LEU A:199 , HOH A:605	BINDING SITE FOR RESIDUE IOD A 415

(no "SS Bond" information available for 1SD5)

Asymmetric/Biological Unit

No.	Residues
1	Lys A:114	-	Pro A:115

(no "SAP(SNP)/Variant" information available for 1SD5)

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RESPONSE_REGULATORY	PS50110	Response regulatory domain profile.	PDTAR_MYCTO	15-129	1	A:15-129
1	RESPONSE_REGULATORY	PS50110	Response regulatory domain profile.	PDTAR_MYCTU	15-129	1	A:15-129
2	ANTAR	PS50921	ANTAR domain profile.	PDTAR_MYCTO	135-196	1	A:135-196
2	ANTAR	PS50921	ANTAR domain profile.	PDTAR_MYCTU	135-196	1	A:135-196

(no "Exon" information available for 1SD5)

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:188
 aligned with PDTAR_MYCTO | P9WGM2 from UniProtKB/Swiss-Prot  Length:205

    Alignment length:188
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192        
          PDTAR_MYCTO    13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPDLVIMDVKMPRRDGIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFREITALEGEVATLSERLETRKLVERAKGLLQTKHGMTEPDAFKWIQRAAMDRRTTMKRVAEVVLETLG 200
               SCOP domains d1sd5a_ A: Probable two-component system transcriptional regulator Rv1626                                                                                                                    SCOP domains
               CATH domains 1sd5A01 A:13-142  [code=3.40.50.2300, no name defined]                                                                            1sd5A02 A:143-200                                          CATH domains
               Pfam domains ---Response_reg-1sd5A01 A:16-126                                                                                  --------------ANTAR-1sd5A02 A:141-196                                 ---- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhh....eeeeee..hhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) --RESPONSE_REGULATORY  PDB: A:15-129 UniProt: 15-129                                                                 -----ANTAR  PDB: A:135-196 UniProt: 135-196                        ---- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sd5 A  13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPDLVIMDVKMPRRDGIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFREITALEGEVATLSERLETRKLVERAKGLLQTKHGMTEPDAFKWIQRAAMDRRTTMKRVAEVVLETLG 200
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192

Chain A from PDB  Type:PROTEIN  Length:188
 aligned with PDTAR_MYCTU | P9WGM3 from UniProtKB/Swiss-Prot  Length:205

    Alignment length:188
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192        
          PDTAR_MYCTU    13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPDLVIMDVKMPRRDGIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFREITALEGEVATLSERLETRKLVERAKGLLQTKHGMTEPDAFKWIQRAAMDRRTTMKRVAEVVLETLG 200
               SCOP domains d1sd5a_ A: Probable two-component system transcriptional regulator Rv1626                                                                                                                    SCOP domains
               CATH domains 1sd5A01 A:13-142  [code=3.40.50.2300, no name defined]                                                                            1sd5A02 A:143-200                                          CATH domains
               Pfam domains ---Response_reg-1sd5A01 A:16-126                                                                                  --------------ANTAR-1sd5A02 A:141-196                                 ---- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhh....eeeeee..hhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --RESPONSE_REGULATORY  PDB: A:15-129 UniProt: 15-129                                                                 -----ANTAR  PDB: A:135-196 UniProt: 135-196                        ---- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sd5 A  13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPDLVIMDVKMPRRDGIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFREITALEGEVATLSERLETRKLVERAKGLLQTKHGMTEPDAFKWIQRAAMDRRTTMKRVAEVVLETLG 200
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Flavodoxin-like (1057)

Superfamily: CheY-like (258)

Family: CheY-related (166)

Protein domain: Probable two-component system transcriptional regulator Rv1626 (2)

Mycobacterium tuberculosis [TaxId: 1773] (2)

d1sd5a_

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: CheY (97)

Family: Response_reg (94)

Mycobacterium tuberculosis (5)

Response_reg-1sd5A01

A:16-126

Clan: no clan defined [family: ANTAR] (3)

Family: ANTAR (3)

Mycobacterium tuberculosis (2)

ANTAR-1sd5A02

A:141-196

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PDTAR_MYCTO | P9WGM2)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
	GO:0000160	phosphorelay signal transduction system	A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
	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:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

Chain A (PDTAR_MYCTU | P9WGM3)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
	GO:0040007	growth	The increase in size or mass of an entire organism, a part of an organism or a cell.
	GO:0000160	phosphorelay signal transduction system	A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
	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:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Lys A:114 - Pro A:115	[ RasMol ]

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	PDTAR_MYCTO \| P9WGM2	:	1s8n
	PDTAR_MYCTU \| P9WGM3	:	1s8n

1s8n	IODIDE DERIVATIVE OF RV1626 RELATED ID: RV1626 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 15)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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