2FBH - JenaLib

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Description

Title :   THE CRYSTAL STRUCTURE OF TRANSCRIPTIONAL REGULATOR PA3341

Authors :   V. V. Lunin, E. Evdokimova, M. Kudritska, J. Osipiuk, A. Joachimiak, A. Savchenko, Midwest Center For Structural Genomics (Mcsg)

Date :   09 Dec 05 (Deposition) - 20 Dec 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Marr, Transcription Regulator, Apc5857, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. V. Lunin, E. Evdokimova, M. Kudritska, J. Osipiuk, A. Joachimiak, A. M. Edwards, A. Savchenko
The Crystal Structure Of Transcriptional Regulator Pa3341
To Be Published
PubMed: search

Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR PA3341
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	MODIFIED PET15B
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	287

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (3, 4)

Asymmetric Unit (3, 4)

No.	Name	Count	Type	Full Name
1	HG	1	Ligand/Ion	MERCURY (II) ION
2	SO4	1	Ligand/Ion	SULFATE ION
3	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	HG	-1	Ligand/Ion	MERCURY (II) ION
2	SO4	2	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	HG	-1	Ligand/Ion	MERCURY (II) ION
2	SO4	2	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:130	BINDING SITE FOR RESIDUE HG A 201
2	AC2	SOFTWARE	ARG A:26 , ARG A:27 , LEU A:28 , SER A:29 , HIS A:30	BINDING SITE FOR RESIDUE ZN A 203
3	AC3	SOFTWARE	HIS A:43 , HIS A:47 , SER A:59 , HOH A:271 , HOH A:272	BINDING SITE FOR RESIDUE ZN A 204
4	AC4	SOFTWARE	TYR A:8 , PHE A:9 , GLY A:10 , THR A:11 , TRP A:20 , ARG A:21 , ARG A:46 , ARG A:115 , HOH A:207	BINDING SITE FOR RESIDUE SO4 A 205

SS Bonds (0, 0)

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

Cis Peptide Bonds (0, 0)

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

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 2FBH)

Exons (0, 0)

(no "Exon" information available for 2FBH)

Sequences/Alignments

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)
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Chain A from PDB  Type:PROTEIN  Length:137
 aligned with Q9HYQ4_PSEAE | Q9HYQ4 from UniProtKB/TrEMBL  Length:144

    Alignment length:137
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       
         Q9HYQ4_PSEAE     8 YFGTLLAQTSRAWRAELDRRLSHLGLSQARWLVLLHLARHRDSPTQRELAQSVGVEGPTLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLIADIEAIAASVRNDVLTGIDESEQALCQQVLLRILANLENR 144
               SCOP domains d2fbha1 A:8-144 Transcriptional regulator PA3341                                                                                          SCOP domains
               CATH domains 2fbhA00 A:8-144 'winged helix' repressor DNA binding domain                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhh..eeee.........eeee..hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fbh A   8 YFGTLLAQTSRAWRAELDRRLSHLGLSQARWLVLLHLARHRDSPTQRELAQSVGVEGPTLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLIADIEAIAASVRNDVLTGIDESEQALCQQVLLRILANLENR 144
                                    17        27        37        47        57        67        77        87        97       107       117       127       137

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 (1, 1)

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: DNA/RNA-binding 3-helical bundle (1299)

Superfamily: Winged helix DNA-binding domain (576)

Family: MarR-like transcriptional regulators (34)

Protein domain: Transcriptional regulator PA3341 (1)

Pseudomonas aeruginosa [TaxId: 287] (1)

d2fbha1

A:8-144

CATH Domains (1, 1)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Arc Repressor Mutant, subunit A (1030)

Homologous Superfamily: 'winged helix' repressor DNA binding domain (507)

Pseudomonas aeruginosa. Organism_taxid: 287. (3)

2fbhA00

A:8-144

Pfam Domains (0, 0)

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

Gene Ontology (6, 6)

Asymmetric Unit(hide GO term definitions)

Chain A (Q9HYQ4_PSEAE | Q9HYQ4)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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.
	GO:0044212	transcription regulatory region DNA binding	Interacting selectively and non-covalently with a DNA region that regulates the transcription of a region of DNA, which may be a gene, cistron, or operon. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
biological process
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.

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	Cis Peptide Bonds
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 1)

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Pfam Domains (0, 0)

Gene Ontology (6, 6)

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Related Entries

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