2A5L - JenaLib

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Title :   THE CRYSTAL STRUCTURE OF THE TRP REPRESSOR BINDING PROTEIN WRBA FROM PSEUDOMONAS AERUGINOSA

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

Date :   30 Jun 05 (Deposition) - 12 Jul 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Apc5760, Pa0949, Protein Structure Initiative, Psi, Repressor Binding Protein, Structural Genomics, 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 The Trp Repressor Binding Protein Wrba From Pseudomonas Aeruginosa
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - TRP REPRESSOR BINDING PROTEIN WRBA
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21 DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	287

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 10)

No.	Name	Count	Type	Full Name
1	MG	2	Ligand/Ion	MAGNESIUM ION
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 8)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 16)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS B:195 , SER B:198 , HOH B:212	BINDING SITE FOR RESIDUE MG B 199
2	AC2	SOFTWARE	LYS A:195 , SER A:198 , HOH A:241	BINDING SITE FOR RESIDUE MG A 199

(no "SS Bond" information available for 2A5L)

(no "Cis Peptide Bond" information available for 2A5L)

(no "SAP(SNP)/Variant" information available for 2A5L)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	NQOR_PSEAE	6-190	2	A:6-190 B:6-190
2	FLAVODOXIN	PS00201	Flavodoxin signature.	NQOR_PSEAE	8-24	2	A:8-24 B:8-24

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	NQOR_PSEAE	6-190	2	A:6-190 B:6-190
2	FLAVODOXIN	PS00201	Flavodoxin signature.	NQOR_PSEAE	8-24	2	A:8-24 B:8-24

Biological Unit 2 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	NQOR_PSEAE	6-190	4	A:6-190 B:6-190
2	FLAVODOXIN	PS00201	Flavodoxin signature.	NQOR_PSEAE	8-24	4	A:8-24 B:8-24

(no "Exon" information available for 2A5L)

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)
	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:171
 aligned with NQOR_PSEAE | Q9I509 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:196
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192      
           NQOR_PSEAE     3 SPYILVLYYSRHGATAEMARQIARGVEQGGFEARVRTVPAVSTECEAVAPDIPAEGALYATLEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQETTQLSMLLPLLHHGMLVLGIPYSEPALLETRGGGTPYGASHFAGADGKRSLDEHELTLCRALGKRLAETAGKLGS 198
               SCOP domains d2a5la1 A:3-198 Trp repressor binding prote             in WrbA                                                                                                                                      SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....hhhhhhhhhhhhhhhhh..eeeee....ee.-------------....hhhhhhh..eeeeeee......hhhhhhhhhhhhhhhhhh.....eeeeeee......hhhhhhhhhhhhhhhh..ee.....------------.................hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---FLAVODOXIN_LIKE  PDB: A:6-190 UniProt: 6-190                                                                                                                                             -------- PROSITE (1)
                PROSITE (2) -----FLAVODOXIN       ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a5l A   3 SPYILVLYYSRHGATAEmARQIARGVEQGGFEARVRTVPAVST-------------ALYATLEDLKNCAGLALGSPTRFGNmASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQETTQLSmLLPLLHHGmLVLGIPY------------TPYGASHFAGADGKRSLDEHELTLCRALGKRLAETAGKLGS 198
                                    12       |22        32        42  |      -      | 62        72        82 |      92       102       112       122      |132     | 142  |      -     | 162       172       182       192      
                                            20-MSE                   45            59                       84-MSE                                      129-MSE  138-MSE145          158

Chain B from PDB  Type:PROTEIN  Length:175
 aligned with NQOR_PSEAE | Q9I509 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:196
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192      
           NQOR_PSEAE     3 SPYILVLYYSRHGATAEMARQIARGVEQGGFEARVRTVPAVSTECEAVAPDIPAEGALYATLEDLKNCAGLALGSPTRFGNMASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQETTQLSMLLPLLHHGMLVLGIPYSEPALLETRGGGTPYGASHFAGADGKRSLDEHELTLCRALGKRLAETAGKLGS 198
               SCOP domains d2a5lb_ B: automated matches                                                                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....hhhhhhhhhhhhhhhhh..eeeeee....ee.------------....hhhhhhh..eeeeeee......hhhhhhhhhhhhhhhhh......eeeeeee......hhhhhhhhhhhhhhhh..ee........---------.................hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---FLAVODOXIN_LIKE  PDB: B:6-190 UniProt: 6-190                                                                                                                                             -------- PROSITE (1)
                PROSITE (2) -----FLAVODOXIN       ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a5l B   3 SPYILVLYYSRHGATAEmARQIARGVEQGGFEARVRTVPAVSTE------------ALYATLEDLKNCAGLALGSPTRFGNmASPLKYFLDGTSSLWLTGSLVGKPAAVFTSTASLHGGQETTQLSmLLPLLHHGmLVLGIPYSEP---------TPYGASHFAGADGKRSLDEHELTLCRALGKRLAETAGKLGS 198
                                    12       |22        32        42   |     -      | 62        72        82 |      92       102       112       122      |132     | 142     |   -     | 162       172       182       192      
                                            20-MSE                    46           59                       84-MSE                                      129-MSE  138-MSE   148       158

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 Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Flavodoxin-like (1057)

Superfamily: Flavoproteins (208)

Family: WrbA-like (12)

Protein domain: automated matches (3)

Pseudomonas aeruginosa [TaxId: 287] (1)

d2a5lb_

Protein domain: Trp repressor binding protein WrbA (8)

Pseudomonas aeruginosa [TaxId: 287] (3)

d2a5la1

A:3-198

(no "CATH Domain" information available for 2A5L)

(no "Pfam Domain" information available for 2A5L)

Asymmetric Unit(hide GO term definitions)

Chain A,B (NQOR_PSEAE | Q9I509)

molecular function
	GO:0010181	FMN binding	Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0051287	NAD binding	Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
	GO:0003955	NAD(P)H dehydrogenase (quinone) activity	Catalysis of the reaction: NAD(P)H + H+ + a quinone = NAD(P)+ + a hydroquinone.
	GO:0050661	NADP binding	Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
	GO:0045892	negative regulation of transcription, DNA-templated	Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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