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Title :   CRYSTAL STRUCTURE OF BURKHOLDERIA XENOVORANS DMRB IN COMPLEX WITH FMN: A CUBIC PROTEIN CAGE FOR REDOX TRANSFER

Authors :   T. A. Bobik, D. Cascio, J. Jorda, D. E. Mcnamara, C. Bustos, T. C. Wang, M. T. O. Yeates

Date :   25 Sep 13 (Deposition) - 19 Feb 14 (Release) - 23 Apr 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A
Biol. Unit 1: A  (24x)

Keywords :   Methanopterin, Dihydromethanopterin Reductase, Flavin, Protein Cage, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. E. Mcnamara, D. Cascio, J. Jorda, C. Bustos, T. C. Wang, M. E. Rasche, T. O. Yeates, T. A. Bobik
Structure Of Dihydromethanopterin Reductase, A Cubic Protei Cage For Redox Transfer
J. Biol. Chem. V. 289 8852 2014
PubMed-ID: 24523405 | Reference-DOI: 10.1074/JBC.M113.522342

Compounds

Molecule 1 - PUTATIVE DIHYDROMETHANOPTERIN REDUCTASE (AFPA)
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET41A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	BXENO_B0583, BXE_B2440, DMRB
	Organism Scientific	:	BURKHOLDERIA XENOVORANS
	Organism Taxid	:	266265
	Strain	:	LB400

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 6)

Asymmetric Unit (2, 6)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 144)

No.	Name	Count	Type	Full Name
1	FMN	48	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SO4	96	Ligand/Ion	SULFATE ION

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:23 , GLY A:24 , SER A:25 , GLY A:26 , HIS A:27 , SER A:47 , ALA A:49 , TYR A:57 , ALA A:76 , SER A:77 , THR A:98 , SER A:99 , ASN A:100 , THR A:101 , SER A:110 , ASN A:116 , LYS A:123 , FMN A:202 , HOH A:301 , HOH A:302 , HOH A:303 , HOH A:304 , HOH A:310	BINDING SITE FOR RESIDUE FMN A 201
2	AC2	SOFTWARE	GLY A:26 , HIS A:27 , TYR A:57 , GLY A:82 , TYR A:85 , GLN A:120 , LYS A:123 , THR A:138 , GLN A:142 , LEU A:150 , FMN A:201	BINDING SITE FOR RESIDUE FMN A 202
3	AC3	SOFTWARE	ARG A:65 , ARG A:72 , HOH A:332	BINDING SITE FOR RESIDUE SO4 A 203
4	AC4	SOFTWARE	ARG A:72 , ASN A:74	BINDING SITE FOR RESIDUE SO4 A 204
5	AC5	SOFTWARE	LYS A:179 , LEU A:186	BINDING SITE FOR RESIDUE SO4 A 205
6	AC6	SOFTWARE	ARG A:63 , LYS A:66 , HIS A:67	BINDING SITE FOR RESIDUE SO4 A 206

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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)
	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:180
 aligned with Q13QT8_PARXL | Q13QT8 from UniProtKB/TrEMBL  Length:192

    Alignment length:180
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191
         Q13QT8_PARXL    12 FKPDARFAWCVTGSGHLLDESIALALELPRADLFLSAAAEEVLPLYGWALPRLRKHFRVFRDNSASGVPVGMLYHGMYHTVVIAPATSNTVAKCAFGISDTLPTNMYAQAGKQCIPGIVFACDTEPTVVTQSPNEWVELRPRAIELDNVERLSRFEYTTLVRSLDELKAALGERLSTLDL 191
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeee.....hhhhhhhhhhhh..eeeeehhhhhhhhhhhh.hhhhhh....ee......hhhhhhhhhh.eeeeeeeeehhhhhhhhhhh...hhhhhhhhhhhhh...eeeee.....eeeeee..eeeee..hhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3wis A  12 FKPDARFAWCVTGSGHLLDESIALALELPRADLFLSAAAEEVLPLYGWALPRLRKHFRVFRDNSASGVPVGMLYHGMYHTVVIAPATSNTVAKCAFGISDTLPTNMYAQAGKQCIPGIVFACDTEPTVVTQSPNEWVELRPRAIELDNVERLSRFEYTTLVRSLDELKAALGERLSTLDL 191
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191

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 (2, 2)

Visualization

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	Ligands, Modified Residues, Ions
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	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala A:95 - Pro A:96	[ RasMol ]

Biological Unit
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