4H2R - JenaLib

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Title :   STRUCTURE OF MHPCO Y270F MUTANT, 5-HYDROXYNICOTINIC ACID COMPLEX

Authors :   J. Kobayashi, H. Yoshida, B. Mikami, H. Hayashi, S. Kamitori, T. Yagi

Date :   13 Sep 12 (Deposition) - 18 Sep 13 (Release) - 18 Sep 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.47

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

Keywords :   Fad-Binding Motif, Oxygenase, Fad, 3-Hydroxypyridine-5-Carboxylic Acid, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Kobayashi, H. Yoshida, B. Mikami, H. Hayashi, S. Kamitori, T. Yagi
Crystal Structure Of 2-Methyl-3-Hydroxypyridine-5-Carboxyli Acid Oxygenase
To Be Published
PubMed: search

Molecule 1 - 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC ACID OXYGENASE
	Chains	:	A, B
	EC Number	:	1.14.12.4
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PET21A
	Gene	:	MLR6788
	Mutation	:	YES
	Organism Common	:	MESORHIZOBIUM LOTI
	Organism Scientific	:	RHIZOBIUM LOTI
	Organism Taxid	:	266835
	Strain	:	MAFF303099

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 9)

No.	Name	Count	Type	Full Name
1	5HN	1	Ligand/Ion	5-HYDROXYPYRIDINE-3-CARBOXYLIC ACID
2	BME	1	Ligand/Ion	BETA-MERCAPTOETHANOL
3	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
4	GOL	5	Ligand/Ion	GLYCEROL

Biological Unit 1 (4, 18)

No.	Name	Count	Type	Full Name
1	5HN	2	Ligand/Ion	5-HYDROXYPYRIDINE-3-CARBOXYLIC ACID
2	BME	2	Ligand/Ion	BETA-MERCAPTOETHANOL
3	FAD	4	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
4	GOL	10	Ligand/Ion	GLYCEROL

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:18 , GLY A:20 , PHE A:21 , ALA A:22 , HIS A:40 , GLU A:41 , LYS A:42 , ILE A:53 , TYR A:54 , ARG A:106 , SER A:128 , GLU A:129 , ALA A:130 , ALA A:155 , ASP A:156 , GLY A:157 , LEU A:179 , ARG A:181 , PHE A:270 , GLY A:287 , ASP A:288 , ALA A:298 , GLY A:300 , ALA A:301 , GLY A:302 , 5HN A:403 , HOH A:504 , HOH A:508 , HOH A:511 , HOH A:513	BINDING SITE FOR RESIDUE FAD A 401
2	AC2	SOFTWARE	GLN A:142 , THR A:143 , GLY A:144 , SER A:175 , PHE A:270 , CYS A:294	BINDING SITE FOR RESIDUE BME A 402
3	AC3	SOFTWARE	ARG A:211 , LEU A:213 , TYR A:223 , PRO A:295 , ALA A:296 , FAD A:401	BINDING SITE FOR RESIDUE 5HN A 403
4	AC4	SOFTWARE	ARG A:331 , TYR A:368 , ARG A:373	BINDING SITE FOR RESIDUE GOL A 404
5	AC5	SOFTWARE	ARG A:367	BINDING SITE FOR RESIDUE GOL A 405
6	AC6	SOFTWARE	THR A:279 , ARG A:280 , GLY A:281 , GLU A:322	BINDING SITE FOR RESIDUE GOL A 406
7	AC7	SOFTWARE	GLY B:18 , GLY B:20 , PHE B:21 , ALA B:22 , HIS B:40 , GLU B:41 , LYS B:42 , PHE B:49 , ILE B:53 , TYR B:54 , ARG B:106 , SER B:128 , GLU B:129 , ALA B:130 , ALA B:155 , ASP B:156 , LEU B:179 , ARG B:181 , GLY B:287 , ASP B:288 , PRO B:295 , ALA B:298 , GLY B:300 , ALA B:301 , GLY B:302 , HOH B:502	BINDING SITE FOR RESIDUE FAD B 401
8	AC8	SOFTWARE	GLU A:64 , HIS B:57 , ARG B:61 , TRP B:377 , HOH B:520	BINDING SITE FOR RESIDUE GOL B 402
9	AC9	SOFTWARE	ARG B:331 , TYR B:368	BINDING SITE FOR RESIDUE GOL B 403

(no "SS Bond" information available for 4H2R)

Asymmetric Unit

No.	Residues
1	Trp A:206	-	Pro A:207
2	Val A:238	-	Pro A:239
3	Trp B:206	-	Pro B:207
4	Val B:238	-	Pro B:239

(no "SAP(SNP)/Variant" information available for 4H2R)

(no "PROSITE Motif" information available for 4H2R)

(no "Exon" information available for 4H2R)

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:369
                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhhhhhhhhh..eeeee...........eeeeehhhhhhhhhh.hhhhhhh.......eeeee..eeeeeehhhhh.eeeeehhhhhhhhhhhhhhh..eee....eeeee...eeee....eee..eeee.....hhhhhhhh..eeeeeeeeeeeeeeee.............eeeeee.....eeeeeee....eeeeeeee............hhhhhhhhh..hhhhhhhhhh.....eeeeeeeee...ee..eee.hhhhhh.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhee....ee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h2r A  11 TRRAEVAGGGFAGLTAAIALKQNGWDVRLHEKSSELRAFGAGIYLWHNGLRVLEGLGALDDVLQGSHTPPTYETWMHNKSVSKETFNGLPWRIMTRSHLHDALVNRARALGVDISVNSEAVAADPVGRLTLQTGEVLEADLIVGADGVGSKVRDSIGFKQDRWVSKDGLIRLIVPRMKKELGHGEWDNTIDMWNFWPRVQRILYSPCNENELYLGLMAPAADPRGSSVPIDLEVWVEMFPFLEPCLIEAAKLKTARYDKFETTKLDSWTRGKVALVGDAAHAMCPALAQGAGCAMVNAFSLSQDLEEGSSVEDALVAWETRIRPITDRCQALSGDYAANRSLSKGNMFTPAALEAARYDPLRRVYSWPQ 379
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370

Chain B from PDB  Type:PROTEIN  Length:369
                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhhhhhhhhh..eeeeee..........eeeeehhhhhhhhhh.hhhhhhh.......eeeee..eeeeeehhhhh.eeeeehhhhhhhhhhhhhhh..eeee...eeeee...eeee....eee..eeee.....hhhhhh....ee..eeeeeeeeeeee.............eeeee.......eeeeee....eeeeeeeee...........hhhhhhhhh..hhhhhhhhh.....eeeeee..ee...ee..eee.hhhhhh.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhee....ee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h2r B  11 TRRAEVAGGGFAGLTAAIALKQNGWDVRLHEKSSELRAFGAGIYLWHNGLRVLEGLGALDDVLQGSHTPPTYETWMHNKSVSKETFNGLPWRIMTRSHLHDALVNRARALGVDISVNSEAVAADPVGRLTLQTGEVLEADLIVGADGVGSKVRDSIGFKQDRWVSKDGLIRLIVPRMKKELGHGEWDNTIDMWNFWPRVQRILYSPCNENELYLGLMAPAADPRGSSVPIDLEVWVEMFPFLEPCLIEAAKLKTARYDKFETTKLDSWTRGKVALVGDAAHAMCPALAQGAGCAMVNAFSLSQDLEEGSSVEDALVAWETRIRPITDRCQALSGDYAANRSLSKGNMFTPAALEAARYDPLRRVYSWPQ 379
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370

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 '\|'

(no "SCOP Domain" information available for 4H2R)

(no "CATH Domain" information available for 4H2R)

(no "Pfam Domain" information available for 4H2R)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		5HN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		BME	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		FAD	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		GOL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

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		AC4	[ RasMol ]	+environment [ RasMol ]
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		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Trp A:206 - Pro A:207	[ RasMol ]
		Trp B:206 - Pro B:207	[ RasMol ]
		Val A:238 - Pro A:239	[ RasMol ]
		Val B:238 - Pro B:239	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	1.14.12.4
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3alh	MHPCO, UNLIGANDED FORM
3ali	MHPCO, 5PA COMPLEX
3alk	MHPCO, Y270F MUTANT, UNLIGANDED FORM
4h28
4h2n
4h2p	TETRAMERIC MHPCO, UNLIGANDED FORM
4h2q	MHPCO, 5HN COMPLEX

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 9)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (4, 4)

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