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Title :   ALA177VAL MUTANT OF E. COLI METHYLENETETRAHYDROFOLATE REDUCTASE

Authors :   R. Pejchal, E. Campbell, B. D. Guenther, B. W. Lennon, R. G. Matthews, M. L. Ludwig

Date :   09 Jan 06 (Deposition) - 25 Apr 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.25

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

Keywords :   Oxidoreductase, Tim Barrel, Flavin, Reductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Pejchal, E. Campbell, B. D. Guenther, B. W. Lennon, R. G. Matthews, M. L. Ludwig
Structural Perturbations In The Ala -> Val Polymorphism Of Methylenetetrahydrofolate Reductase: How Binding Of Folates May Protect Against Inactivation
Biochemistry V. 45 4808 2006
PubMed-ID: 16605249 | Reference-DOI: 10.1021/BI052294C
(for further references see the PDB file header)

Molecule 1 - 5,10-METHYLENETETRAHYDROFOLATE REDUCTASE
	Chains	:	A, B, C
	EC Number	:	1.5.1.20
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET23B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	METF
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (2x)	:	A (1x)	B (2x)	C (1x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 11)

No.	Name	Count	Type	Full Name
1	FAD	3	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
2	MPD	3	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	SO4	5	Ligand/Ion	SULFATE ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	FAD	-1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
2	MPD	-1	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:230 , PRO A:232 , ALA A:233 , TRP A:234	BINDING SITE FOR RESIDUE SO4 A 900
02	AC2	SOFTWARE	SER A:44 , ARG A:279 , ALA A:280 , GLU A:281 , HOH A:533	BINDING SITE FOR RESIDUE SO4 A 901
03	AC3	SOFTWARE	SER B:44 , ARG B:279 , ALA B:280 , GLU B:281 , HOH B:452 , HOH B:564	BINDING SITE FOR RESIDUE SO4 B 902
04	AC4	SOFTWARE	SER B:215 , ASN B:216 , ARG B:249 , HOH B:565	BINDING SITE FOR RESIDUE SO4 B 903
05	AC5	SOFTWARE	ARG C:279 , ALA C:280 , GLU C:281 , HOH C:511 , HOH C:593	BINDING SITE FOR RESIDUE SO4 C 904
06	AC6	SOFTWARE	THR A:59 , TYR A:60 , ALA A:62 , HIS A:88 , THR A:90 , LEU A:117 , ARG A:118 , GLY A:119 , ASP A:120 , TYR A:131 , ALA A:132 , ALA A:150 , TYR A:152 , HIS A:156 , GLU A:158 , ALA A:159 , ASP A:165 , ARG A:171 , LYS A:172 , ILE A:181 , TYR A:275 , HOH A:522 , HOH A:607	BINDING SITE FOR RESIDUE FAD A 395
07	AC7	SOFTWARE	THR B:59 , TYR B:60 , ALA B:62 , HIS B:88 , LEU B:117 , ARG B:118 , GLY B:119 , ASP B:120 , TYR B:131 , ALA B:132 , ALA B:150 , TYR B:152 , HIS B:156 , GLU B:158 , ALA B:159 , ASP B:165 , ASN B:168 , ARG B:171 , LYS B:172 , ILE B:181 , TYR B:275 , HOH B:429 , HOH B:431 , HOH B:435 , HOH B:527 , HOH B:546	BINDING SITE FOR RESIDUE FAD B 396
08	AC8	SOFTWARE	THR C:59 , TYR C:60 , HIS C:88 , LEU C:117 , ARG C:118 , GLY C:119 , ASP C:120 , TYR C:131 , ALA C:132 , SER C:133 , ALA C:150 , TYR C:152 , HIS C:156 , ALA C:159 , ASP C:165 , ASN C:168 , LYS C:172 , ILE C:181 , GLN C:183 , TYR C:275 , HOH C:413 , HOH C:465 , HOH C:473 , HOH C:474 , HOH C:650	BINDING SITE FOR RESIDUE FAD C 397
09	AC9	SOFTWARE	PHE A:223 , TYR A:275	BINDING SITE FOR RESIDUE MPD A 895
10	BC1	SOFTWARE	PHE B:223 , TYR B:275 , HOH B:630	BINDING SITE FOR RESIDUE MPD B 896
11	BC2	SOFTWARE	PHE C:223 , TYR C:275 , LEU C:277 , HOH C:421 , HOH C:645	BINDING SITE FOR RESIDUE MPD C 897

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

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

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

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

(no "Exon" information available for 2FMO)

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:261
 aligned with METF_ECOLI | P0AEZ1 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:273
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291   
           METF_ECOLI    22 QINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPKFVSVTYGANSGERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGANRAITQFFFDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSREGVKDFHFYTLNRAEMSYAICHTLGVRP 294
               SCOP domains d2fmoa_ A: Methylenetetrahydrofolate redu     ctase                                                                                                                                                                                                                               SCOP domains
               CATH domains 2fmoA00 A:22-294  [code=3.20.20.220, no n     ame defined]                                                                                                                                                                                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....hhhhhhhhhhhhhhhhh....eeee....-----.hhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhhhh....eeee.....-------..hhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhh.....ee.ee....hhhhhhhhhhhhh...hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fmo A  22 QINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPKFVSVTYGA-----DRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHIVALRGDL-------EMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGVNRAITQFFFDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSREGVKDFHFYTLNRAEMSYAICHTLGVRP 294
                                    31        41        51        61|     | 71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291   
                                                                   62    68                                                  121     129

Chain B from PDB  Type:PROTEIN  Length:276
 aligned with METF_ECOLI | P0AEZ1 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:281
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293 
           METF_ECOLI    14 QSLAEVQGQINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPKFVSVTYGANSGERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGANRAITQFFFDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSREGVKDFHFYTLNRAEMSYAICHTLGVRP 294
               SCOP domains d2fmob_ B: Methylenetetrahydrofolate reductase                                                                                                                                                                                                                                            SCOP domains
               CATH domains 2fmoB00 B:14-294  [code=3.20.20.220, no name defined]                                                                                                                                                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh....eeeeee....hhhhhhhhhhhhhhhhh....eeee.......hhhhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhh...eeeee.....-----...hhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhh.....eeeee....hhhhhhhhhhhhh...hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fmo B  14 QSLAEVQGQINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPKFVSVTYGANSGERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHIVALRGDLP-----PEMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGVNRAITQFFFDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSREGVKDFHFYTLNRAEMSYAICHTLGVRP 294
                                    23        33        43        53        63        73        83        93       103       113        |-    |  133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293 
                                                                                                                                      122   128

Chain C from PDB  Type:PROTEIN  Length:265
 aligned with METF_ECOLI | P0AEZ1 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:273
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291   
           METF_ECOLI    22 QINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPKFVSVTYGANSGERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGANRAITQFFFDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSREGVKDFHFYTLNRAEMSYAICHTLGVRP 294
               SCOP domains d2fmoc_ C: Methylenetetrahydrofolate reduct ase                                                                                                                                                                                                                                   SCOP domains
               CATH domains 2fmoC00 C:22-294  [code=3.20.20.220, no nam e defined]                                                                                                                                                                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....hhhhhhhhhhhhhhhhh....eeee......-hhhhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhh...eeeee....-------..hhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhh.....hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fmo C  22 QINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPKFVSVTYGANS-ERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHIVALRGDL-------EMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGVNRAITQFFFDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSREGVKDFHFYTLNRAEMSYAICHTLGVRP 294
                                    31        41        51        61  | |   71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291   
                                                                     64 |                                                    121     129                                                                                                                                                                     
                                                                       66

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(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: TIM beta/alpha-barrel (3956)

Superfamily: FAD-linked oxidoreductase (25)

Family: Methylenetetrahydrofolate reductase (12)

Protein domain: Methylenetetrahydrofolate reductase (8)

Escherichia coli [TaxId: 562] (7)

1a	d2fmoa_	A:
1b	d2fmob_	B:
1c	d2fmoc_	C:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: [code=3.20.20.220, no name defined] (15)

Escherichia coli. Organism_taxid: 562. (11)

1a	2fmoB00	B:14-294
1b	2fmoC00	C:22-294
1c	2fmoA00	A:22-294

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (METF_ECOLI | P0AEZ1)

molecular function
	GO:0071949	FAD binding	Interacting selectively and non-covalently with the oxidized form, FAD, of flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0004489	methylenetetrahydrofolate reductase (NAD(P)H) activity	Catalysis of the reaction: 5-methyltetrahydrofolate + NAD(P)+ = 5,10-methylenetetrahydrofolate + NAD(P)H + H+.
	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:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0009086	methionine biosynthetic process	The chemical reactions and pathways resulting in the formation of methionine (2-amino-4-(methylthio)butanoic acid), a sulfur-containing, essential amino acid found in peptide linkage in proteins.
	GO:0006555	methionine metabolic process	The chemical reactions and pathways involving methionine (2-amino-4-(methylthio)butanoic acid), a sulfur-containing, essential amino acid found in peptide linkage in proteins.
	GO:0006730	one-carbon metabolic process	The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
	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.
	GO:0051289	protein homotetramerization	The formation of a protein homotetramer, a macromolecular structure consisting of four noncovalently associated identical subunits.
	GO:0046654	tetrahydrofolate biosynthetic process	The chemical reactions and pathways resulting in the formation of tetrahydrofolate, 5,6,7,8-tetrahydrofolic acid, a folate derivative bearing additional hydrogens on the pterin group.
	GO:0035999	tetrahydrofolate interconversion	The chemical reactions and pathways by which one-carbon (C1) units are transferred between tetrahydrofolate molecules, to synthesise other tetrahydrofolate molecules.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Asymmetric Unit
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(no "Cis Peptide Bonds" information available for 2fmo)

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Ligands, Modified Residues, Ions (3, 11)

Sites (11, 11)

SS Bonds (0, 0)

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