1NWH - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM HAEMOPHILUS INFLUENZAE AS A TETRAHEDRAL HEMITHIOACETAL REACTION INTERMEDIATE AT 2.0 A

Authors :   J. Blanco, R. A. Moore, R. E. Viola

Date :   06 Feb 03 (Deposition) - 04 Nov 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym./Biol. Unit : A,B

Keywords :   Aspartate Semialdehyde Dehydrogenase, Aspartate Semialdehyde, Haemophilus Influenzae, Tetrahedral Intermediate, Hemithioacetal, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Blanco, R. A. Moore, R. E. Viola
Capture Of An Intermediate In The Catalytic Cycle Of L-Aspartate-Beta-Semialdehyde Dehydrogenase
Proc. Natl. Acad. Sci. Usa V. 100 12613 2003
PubMed-ID: 14559965 | Reference-DOI: 10.1073/PNAS.1634958100
(for further references see the PDB file header)

Molecule 1 - ASPARTATE-SEMIALDEHYDE DEHYDROGENASE
	Chains	:	A, B
	EC Number	:	1.2.1.11
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET41A
	Expression System Strain	:	BL21DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	ASD
	Organism Scientific	:	HAEMOPHILUS INFLUENZAE
	Organism Taxid	:	727
	Synonym	:	ASA DEHYDROGENASE, ASADH

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	HTI	2	Mod. Amino Acid	(4S)-4-{[(2S)-2-AMINO-3-OXOPROPYL]SULFANYL}-L-HOMOSERINE

(no "Site" information available for 1NWH)

(no "SS Bond" information available for 1NWH)

(no "Cis Peptide Bond" information available for 1NWH)

(no "SAP(SNP)/Variant" information available for 1NWH)

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ASD	PS01103	Aspartate-semialdehyde dehydrogenase signature.	DHAS_HAEIN	264-278	2	A:264-278 B:264-278

(no "Exon" information available for 1NWH)

Asymmetric/Biological 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:356
 aligned with DHAS_HAEIN | P44801 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:371
                                    10        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 
           DHAS_HAEIN     1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQAGQKAPVFGGKDAGDLKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNCTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
               SCOP domains d1nwha1 A:1-133,A:358-371 Aspartate bet               a-semialdehyde dehydrogenase                                                   d1nwha2 A:134-357 Aspartate beta-semialdehyde dehydrogenase                                                                                                                                                                     d1nwha1        SCOP domains
               CATH domains 1nwhA01 A:1-135,A:354-371 NAD(P)-bindin               g Rossmann-like Domain                                                           -1nwhA02 A:137-353 Dihydrodipicolinate Reductase; domain 2                                                                                                                                                                1nwhA01            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhh.eeeeeee...---------------.ee..hhhhhhh..eeee..hhhhhhhhhhhhhh.....eeee..........eeeehhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhh..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...............ee............hhhhhhhhhhhhhhh........eeee..ee....eeeeeeeeee....hhhhhhhhhhhh...eee...hhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeeeeeee.....hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASD            --------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nwh A   1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQ---------------LKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNcTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
                                    10        20        30        |-         -    |   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 
                                                                 39              55                                                                              136-HTI

Chain B from PDB  Type:PROTEIN  Length:356
 aligned with DHAS_HAEIN | P44801 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:371
                                    10        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 
           DHAS_HAEIN     1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQAGQKAPVFGGKDAGDLKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNCTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
               SCOP domains d1nwhb1 B:1-133,B:358-371 Aspartate bet               a-semialdehyde dehydrogenase                                                   d1nwhb2 B:134-357 Aspartate beta-semialdehyde dehydrogenase                                                                                                                                                                     d1nwhb1        SCOP domains
               CATH domains 1nwhB01 B:1-135,B:354-371 NAD(P)-bindin               g Rossmann-like Domain                                                           -1nwhB02 B:137-353 Dihydrodipicolinate Reductase; domain 2                                                                                                                                                                1nwhB01            CATH domains
           Pfam domains (1) --Semialdhyde_dh-1nwhB03 B:3-123                                                                                           ---------------------Semialdhyde_dhC-1nwhB01 B:145-356                                                                                                                                                                                   --------------- Pfam domains (1)
           Pfam domains (2) --Semialdhyde_dh-1nwhB04 B:3-123                                                                                           ---------------------Semialdhyde_dhC-1nwhB02 B:145-356                                                                                                                                                                                   --------------- Pfam domains (2)
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhhhhhhhheeeeee...---------------.ee..hhhhhh...eeee..hhhhhhhhhhhhhh.....eeee..........eeeehhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhh..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...............ee............hhhhhhhhhhhhhhhh.......eeee..ee....eeeeeeeeee....hhhhhhhhhhh....eee...hhhhhhhhhhhhhhh....eeeeeeee......eeeeeeeee.....hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASD            --------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nwh B   1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQ---------------LKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNcTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
                                    10        20        30        |-         -    |   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 
                                                                 39              55                                                                              136-HTI

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Dihydrodipicolinate Reductase; domain 2 (182)

Homologous Superfamily: Dihydrodipicolinate Reductase; domain 2 (178)

Haemophilus influenzae. Organism_taxid: 727. (9)

1a	1nwhA02	A:137-353
1b	1nwhB02	B:137-353

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: NAD(P)-binding Rossmann-like Domain (1244)

Haemophilus influenzae. Organism_taxid: 727. (14)

2a	1nwhA01	A:1-135,A:354-371
2b	1nwhB01	B:1-135,B:354-371

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (DHAS_HAEIN | P44801)

molecular function
	GO:0003942	N-acetyl-gamma-glutamyl-phosphate reductase activity	Catalysis of the reaction: N-acetyl-L-glutamate 5-semialdehyde + NADP+ + phosphate = N-acetyl-5-glutamyl phosphate + NADPH + H+.
	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: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:0004073	aspartate-semialdehyde dehydrogenase activity	Catalysis of the reaction: L-aspartate 4-semialdehyde + NADP(+) + phosphate = 4-phospho-L-aspartate + H(+) + NADPH.
	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.
	GO:0016620	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces NAD or NADP.
	GO:0046983	protein dimerization activity	The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
biological process
	GO:0071266	'de novo' L-methionine biosynthetic process	The chemical reactions and pathways resulting in the formation of L-methionine, the L-enantiomer of (2S)-2-amino-4-(methylsulfanyl)butanoic acid, from simpler components.
	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:0006520	cellular amino acid metabolic process	The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.
	GO:0019877	diaminopimelate biosynthetic process	The chemical reactions and pathways resulting in the formation of diaminopimelate, both as an intermediate in lysine biosynthesis and as a component (as meso-diaminopimelate) of the peptidoglycan of Gram-negative bacterial cell walls.
	GO:0009097	isoleucine biosynthetic process	The chemical reactions and pathways resulting in the formation of isoleucine, (2R,3R)-2-amino-3-methylpentanoic acid.
	GO:0009085	lysine biosynthetic process	The chemical reactions and pathways resulting in the formation of lysine, 2,6-diaminohexanoic acid.
	GO:0009089	lysine biosynthetic process via diaminopimelate	The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate.
	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: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:0009088	threonine biosynthetic process	The chemical reactions and pathways resulting in the formation of threonine (2-amino-3-hydroxybutyric acid), a polar, uncharged, essential amino acid found in peptide linkage in proteins.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	DHAS_HAEIN \| P44801	:	1nwc 1nx6 1oza 1pqp 1pqu 1pr3 1ps8 1pu2 1q2x 1ta4 1tb4

1brm	ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM E.COLI
1gl3	ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM E. COLI WITH NADP AND S-METHYL CYSTEINE SULFOXIDE
1mb4	ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM VIBRIO CHOLERAE WITH NADP AND S-METHYL CYSTEINE SULFOXIDE
1mc4	ASPARTATE SEMIALDEHYDE FROM VIBRIO CHOLERAE
1nx6	CRYSTAL STRUCTURE OF ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM HAEMOPHILUS INFLUENZAE AS A TETRAHEDRAL HEMITHIOCETAL REACTION INTERMEDIATE WITH PHOSPHATE AT 2.15 A

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