1A5Z - JenaLib

Title :   LACTATE DEHYDROGENASE FROM THERMOTOGA MARITIMA (TMLDH)

Authors :   G. Auerbach, R. Ostendorp, L. Prade, I. Korndoerfer, T. Dams, R. Huber, R. Jaenicke

Date :   18 Feb 98 (Deposition) - 23 Mar 99 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   Oxidoreductase, Glycolysis, Hyperthermophiles, Thermotoga Maritima, Protein Stability (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Auerbach, R. Ostendorp, L. Prade, I. Korndorfer, T. Dams, R. Huber, R. Jaenicke
Lactate Dehydrogenase From The Hyperthermophilic Bacterium Thermotoga Maritima: The Crystal Structure At 2. 1 A Resolution Reveals Strategies For Intrinsic Protein Stabilization.
Structure V. 6 769 1998
PubMed-ID: 9655830 | Reference-DOI: 10.1016/S0969-2126(98)00078-1
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 7)

Sites (7, 7)

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:173 , ARG A:185 , SER A:186 , VAL A:187 , HIS A:188 , TYR A:190 , MET A:207 , GLY A:209A , GLY A:209B , VAL A:268 , HOH A:378 , HOH A:441 , HOH A:542	BINDING SITE FOR RESIDUE FBP A 353
2	AC2	SOFTWARE	GLU A:60 , TYR A:79 , ALA A:80 , ASP A:84 , ASP A:87 , SER A:221 , LYS A:222 , GLU A:226 , HOH A:357 , HOH A:375 , HOH A:391 , HOH A:462 , HOH A:546 , HOH A:547 , HOH A:551	BINDING SITE FOR RESIDUE FBP A 354
3	AC3	SOFTWARE	GLU A:230 , GLU A:238 , GLU A:241 , HOH A:537 , HOH A:613	BINDING SITE FOR RESIDUE CD A 1
4	AC4	SOFTWARE	GLU A:259 , GLU A:265	BINDING SITE FOR RESIDUE CD A 2
5	AC5	SOFTWARE	ASP A:168 , HIS A:195 , OXM A:355 , HOH A:461 , HOH A:612 , HOH A:620	BINDING SITE FOR RESIDUE CD A 3
6	AC6	SOFTWARE	CD A:3 , ASN A:140 , HIS A:195 , ALA A:236 , ILE A:240 , NAD A:352 , HOH A:388 , HOH A:652 , HOH A:678	BINDING SITE FOR RESIDUE OXM A 355
7	AC7	SOFTWARE	GLY A:28 , GLY A:30 , ARG A:31 , VAL A:32 , ASP A:53 , VAL A:54 , ALA A:97 , ALA A:98 , GLY A:99 , VAL A:100 , ASN A:116 , THR A:139 , ASN A:140 , ILE A:240 , ALA A:245 , THR A:246 , OXM A:355 , HOH A:369 , HOH A:467 , HOH A:472 , HOH A:535 , HOH A:582 , HOH A:637 , HOH A:699	BINDING SITE FOR RESIDUE NAD A 352

SS Bonds (2, 2)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

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
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Chain A from PDB  Type:PROTEIN  Length:312
 aligned with LDH_THEMA | P16115 from UniProtKB/Swiss-Prot  Length:319

    Alignment length:312
                                    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  
           LDH_THEMA      1 MKIGIVGLGRVGSSTAFALLMKGFAREMVLIDVDKKRAEGDALDLIHGTPFTRRANIYAGDYADLKGSDVVIVAAGVPQKPGETRLQLLGRNARVMKEIARNVSKYAPDSIVIVVTNPVDVLTYFFLKESGMDPRKVFGSGTVLDTARLRTLIAQHCGFSPRSVHVYVIGEHGDSEVPVWSGAMIGGIPLQNMCQICQKCDSKILENFAEKTKRAAYEIIERKGATHYAIALAVADIVESIFFDEKRVLTLSVYLEDYLGVKDLCISVPVTLGKHGVERILELNLNEEELEAFRKSASILKNAINEITAEEN  312
               SCOP domains d1a5za1 A:22-163 Lactate dehydrogenase                                                                                                      d1a5za2 A:164-333 Lactate dehydrogenase                                                                                                                                      SCOP domains
               CATH domains 1a5zA01 A:22-164 NAD(P)-binding Rossmann-like Domain                                                                                         1a5zA02 A:165-329 L-2-Hydroxyisocaproate Dehydrogenase, subunit A, domain 2                                                                                           ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhhhhh....eeee..hhhh....eeee...........hhhhhhhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhhh......eee...hhhhhhhhhhhhhhh...hhh................hhh.......hhhhhh......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh....eeeeeeeee........eeeeeeeee..............hhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------L_LDH  ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1a5z A   22 MKIGIVGLGRVGSSTAFALLMKGFAREMVLIDVDKKRAEGDALDLIHGTPFTRRANIYAGDYADLKGSDVVIVAAGVPQKPGETRLQLLGRNARVMKEIARNVSKYAPDSIVIVVTNPVDVLTYFFLKESGMDPRKVFGSGTVLDTARLRTLIAQHCGFSPRSVHVYVIGEHGDSEVPVWSGAMIGGIPLQNMCQVCQKCDSKILENFAEKTKRAAYEIIERKGATHYAIALAVADIVESIFFDEKRVLTLSVYLEDYLGVKDLCISVPVTLGKHGVERILELNLNEEELEAFRKSASILKNAINEITAEEN  333
                                    31        41        51        61        71        83        93       103|      114       124       133       143       153       163       173       183       193       203     |210A|      219  ||   230       240       250       260       270       280  ||   291       302       312       322       331  
                                                                                     80|                 103|                       132A|                                                                         209A|||||         222|                                                        283|           299|                         330A|   
                                                                                      83                  105                        132B                                                                          209B||||          224                                                         285            301                          330B   
                                                                                                                                                                                                                    209C|||                                                                                                                         
                                                                                                                                                                                                                     209D||                                                                                                                         
                                                                                                                                                                                                                      210A|                                                                                                                         
                                                                                                                                                                                                                       210B

Legend:		→ Mismatch	(orange background)
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	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 (2, 2)

CATH Domains (2, 2)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

Asymmetric Unit(hide GO term definitions)

Chain A (LDH_THEMA | P16115)

molecular function
	GO:0004459	L-lactate dehydrogenase activity	Catalysis of the reaction: (S)-lactate + NAD+ = pyruvate + NADH + H+.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	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:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0019752	carboxylic acid metabolic process	The chemical reactions and pathways involving carboxylic acids, any organic acid containing one or more carboxyl (COOH) groups or anions (COO-).
	GO:0006096	glycolytic process	The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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