2A4A - JenaLib

Title :   DEOXYRIBOSE-PHOSPHATE ALDOLASE FROM P. YOELII

Authors :   J. R. Walker, M. Amani, J. Lew, J. Wiegelt, M. Sundstrom, C. Arrowsmith, A. Edwards, A. Bochkarev, R. Hui, M. Vedadi, Structural Genomics Co (Sgc)

Date :   28 Jun 05 (Deposition) - 06 Sep 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.84

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A (1x),B (1x)
Biol. Unit 4: A,B  (1x)

Keywords :   Lyase, Aldolase, Tim Beta/Alpha Barrel, Deoc, Dera, Structural Genomics, Structural Genomics Consortium, Sgc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Vedadi, J. Lew, J. Artz, M. Amani, Y. Zhao, A. Dong, G. A. Wasney, M. Gao, T. Hills, S. Brokx, W. Qiu, S. Sharma, A. Diassiti, Z. Alam, M. Melone, A. Mulichak, A. Wernimont, J. Bray, P. Loppnau, O. Plotnikova, K. Newberry, E. Sundararajan, S. Houston, J. Walker, W. Tempel, A. Bochkarev, I. Kozieradzki, A. Edwards, C. Arrowsmith, D. Roos, K. Kain, R. Hui
Genome-Scale Protein Expression And Structural Biology Of Plasmodium Falciparum And Related Apicomplexan Organisms.
Mol. Biochem. Parasitol. V. 151 100 2007
PubMed-ID: 17125854 | Reference-DOI: 10.1016/J.MOLBIOPARA.2006.10.011

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

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

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:250
 aligned with Q7RMC9_PLAYO | Q7RMC9 from UniProtKB/TrEMBL  Length:262

    Alignment length:256
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252      
         Q7RMC9_PLAYO     3 NYTEKFAAWSVICLTDHTFLDENGTEDDIRELCNESVKTCPFAAAVCVYPKFVKFINEKIKQEINPFKPKIACVINFPYGTDSMEKVLNDTEKALDDGADEIDLVINYKKIIENTDEGLKEATKLTQSVKKLLTNKILKVIIEVGELKTEDLIIKTTLAVLNGNADFIKTSTGKVQINATPSSVEYIIKAIKEYIKNNPEKNNKIGLKVSGGISDLNTASHYILLARRFLSSLACHPDNFRIGSSSLVIKLRKVIS 258
               SCOP domains d2a4aa1 A:3-258 Fructose-1,6-bisphosphate aldolase                                                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhhhh.....eeeeee.......hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhhh....eee..........hhhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh.------..eeeee.hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a4a A   3 NYTEKFAAWSVICLTDHTFLDENGTEDDIRELCNESVKTCPFAAAVCVYPKFVKFINEKIKQEINPFKPKIACVINFPYGTDSMEKVLNDTEKALDDGADEIDLVINYKKIIENTDEGLKEATKLTQSVKKLLTNKILKVIIEVGELKTEDLIIKTTLAVLNGNADFIKTSTGKVQINATPSSVEYIIKAIKEYIKNNPEKNNKIGLKVSGGISDLNTASHYILLARRFLS------DNFRIGSSSLVIKLRKVIS 258
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232|      242       252      
                                                                                                                                                                                                                                                                233    240

Chain B from PDB  Type:PROTEIN  Length:247
 aligned with Q7RMC9_PLAYO | Q7RMC9 from UniProtKB/TrEMBL  Length:262

    Alignment length:256
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252      
         Q7RMC9_PLAYO     3 NYTEKFAAWSVICLTDHTFLDENGTEDDIRELCNESVKTCPFAAAVCVYPKFVKFINEKIKQEINPFKPKIACVINFPYGTDSMEKVLNDTEKALDDGADEIDLVINYKKIIENTDEGLKEATKLTQSVKKLLTNKILKVIIEVGELKTEDLIIKTTLAVLNGNADFIKTSTGKVQINATPSSVEYIIKAIKEYIKNNPEKNNKIGLKVSGGISDLNTASHYILLARRFLSSLACHPDNFRIGSSSLVIKLRKVIS 258
               SCOP domains d2a4ab_ B: Fructose-1,6-bisphosphate aldolase                                                                                                                                                                                                                    SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh.eeee......hhhhhhhhhhhh........eeeehhhhhhhhhhhhhhhh.....eeeeee.......hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhhhhh....eee..........hhhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh---------.eeee.hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a4a B   3 NYTEKFAAWSVICLTDHTFLDENGTEDDIRELCNESVKTCPFAAAVCVYPKFVKFINEKIKQEINPFKPKIACVINFPYGTDSMEKVLNDTEKALDDGADEIDLVINYKKIIENTDEGLKEATKLTQSVKKLLTNKILKVIIEVGELKTEDLIIKTTLAVLNGNADFIKTSTGKVQINATPSSVEYIIKAIKEYIKNNPEKNNKIGLKVSGGISDLNTASHYILLARRFL---------FRIGSSSLVIKLRKVIS 258
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252      
                                                                                                                                                                                                                                                               232       242

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 (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q7RMC9_PLAYO | Q7RMC9)

molecular function
	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:0004139	deoxyribose-phosphate aldolase activity	Catalysis of the reaction: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
biological process
	GO:0009264	deoxyribonucleotide catabolic process	The chemical reactions and pathways resulting in the breakdown of a deoxyribonucleotide, a compound consisting of deoxyribonucleoside (a base linked to a deoxyribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
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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