2IQQ - JenaLib

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Title :   THE CRYSTAL STRUCTURE OF IRON, SULFUR-DEPENDENT L-SERINE DEHYDRATASE FROM LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA

Authors :   Y. Kim, C. Hatzos, S. Moy, A. Joachimiak, Midwest Center For Structu Genomics (Mcsg)

Date :   14 Oct 06 (Deposition) - 14 Nov 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.66

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

Keywords :   Alpha-Beta, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kim, C. Hatzos, S. Moy, A. Joachimiak
The Crystal Structure Of Iron, Sulfur-Dependent L-Serine Dehydratase From Legionella Pneumophila Subsp. Pneumophila
To Be Published
PubMed: search

Molecule 1 - IRON, SULFUR-DEPENDENT L-SERINE DEHYDRATASE
	Chains	:	A, B
	EC Number	:	4.3.1.17
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	SDH_BETA (RESIDUES 4-161)
	Organism Scientific	:	LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA
	Organism Taxid	:	272624
	Strain	:	PHILADELPHIA 1
	Synonym	:	IRON, SULFUR-DEPENDENT

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 10)

No.	Name	Count	Type	Full Name
1	MG	2	Ligand/Ion	MAGNESIUM ION
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 8)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 4)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 4)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:89 , ASP A:90 , ASN A:92	BINDING SITE FOR RESIDUE MG A 201
2	AC2	SOFTWARE	LEU B:89 , ASP B:90 , ASN B:92	BINDING SITE FOR RESIDUE MG B 202

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

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

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

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

(no "Exon" information available for 2IQQ)

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:145
 aligned with Q5ZXE1_LEGPH | Q5ZXE1 from UniProtKB/TrEMBL  Length:458

    Alignment length:145
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156     
         Q5ZXE1_LEGPH    17 SSHTVGPMLAANAFLQLLEQKNLFDKTQRVKVELYGSLALTGKGHGTDKAILNGLENKAPETVDPASMIPRMHEILDSNLLNLAGKKEIPFHEATDFLFLQKELLPKHSNGMRFSAFDGNANLLIEQVYYSIGGGFITTEEDFDK 161
               SCOP domains d2iqqa1 A:14-158 L-serine dehydratase SdhL, N-terminal domain                                                                                     SCOP domains
               CATH domains 2iqqA00 A:14-158 D-3-phosphoglycerate dehydrogenase; domain 3                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.......eeeeeehhhhhhh....hhhhhhhhhhh.......hhhhhhhhhhhhhhhheeeehhheeee.hhhhheee...........eeeeeee.....eeeeeeeeee...eeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2iqq A  14 SSHTVGPmLAANAFLQLLEQKNLFDKTQRVKVELYGSLALTGKGHGTDKAILNGLENKAPETVDPASmIPRmHEILDSNLLNLAGKKEIPFHEATDFLFLQKELLPKHSNGmRFSAFDGNANLLIEQVYYSIGGGFITTEEDFDK 158
                                   |23        33        43        53        63        73       |83 |      93       103       113       123 |     133       143       153     
                                  21-MSE                                                      81-MSE                                     125-MSE                             
                                                                                                  85-MSE

Chain B from PDB  Type:PROTEIN  Length:145
 aligned with Q5ZXE1_LEGPH | Q5ZXE1 from UniProtKB/TrEMBL  Length:458

    Alignment length:145
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156     
         Q5ZXE1_LEGPH    17 SSHTVGPMLAANAFLQLLEQKNLFDKTQRVKVELYGSLALTGKGHGTDKAILNGLENKAPETVDPASMIPRMHEILDSNLLNLAGKKEIPFHEATDFLFLQKELLPKHSNGMRFSAFDGNANLLIEQVYYSIGGGFITTEEDFDK 161
               SCOP domains d2iqqb_ B: automated matches                                                                                                                      SCOP domains
               CATH domains 2iqqB00 B:14-158 D-3-phosphoglycerate dehydrogenase; domain 3                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.......eeeeeeehhhhhh....hhhhhhhhhhh.......hhhhhhhhhhhhhhhheeeehhheeee.hhhhheeee..........eeeeeee.....eeeeeeeeee...eeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2iqq B  14 SSHTVGPmLAANAFLQLLEQKNLFDKTQRVKVELYGSLALTGKGHGTDKAILNGLENKAPETVDPASmIPRmHEILDSNLLNLAGKKEIPFHEATDFLFLQKELLPKHSNGmRFSAFDGNANLLIEQVYYSIGGGFITTEEDFDK 158
                                   |23        33        43        53        63        73       |83 |      93       103       113       123 |     133       143       153     
                                  21-MSE                                                      81-MSE                                     125-MSE                             
                                                                                                  85-MSE

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: 60s Ribosomal Protein L30; Chain: A; (235)

Homologous Superfamily: D-3-phosphoglycerate dehydrogenase; domain 3 (5)

Pneumophila str (Legionella pneumophila subsp) (1)

1a	2iqqA00	A:14-158
1b	2iqqB00	B:14-158

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q5ZXE1_LEGPH | Q5ZXE1)

molecular function
	GO:0051539	4 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0003941	L-serine ammonia-lyase activity	Catalysis of the reaction: L-serine = pyruvate + NH3.
	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.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0006094	gluconeogenesis	The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol.

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Biological Units
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2iaf	CRYSTAL STRUCTURE OF A FRAGMENT (RESIDUES 11 TO 161) OF L- SERINE DEHYDRATASE FROM LEGIONELLA PNEUMOPHILA RELATED ID: APC86037.2 RELATED DB: TARGETDB

Description

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