4IPT - JenaLib

Title :   THE CRYSTAL STRUCTURE OF A SHORT-CHAIN DEHYDROGENASES/REDUCTASE (ETHYLATED) FROM VEILLONELLA PARVULA DSM 2008

Authors :   K. Tan, C. Hatzos-Skintges, S. Clancy, A. Joachimiak, Midwest Center Structural Genomics (Mcsg)

Date :   10 Jan 13 (Deposition) - 06 Feb 13 (Release) - 06 Feb 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.55

Chains :   Asym./Biol. Unit : A

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

Reference :   K. Tan, C. Hatzos-Skintges, S. Clancy, A. Joachimiak
The Crystal Structure Of A Short-Chain Dehydrogenases/Reductase (Ethylated) From Veillonella Parvula Dsm 2008
To Be Published
PubMed: search

Compounds

Molecule 1 - NAD-DEPENDENT EPIMERASE/DEHYDRATASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21(DE3)MAGIC
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	VPAR_0111
	Organism Scientific	:	VEILLONELLA PARVULA
	Organism Taxid	:	479436
	Strain	:	DSM 2008
	Synonym	:	SHORT-CHAIN DEHYDROGENASES/REDUCTASE

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (7, 15)

Asymmetric/Biological Unit (7, 15)

No.	Name	Count	Type	Full Name
1	CL	2	Ligand/Ion	CHLORIDE ION
2	ELY	3	Mod. Amino Acid	N~6~,N~6~-DIETHYL-L-LYSINE
3	FMT	2	Ligand/Ion	FORMIC ACID
4	GOL	1	Ligand/Ion	GLYCEROL
5	MSE	5	Mod. Amino Acid	SELENOMETHIONINE
6	PEG	1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
7	PG4	1	Ligand/Ion	TETRAETHYLENE GLYCOL

Sites (7, 7)

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MSE A:105 , ALA A:106 , PHE A:112 , LEU A:151 , THR A:152 , PG4 A:307 , HOH A:411 , HOH A:414 , HOH A:466	BINDING SITE FOR RESIDUE GOL A 301
2	AC2	SOFTWARE	GLN A:13 , ILE A:14 , ARG A:179	BINDING SITE FOR RESIDUE CL A 302
3	AC3	SOFTWARE	GLY A:9 , ALA A:10 , ALA A:11 , HOH A:430	BINDING SITE FOR RESIDUE CL A 303
4	AC4	SOFTWARE	GLY A:62 , GLN A:66 , HIS A:211	BINDING SITE FOR RESIDUE PEG A 304
5	AC5	SOFTWARE	ARG A:94 , ARG A:140 , TYR A:146 , GLU A:168 , SER A:202	BINDING SITE FOR RESIDUE FMT A 305
6	AC6	SOFTWARE	ELY A:38	BINDING SITE FOR RESIDUE FMT A 306
7	AC7	SOFTWARE	ASN A:123 , LEU A:124 , GOL A:301	BINDING SITE FOR RESIDUE PG4 A 307

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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

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Chain A from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...hhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhh...eeeee....hhhhhhhhhh...eeee....hhhhhhhhhhhhhhh...eeeeeee.......hhhhhhhhhhh.hhhhhhhhhhhhhhhhhh..eeeeeee.eee........eee.........eeehhhhhhhhhhhhh...hhhhh.eeeeee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ipt A   1 mYKYITILGAAGQIAQkLTATLLTYTDmHITLYGRQLkTRIPPEIIDHERVTVIEGSFQNPGKLEQAVTNAEVVFVGAmESGSDmASIVKALSRKNIRRVIGVSmAGLSGEFPVALEKWTFDNLPISYVQGERQARNVLRESNLNYTILRLTWLYNDPEKTDYELIPEGAQFNDAQVSREAVVkAIFDILHAADETPFHRTSIGVGEPGTHYDKPSFH 218
                            |       10      | 20       |30       |40        50        60        70        80    |   90       100    |  110       120       130       140       150       160       170       180   |   190       200       210        
                            |              17-ELY     28-MSE    38-ELY                                   79-MSE |                 105-MSE                                                                        184-ELY                              
                            1-MSE                                                                              85-MSE

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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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (1, 1)

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