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Title :   CRYSTAL STRUCTURE OF PUTATIVE OXIDOREDUCTASE (YP_050235.1) FROM ERWINIA CAROTOVORA ATROSEPTICA SCRI1043 AT 1.25 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   07 Mar 07 (Deposition) - 20 Mar 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.25

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

Keywords :   Yp_050235. 1, Putative, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Oxidoreductase (Yp_050235. 1) From Erwinia Carotovora Atroseptica Scri1043 At 1. 25 A Resolution
To Be Published
PubMed: search

Molecule 1 - PUTATIVE OXIDOREDUCTASE
	Atcc	:	BAA-672
	Chains	:	A, B
	EC Number	:	1.1.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	YP_050235.1, ECA2140
	Organism Scientific	:	PECTOBACTERIUM ATROSEPTICUM SCRI1043
	Organism Taxid	:	218491
	Strain	:	SCRI 1043

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 17)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	EDO	6	Ligand/Ion	1,2-ETHANEDIOL
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:287 , HOH A:400 , HOH A:479 , HOH B:454 , HOH B:498	BINDING SITE FOR RESIDUE MG A 336
2	AC2	SOFTWARE	HOH A:460 , HOH A:587 , HOH A:598 , HOH A:599 , HOH A:647 , HOH A:651	BINDING SITE FOR RESIDUE MG A 337
3	AC3	SOFTWARE	HIS B:13 , LYS B:96 , HIS B:156 , HOH B:370 , HOH B:585	BINDING SITE FOR RESIDUE ACT B 336
4	AC4	SOFTWARE	VAL A:139 , GLN A:140 , TYR A:189 , PHE A:190 , HOH A:507 , HOH A:634	BINDING SITE FOR RESIDUE EDO A 338
5	AC5	SOFTWARE	MSE A:151 , ARG A:249 , LEU A:250 , THR A:251 , HOH A:401	BINDING SITE FOR RESIDUE EDO A 339
6	AC6	SOFTWARE	ARG A:305 , HOH A:706	BINDING SITE FOR RESIDUE EDO A 340
7	AC7	SOFTWARE	THR B:194 , GLU B:306 , HOH B:586 , HOH B:700	BINDING SITE FOR RESIDUE EDO B 337
8	AC8	SOFTWARE	VAL B:139 , GLN B:140 , TYR B:189 , HOH B:531 , HOH B:636	BINDING SITE FOR RESIDUE EDO B 338
9	AC9	SOFTWARE	LYS A:169 , GLY A:173 , GLN A:328 , HOH A:608 , HOH A:679	BINDING SITE FOR RESIDUE EDO A 341

(no "SS Bond" information available for 2P2S)

Asymmetric/Biological Unit

No.	Residues
1	Lys A:96	-	Pro A:97
2	Lys B:96	-	Pro B:97

(no "SAP(SNP)/Variant" information available for 2P2S)

(no "PROSITE Motif" information available for 2P2S)

(no "Exon" information available for 2P2S)

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:334
 aligned with Q6D5A0_PECAS | Q6D5A0 from UniProtKB/TrEMBL  Length:335

    Alignment length:334
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331    
         Q6D5A0_PECAS     2 KKIRFAAIGLAHNHIYDMCQQLIDAGAELAGVFESDSDNRAKFTSLFPSVPFAASAEQLITDASIDLIACAVIPCDRAELALRTLDAGKDFFTAKPPLTTLEQLDAVQRRVAETGRKFAVYFNERINVDSALFAGELVQRGEIGRVIQTMGVGPHRERGARPDWFYQKRQYGGILCDIGIHQIEQFLYFTGNTNARVVTSQTANYHHPHHPEFEDFGDAMLLGDNGATGYFRCDWFTPDGLSVWGDGRLTILGTEGYIEIRKYVDLTRGESNVVYLVNGKGEQRFTPAGSVERAFFPDFLRDCRERTENAMSQSHIFKATELSILAQQAANKIA 335
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2p2sA01 A:2-122,A:294-310 NAD(P)-binding Rossmann-like Domain                                                            2p2sA02 A:123-293,A:311-335 Dihydrodipicolinate Reductase; domain 2                                                                                                        2p2sA01          2p2sA02                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee....hhhhhhhhhhhhh..eeeeee......hhhhhhhh.......hhhhhhh.....eeee..hhhhhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhh..eee.......hhhhhhhhhhhhh.....eeeeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee............eeeeeeee....eeeeeee.............eeeeee...eeeee...........eeeee....eeee........hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p2s A   2 KKIRFAAIGLAHNHIYDmCQQLIDAGAELAGVFESDSDNRAKFTSLFPSVPFAASAEQLITDASIDLIACAVIPCDRAELALRTLDAGKDFFTAKPPLTTLEQLDAVQRRVAETGRKFAVYFNERINVDSALFAGELVQRGEIGRVIQTmGVGPHRERGARPDWFYQKRQYGGILCDIGIHQIEQFLYFTGNTNARVVTSQTANYHHPHHPEFEDFGDAmLLGDNGATGYFRCDWFTPDGLSVWGDGRLTILGTEGYIEIRKYVDLTRGESNVVYLVNGKGEQRFTPAGSVERAFFPDFLRDCRERTENAmSQSHIFKATELSILAQQAANKIA 335
                                    11       |21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311|      321       331    
                                            19-MSE                                                                                                                             151-MSE                                                               221-MSE                                                                                    312-MSE

Chain B from PDB  Type:PROTEIN  Length:334
 aligned with Q6D5A0_PECAS | Q6D5A0 from UniProtKB/TrEMBL  Length:335

    Alignment length:334
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331    
         Q6D5A0_PECAS     2 KKIRFAAIGLAHNHIYDMCQQLIDAGAELAGVFESDSDNRAKFTSLFPSVPFAASAEQLITDASIDLIACAVIPCDRAELALRTLDAGKDFFTAKPPLTTLEQLDAVQRRVAETGRKFAVYFNERINVDSALFAGELVQRGEIGRVIQTMGVGPHRERGARPDWFYQKRQYGGILCDIGIHQIEQFLYFTGNTNARVVTSQTANYHHPHHPEFEDFGDAMLLGDNGATGYFRCDWFTPDGLSVWGDGRLTILGTEGYIEIRKYVDLTRGESNVVYLVNGKGEQRFTPAGSVERAFFPDFLRDCRERTENAMSQSHIFKATELSILAQQAANKIA 335
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2p2sB01 B:2-122,B:294-310 NAD(P)-binding Rossmann-like Domain                                                            2p2sB02 B:123-293,B:311-335 Dihydrodipicolinate Reductase; domain 2                                                                                                        2p2sB01          2p2sB02                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee....hhhhhhhhhhhhh..eeeeee......hhhhhhhh.......hhhhhhh.....eeee..hhhhhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhh..eee.......hhhhhhhhhhhhh.....eeeeeeeee.......hhhhhhhhhhh....hhhhhhhhhhhhhhh...eeeeeeeee............eeeeeeee....eeeeeee.............eeeeee...eeeee...........eeeeee..eeeee........hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhheeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p2s B   2 KKIRFAAIGLAHNHIYDmCQQLIDAGAELAGVFESDSDNRAKFTSLFPSVPFAASAEQLITDASIDLIACAVIPCDRAELALRTLDAGKDFFTAKPPLTTLEQLDAVQRRVAETGRKFAVYFNERINVDSALFAGELVQRGEIGRVIQTmGVGPHRERGARPDWFYQKRQYGGILCDIGIHQIEQFLYFTGNTNARVVTSQTANYHHPHHPEFEDFGDAmLLGDNGATGYFRCDWFTPDGLSVWGDGRLTILGTEGYIEIRKYVDLTRGESNVVYLVNGKGEQRFTPAGSVERAFFPDFLRDCRERTENAmSQSHIFKATELSILAQQAANKIA 335
                                    11       |21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311|      321       331    
                                            19-MSE                                                                                                                             151-MSE                                                               221-MSE                                                                                    312-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 '\|'

(no "SCOP Domain" information available for 2P2S)

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)

Pectobacterium atrosepticum scri1043. Organism_taxid: 218491. Strain:scri 1043. (1)

1a	2p2sA02	A:123-293,A:311-335
1b	2p2sB02	B:123-293,B:311-335

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

Topology: Rossmann fold (7312)

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

Pectobacterium atrosepticum scri1043. Organism_taxid: 218491. Strain:scri 1043. (1)

2a	2p2sA01	A:2-122,A:294-310
2b	2p2sB01	B:2-122,B:294-310

(no "Pfam Domain" information available for 2P2S)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q6D5A0_PECAS | Q6D5A0)

molecular function
	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.
biological process
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Lys A:96 - Pro A:97	[ RasMol ]
		Lys B:96 - Pro B:97	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (4, 17)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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