3EJ7 - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   STRUCTURAL AND MECHANISTIC ANALYSIS OF TRANS-3-CHLOROACRYLIC ACID DEHALOGENASE ACTIVITY

Authors :   S. Pegan, H. Serrano, C. P. Whitman, A. D. Mesecar

Date :   17 Sep 08 (Deposition) - 02 Dec 08 (Release) - 02 Dec 08 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F  (1x)
Biol. Unit 2: G,H,I,J,K,L  (1x)

Keywords :   Trans-3-Chloroacrylic Acid Dehalogenase, Caad, Dehalogenase, Isomerase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. D. Pegan, H. Serrano, C. P. Whitman, A. D. Mesecar
Structural And Mechanistic Analysis Of Trans-3-Chloroacrylic Acid Dehalogenase Activity.
Acta Crystallogr. , Sect. D V. 64 1277 2008
PubMed-ID: 19018104 | Reference-DOI: 10.1107/S0907444908034707
(for further references see the PDB file header)

Molecule 1 - ALPHA-SUBUNIT OF TRANS-3-CHLOROACRYLIC ACID DEHALOGENASE
	Chains	:	A, C, E, G, I, K
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET3A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	CAAD1
	Mutation	:	YES
	Organism Scientific	:	PSEUDOMONAS PAVONACEAE
	Organism Taxid	:	47881

Molecule 2 - BETA-SUBUNIT OF TRANS-3-CHLOROACRYLIC ACID DEHALOGENASE
	Chains	:	B, D, F, H, J, L
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET3A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	CAAD2
	Organism Scientific	:	PSEUDOMONAS PAVONACEAE
	Organism Taxid	:	47881

		1	2	3	4	5	6	7	8	9	10	11	12
Asymmetric Unit	:	A	B	C	D	E	F	G	H	I	J	K	L
Biological Unit 1 (1x)	:	A	B	C	D	E	F
Biological Unit 2 (1x)	:							G	H	I	J	K	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:12 , ASP A:13 , GLU A:14 , HOH A:106 , ARG C:25 , ARG C:35 , HOH C:90 , GLU G:14	BINDING SITE FOR RESIDUE SO4 A 76

(no "SS Bond" information available for 3EJ7)

Asymmetric Unit

No.	Residues
1	Gly G:54	-	Glu G:55
2	Glu G:55	-	His G:56
3	Ile J:52	-	Ser J:53

(no "SAP(SNP)/Variant" information available for 3EJ7)

(no "PROSITE Motif" information available for 3EJ7)

(no "Exon" information available for 3EJ7)

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:53
 aligned with Q9EV85_PSEPV | Q9EV85 from UniProtKB/TrEMBL  Length:76

    Alignment length:53
                                    11        21        31        41        51   
          Q9EV85_PSEPV    2 PMISCDMRYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEH 54
               SCOP domains d3ej7a_ A: automated matches                          SCOP domains
               CATH domains ----------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.ee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------- Transcript
                  3ej7 A  1 PMISCDMAYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEH 53
                                    10        20        30        40        50

Chain B from PDB  Type:PROTEIN  Length:57
 aligned with Q9EV84_PSEPV | Q9EV84 from UniProtKB/TrEMBL  Length:71

    Alignment length:57
                                    11        21        31        41        51       
          Q9EV84_PSEPV    2 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIH 58
               SCOP domains d3ej7b_ B: automated matches                              SCOP domains
               CATH domains --------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhh..hhhhheeeeeeehhh.ee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------- Transcript
                  3ej7 B  1 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIH 57
                                    10        20        30        40        50

Chain C from PDB  Type:PROTEIN  Length:59
 aligned with Q9EV85_PSEPV | Q9EV85 from UniProtKB/TrEMBL  Length:76

    Alignment length:59
                                    11        21        31        41        51         
          Q9EV85_PSEPV    2 PMISCDMRYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLPD 60
               SCOP domains d3ej7c_ C: automated matches                                SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.eee..ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  3ej7 C  1 PMISCDMAYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLPD 59
                                    10        20        30        40        50

Chain D from PDB  Type:PROTEIN  Length:57
 aligned with Q9EV84_PSEPV | Q9EV84 from UniProtKB/TrEMBL  Length:71

    Alignment length:57
                                    11        21        31        41        51       
          Q9EV84_PSEPV    2 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIH 58
               SCOP domains d3ej7d_ D: automated matches                              SCOP domains
               CATH domains --------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.ee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------- Transcript
                  3ej7 D  1 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIH 57
                                    10        20        30        40        50

Chain E from PDB  Type:PROTEIN  Length:58
 aligned with Q9EV85_PSEPV | Q9EV85 from UniProtKB/TrEMBL  Length:76

    Alignment length:58
                                    11        21        31        41        51        
          Q9EV85_PSEPV    2 PMISCDMRYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLP 59
               SCOP domains d3ej7e_ E: automated matches                               SCOP domains
               CATH domains ---------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                  3ej7 E  1 PMISCDMAYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLP 58
                                    10        20        30        40        50

Chain F from PDB  Type:PROTEIN  Length:59
 aligned with Q9EV84_PSEPV | Q9EV84 from UniProtKB/TrEMBL  Length:71

    Alignment length:59
                                    11        21        31        41        51         
          Q9EV84_PSEPV    2 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIHGE 60
               SCOP domains d3ej7f_ F: automated matches                                SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.ee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  3ej7 F  1 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIHGE 59
                                    10        20        30        40        50

Chain G from PDB  Type:PROTEIN  Length:56
 aligned with Q9EV85_PSEPV | Q9EV85 from UniProtKB/TrEMBL  Length:76

    Alignment length:56
                                    11        21        31        41        51      
          Q9EV85_PSEPV    2 PMISCDMRYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEH 57
               SCOP domains d3ej7g_ G: automated matches                             SCOP domains
               CATH domains -------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.ee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                  3ej7 G  1 PMISCDMAYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEH 56
                                    10        20        30        40        50

Chain H from PDB  Type:PROTEIN  Length:54
 aligned with Q9EV84_PSEPV | Q9EV84 from UniProtKB/TrEMBL  Length:71

    Alignment length:54
                                    11        21        31        41        51    
          Q9EV84_PSEPV    2 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISG 55
               SCOP domains d3ej7h_ H: automated matches                           SCOP domains
               CATH domains ------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------ Transcript
                  3ej7 H  1 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISG 54
                                    10        20        30        40        50

Chain I from PDB  Type:PROTEIN  Length:59
 aligned with Q9EV85_PSEPV | Q9EV85 from UniProtKB/TrEMBL  Length:76

    Alignment length:59
                                    11        21        31        41        51         
          Q9EV85_PSEPV    2 PMISCDMRYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLPD 60
               SCOP domains d3ej7i_ I: automated matches                                SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.eee..ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  3ej7 I  1 PMISCDMAYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLPD 59
                                    10        20        30        40        50

Chain J from PDB  Type:PROTEIN  Length:56
 aligned with Q9EV84_PSEPV | Q9EV84 from UniProtKB/TrEMBL  Length:71

    Alignment length:56
                                    11        21        31        41        51      
          Q9EV84_PSEPV    2 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRI 57
               SCOP domains d3ej7j_ J: automated matches                             SCOP domains
               CATH domains -------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.ee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                  3ej7 J  1 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRI 56
                                    10        20        30        40        50

Chain K from PDB  Type:PROTEIN  Length:59
 aligned with Q9EV85_PSEPV | Q9EV85 from UniProtKB/TrEMBL  Length:76

    Alignment length:59
                                    11        21        31        41        51         
          Q9EV85_PSEPV    2 PMISCDMRYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLPD 60
               SCOP domains d3ej7k_ K: automated matches                                SCOP domains
               CATH domains ----------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.eee..ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------- Transcript
                  3ej7 K  1 PMISCDMAYGRTDEQKRALSAGLLRVISEATGEPRENIFFVIREGSGINFVEHGEHLPD 59
                                    10        20        30        40        50

Chain L from PDB  Type:PROTEIN  Length:58
 aligned with Q9EV84_PSEPV | Q9EV84 from UniProtKB/TrEMBL  Length:71

    Alignment length:58
                                    11        21        31        41        51        
          Q9EV84_PSEPV    2 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIHG 59
               SCOP domains d3ej7l_ L: automated matches                               SCOP domains
               CATH domains ---------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhhhheeeeeeehhh.ee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                  3ej7 L  1 PFIECHIATGLSVARKQQLIRDVIDVTNKSIGSDPKIINVLLVEHAEANMSISGRIHG 58
                                    10        20        30        40        50

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Tautomerase/MIF (104)

Superfamily: Tautomerase/MIF (104)

Family: 4-oxalocrotonate tautomerase-like (14)

Protein domain: automated matches (3)

Pseudomonas pavonaceae [TaxId: 47881] (3)

1a	d3ej7a_	A:
1b	d3ej7b_	B:
1c	d3ej7c_	C:
1d	d3ej7d_	D:
1e	d3ej7e_	E:
1f	d3ej7f_	F:
1g	d3ej7g_	G:
1h	d3ej7h_	H:
1i	d3ej7i_	I:
1j	d3ej7j_	J:
1k	d3ej7k_	K:
1l	d3ej7l_	L:

(no "CATH Domain" information available for 3EJ7)

(no "Pfam Domain" information available for 3EJ7)

Asymmetric Unit(hide GO term definitions)

Chain A,C,E,G,I,K (Q9EV85_PSEPV | Q9EV85)

molecular function
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
	GO:0006725	cellular aromatic compound metabolic process	The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.

Chain B,D,F,H,J,L (Q9EV84_PSEPV | Q9EV84)

molecular function
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
	GO:0006725	cellular aromatic compound metabolic process	The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.

Asymmetric Unit
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	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Glu G:55 - His G:56	[ RasMol ]
		Gly G:54 - Glu G:55	[ RasMol ]
		Ile J:52 - Ser J:53	[ RasMol ]

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	3ej7
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	Q9EV84_PSEPV \| Q9EV84
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	Q9EV85_PSEPV \| Q9EV85
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	Q9EV84_PSEPV \| Q9EV84
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UniProtKB/TrEMBL
	Q9EV84_PSEPV \| Q9EV84	:	1s0y 3ej3 3ej9
	Q9EV85_PSEPV \| Q9EV85	:	1s0y 3ej3 3ej9

3ej3	MUTANT R8A OF CAAD
3ej9

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (1, 12)

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