2VHE - JenaLib

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Title :   PGLD-COA COMPLEX: AN ACETYL TRANSFERASE FROM CAMPYLOBACTER JEJUNI

Authors :   E. S. Rangarajan, K. M. Ruane, T. Sulea, D. C. Watson, A. Proteau, S. Lecl M. Cygler, A. Matte, N. M. Young

Date :   21 Nov 07 (Deposition) - 29 Jan 08 (Release) - 28 Sep 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : A,B,C^#
Biol. Unit 1: A  (3x)
Biol. Unit 2: B  (3x)
( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Keywords :   Coenzyme A, Transferase, N-Acetyl Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. S. Rangarajan, K. M. Ruane, T. Sulea, D. C. Watson, A. Proteau, S. Leclerc, M. Cygler, A. Matte, N. M. Young
Structure And Active Site Residues Of Pgld, An N- Acetyltransferase From The Bacillosamine Synthetic Pathway Required For N-Glycan Synthesis In Campylobacter Jejuni
Biochemistry V. 47 1827 2008
PubMed-ID: 18198901 | Reference-DOI: 10.1021/BI702032R

Molecule 1 - ACETYLTRANSFERASE
	Chains	:	A, B
	EC Number	:	2.7.7.23
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(RIPL)
	Expression System Taxid	:	511693
	Fragment	:	RESIDUES 2-195
	Organism Scientific	:	CAMPYLOBACTER JEJUNI
	Organism Taxid	:	197
	Synonym	:	N-ACETYLTRANSFERASE

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

( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	COA	2	Ligand/Ion	COENZYME A
2	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 9)

No.	Name	Count	Type	Full Name
1	COA	3	Ligand/Ion	COENZYME A
2	SO4	6	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	COA	3	Ligand/Ion	COENZYME A
2	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:136 , VAL A:137 , ALA A:142 , PHE A:152 , GLY A:154 , ILE A:155 , LEU A:160 , PRO A:161 , GLY A:172 , GLY A:173 , VAL A:188 , PRO A:191 , MET A:195 , HOH A:2136 , HOH A:2137 , HOH A:2139 , HOH A:2140	BINDING SITE FOR RESIDUE COA A 300
2	AC2	SOFTWARE	SER A:44 , HOH A:2044 , HOH A:2069 , SER B:136 , VAL B:137 , ALA B:142 , PHE B:152 , GLY B:154 , ILE B:155 , LEU B:160 , PRO B:161 , GLY B:172 , GLY B:173 , VAL B:178 , LYS B:179 , PRO B:191 , MET B:195 , HOH B:2117 , HOH B:2118 , HOH B:2119	BINDING SITE FOR RESIDUE COA B 300
3	AC3	SOFTWARE	PRO A:47 , LYS A:48 , HOH A:2049 , SER B:13 , GLY B:14 , HIS B:15 , HIS B:125 , ASN B:144 , HOH B:2078 , HOH B:2086 , HOH C:2002	BINDING SITE FOR RESIDUE SO4 A 301
4	AC4	SOFTWARE	SER A:13 , GLY A:14 , HIS A:15 , HIS A:125 , HOH C:2003	BINDING SITE FOR RESIDUE SO4 A 302

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

Asymmetric Unit

No.	Residues
1	Val A:190	-	Pro A:191
2	Val B:190	-	Pro B:191

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

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

(no "Exon" information available for 2VHE)

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:194
 aligned with PGLD_CAMJE | Q0P9D1 from UniProtKB/Swiss-Prot  Length:195

    Alignment length:194
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191    
           PGLD_CAMJE     2 ARTEKIYIYGASGHGLVCEDVAKNMGYKECIFLDDFKGMKFESTLPKYDFFIAIGNNEIRKKIYQKISENGFKIVNLIHKSALISPSAIVEENAGILIMPYVVINAKAKIEKGVILNTSSVIEHECVIGEFSHVSVGAKCAGNVKIGKNCFLGINSCVLPNLSLADDSILGGGATLVKNQDEKGVFVGVPAKRM 195
               SCOP domains d2vhea_ A: Acetyltransferase PglD                                                                                                                                                                  SCOP domains
               CATH domains 2vheA01 A:2-76  [code=3.40.50.20, no name defined]                         2vheA02 A:77-188 Hexapeptide repeat proteins                                                                    ------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..hhhhhhhhhhhhhh...eeeee...............eeee...hhhhhhhhhhhhhhh......ee....ee....ee......ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee........eee....ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vhe A   2 ARTEKIYIYGASGHGLVCEDVAKNMGYKECIFLDDFKGMKFESTLPKYDFFIAIGNNEIRKKIYQKISENGFKIVNLIHKSALISPSAIVEENAGILIMPYVVINAKAKIEKGVILNTSSVIEHECVIGEFSHVSVGAKCAGNVKIGKNCFLGINSCVLPNLSLADDSILGGGATLVKNQDEKGVFVGVPAKRM 195
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191

Chain B from PDB  Type:PROTEIN  Length:181
 aligned with PGLD_CAMJE | Q0P9D1 from UniProtKB/Swiss-Prot  Length:195

    Alignment length:194
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191    
           PGLD_CAMJE     2 ARTEKIYIYGASGHGLVCEDVAKNMGYKECIFLDDFKGMKFESTLPKYDFFIAIGNNEIRKKIYQKISENGFKIVNLIHKSALISPSAIVEENAGILIMPYVVINAKAKIEKGVILNTSSVIEHECVIGEFSHVSVGAKCAGNVKIGKNCFLGINSCVLPNLSLADDSILGGGATLVKNQDEKGVFVGVPAKRM 195
               SCOP domains d2vheb_ B: Acetyltransferase PglD                                                                                                                                                                  SCOP domains
               CATH domains 2vheB01 B:2-76  [code=3.40.50.20,            no name defined]              2vheB02 B:77-188 Hexapeptide repeat proteins                                                                    ------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..hhhhhhhhhhhhhhh..eeeee.-----------...eeee...hhhhhhhhhhhhhhh......ee....ee....ee......ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....--..eee....ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vhe B   2 ARTEKIYIYGASGHGLVCEDVAKNMGYKECIFLD-----------PKYDFFIAIGNNEIRKKIYQKISENGFKIVNLIHKSALISPSAIVEENAGILIMPYVVINAKAKIEKGVILNTSSVIEHECVIGEFSHVSVGAKCAGNVKIGKNCFLGINSCVLPNLSLADDSILGGGATLVKNQ--KGVFVGVPAKRM 195
                                    11        21        31   |     -     |  51        61        71        81        91       101       111       121       131       141       151       161       171       181  |    191    
                                                            35          47                                                                                                                                   181  |           
                                                                                                                                                                                                                184

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: All beta proteins (24004)

Fold: Single-stranded left-handed beta-helix (154)

Superfamily: Trimeric LpxA-like enzymes (147)

Family: PglD-like (6)

Protein domain: Acetyltransferase PglD (6)

Campylobacter jejuni [TaxId: 197] (6)

1a	d2vhea_	A:
1b	d2vheb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.20, no name defined] (85)

Campylobacter jejuni. Organism_taxid: 197. (1)

1a	2vheA01	A:2-76
1b	2vheB01	B:2-76

Class: Mainly Beta (13760)

Architecture: 3 Solenoid (196)

Topology: UDP N-Acetylglucosamine Acyltransferase; domain 1 (90)

Homologous Superfamily: Hexapeptide repeat proteins (85)

Campylobacter jejuni. Organism_taxid: 197. (1)

2a	2vheA02	A:77-188
2b	2vheB02	B:77-188

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (PGLD_CAMJE | Q0P9D1)

molecular function
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0016746	transferase activity, transferring acyl groups	Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
	GO:0016747	transferase activity, transferring acyl groups other than amino-acyl groups	Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
biological process
	GO:0018279	protein N-linked glycosylation via asparagine	The glycosylation of protein via the N4 atom of peptidyl-asparagine forming N4-glycosyl-L-asparagine; the most common form is N-acetylglucosaminyl asparagine; N-acetylgalactosaminyl asparagine and N4 glucosyl asparagine also occur. This modification typically occurs in extracellular peptides with an N-X-(ST) motif. Partial modification has been observed to occur with cysteine, rather than serine or threonine, in the third position; secondary structure features are important, and proline in the second or fourth positions inhibits modification.
	GO:0006486	protein glycosylation	A protein modification process that results in the addition of a carbohydrate or carbohydrate derivative unit to a protein amino acid, e.g. the addition of glycan chains to proteins.

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	Cis Peptide Bonds
		Val A:190 - Pro A:191	[ RasMol ]
		Val B:190 - Pro B:191	[ RasMol ]

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	PGLD_CAMJE \| Q0P9D1	:	2npo 3bfp 3bss 3bsw 3bsy 5t2y 5tyh

3bhp	CRYSTAL STRUCTURE OF APO-PGLD FROM CAMPYLOBACTER JEJUNI

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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