1PP4 - JenaLib

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Title :   THE CRYSTAL STRUCTURE OF RHAMNOGALACTURONAN ACETYLESTERASE IN SPACE GROUP P3121

Authors :   A. Molgaard, S. Larsen

Date :   16 Jun 03 (Deposition) - 02 Mar 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Gds(L) Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Molgaard, S. Larsen
Crystal Packing In Two Ph-Dependent Crystal Forms Of Rhamnogalacturonan Acetylesterase.
Acta Crystallogr. , Sect. D V. 60 472 2004
PubMed-ID: 14993671 | Reference-DOI: 10.1107/S0907444903029767
(for further references see the PDB file header)

Molecule 1 - RHAMNOGALACTURONAN ACETYLESTERASE
	Chains	:	A, B
	EC Number	:	3.1.1.-
	Engineered	:	YES
	Expression System	:	ASPERGILLUS ORYZAE
	Expression System Plasmid	:	PHD464
	Expression System Strain	:	KSM 510
	Expression System Taxid	:	5062
	Expression System Vector Type	:	PLASMID
	Gene	:	RHA1
	Organism Scientific	:	ASPERGILLUS ACULEATUS
	Organism Taxid	:	5053
	Synonym	:	RGAE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:182	BINDING SITE FOR RESIDUE NAG A 301
2	AC2	SOFTWARE	TYR A:97 , VAL A:99 , ASN A:104	BINDING SITE FOR RESIDUE NAG A 302
3	AC3	SOFTWARE	ASN B:182	BINDING SITE FOR RESIDUE NAG B 301
4	AC4	SOFTWARE	VAL B:99 , ASN B:104 , HOH B:304 , HOH B:330	BINDING SITE FOR RESIDUE NAG B 302

Asymmetric Unit

No.	Residues
1	A:88	-	A:96
2	A:214	-	A:232
3	B:88	-	B:96
4	B:214	-	B:232

(no "Cis Peptide Bond" information available for 1PP4)

(no "SAP(SNP)/Variant" information available for 1PP4)

(no "PROSITE Motif" information available for 1PP4)

(no "Exon" information available for 1PP4)

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:233
 aligned with RHA1_ASPAC | Q00017 from UniProtKB/Swiss-Prot  Length:250

    Alignment length:233
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247   
           RHA1_ASPAC    18 TTVYLAGDSTMAKNGGGSGTNGWGEYLASYLSATVVNDAVAGRSARSYTREGRFENIADVVTAGDYVIVEFGHNDGGSLSTDNGRTDCSGTGAEVCYSVYDGVNETILTFPAYLENAAKLFTAKGAKVILSSQTPNNPWETGTFVNSPTRFVEYAELAAEVAGVEYVDHWSYVDSIYETLGNATVNSYFPIDHTHTSPAGAEVVAEAFLKAVVCTGTSLKSVLTTTSFEGTCL 250
               SCOP domains d1pp4a_ A: Rhamnogalacturonan acetylesterase                                                                                                                                                                                              SCOP domains
               CATH domains 1pp4A00 A:1-233  [code=3.40.50.1110, no name defined]                                                                                                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..............hhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhh....eeeee.......hhhhh.............eeeee..eeeee.hhhhhhhhhhhhhhhh..eeeee.................hhhhhhhhhhhhhhh.eeehhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pp4 A   1 TTVYLAGDSTMAKNGGGSGTNGWGEYLASYLSATVVNDAVAGRSARSYTREGRFENIADVVTAGDYVIVEFGHNDGGSLSTDNGRTDCSGTGAEVCYSVYDGVNETILTFPAYLENAAKLFTAKGAKVILSSQTPNNPWETGTFVNSPTRFVEYAELAAEVAGVEYVDHWSYVDSIYETLGNATVNSYFPIDHTHTSPAGAEVVAEAFLKAVVCTGTSLKSVLTTTSFEGTCL 233
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230

Chain B from PDB  Type:PROTEIN  Length:233
 aligned with RHA1_ASPAC | Q00017 from UniProtKB/Swiss-Prot  Length:250

    Alignment length:233
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247   
           RHA1_ASPAC    18 TTVYLAGDSTMAKNGGGSGTNGWGEYLASYLSATVVNDAVAGRSARSYTREGRFENIADVVTAGDYVIVEFGHNDGGSLSTDNGRTDCSGTGAEVCYSVYDGVNETILTFPAYLENAAKLFTAKGAKVILSSQTPNNPWETGTFVNSPTRFVEYAELAAEVAGVEYVDHWSYVDSIYETLGNATVNSYFPIDHTHTSPAGAEVVAEAFLKAVVCTGTSLKSVLTTTSFEGTCL 250
               SCOP domains d1pp4b_ B: Rhamnogalacturonan acetylesterase                                                                                                                                                                                              SCOP domains
               CATH domains 1pp4B00 B:1-233  [code=3.40.50.1110, no name defined]                                                                                                                                                                                     CATH domains
           Pfam domains (1) --Lipase_GDSL-1pp4B01 B:3-208                                                                                                                                                                                   ------------------------- Pfam domains (1)
           Pfam domains (2) --Lipase_GDSL-1pp4B02 B:3-208                                                                                                                                                                                   ------------------------- Pfam domains (2)
         Sec.struct. author .eeeee...............hhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhh....eeee........hhhhh.............eeeee..eeeee.hhhhhhhhhhhhhhhh..eeeee.................hhhhhhhhhhhhhhh.eeehhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pp4 B   1 TTVYLAGDSTMAKNGGGSGTNGWGEYLASYLSATVVNDAVAGRSARSYTREGRFENIADVVTAGDYVIVEFGHNDGGSLSTDNGRTDCSGTGAEVCYSVYDGVNETILTFPAYLENAAKLFTAKGAKVILSSQTPNNPWETGTFVNSPTRFVEYAELAAEVAGVEYVDHWSYVDSIYETLGNATVNSYFPIDHTHTSPAGAEVVAEAFLKAVVCTGTSLKSVLTTTSFEGTCL 233
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230

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) (23833)

Fold: Flavodoxin-like (1057)

Superfamily: SGNH hydrolase (48)

Family: Rhamnogalacturonan acetylesterase (5)

Protein domain: Rhamnogalacturonan acetylesterase (5)

Fungus (Aspergillus aculeatus) [TaxId: 5053] (5)

1a	d1pp4a_	A:
1b	d1pp4b_	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=3.40.50.1110, no name defined] (34)

Aspergillus aculeatus. Organism_taxid: 5053. (1)

1a	1pp4A00	A:1-233
1b	1pp4B00	B:1-233

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: SGNH_hydrolase (17)

Family: Lipase_GDSL (7)

Aspergillus aculeatus (2)

1a	Lipase_GDSL-1pp4B01	B:3-208
1b	Lipase_GDSL-1pp4B02	B:3-208

Asymmetric Unit(hide GO term definitions)

Chain A,B (RHA1_ASPAC | Q00017)

molecular function
	GO:0016787		hydrolase activity		Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.

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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1pp4)

Biological Units
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		Biological Unit 2	[ Jena3D ]

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	1pp4
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	RHA1_ASPAC \| Q00017
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	3.1.1.-
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UniProtKB/Swiss-Prot
	RHA1_ASPAC \| Q00017	:	1deo 1dex 1k7c 3c1u

1deo	THE SAME PROTEIN, ORTHORHOMBIC P212121 SPACE GROUP, 1.55 AA, SO4 IN ACTIVE SITE
1dex	THE SAME PROTEIN, ORTHORHOMBIC P212121 SPACE GROUP, 1.9 AA, NO SO4 IN ACTIVE SITE
1k7c	THE SAME PROTEIN, ORTHORHOMBIC P212121 SPACE GROUP, 1.12 AA, SO4 IN ACTIVE SITE

Description

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Ligands, Modified Residues, Ions (1, 4)

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SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

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