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Title :   CRYSTAL STRUCTURE OF SALICYLIC ACID-BINDING PROTEIN 2 (SABP2) FROM NICOTIANA TABACUM, NESG TARGET AR2241

Authors :   F. Forouhar, Y. Chen, Y. Chiang, T. B. Acton, G. T. Montelione, J. F. Hunt Northeast Structural Genomics Consortium (Nesg)

Date :   29 Sep 04 (Deposition) - 30 Nov 04 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Alpha-Beta Protein, Structural Genomics, Protein Structure Initiative, Psi, Northeast Structural Genomics Consortium, Nesg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Forouhar, Y. Yang, D. Kumar, Y. Chen, E. Fridman
Structural And Biochemical Studies Identify Tobacco Sabp2 A A Methyl Salicylate Esterase And Implicate It In Plant Innate Immunity
Proc. Natl. Acad. Sci. Usa V. 102 1773 2005
PubMed-ID: 15668381 | Reference-DOI: 10.1073/PNAS.0409227102

Molecule 1 - SALICYLIC ACID-BINDING PROTEIN 2
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	BL21
	Expression System Strain	:	BL21(DE3)+MAGIC
	Expression System Taxid	:	562
	Expression System Vector	:	PET21
	Expression System Vector Type	:	PLASMID
	Gene	:	AAR87711
	Organism Common	:	COMMON TOBACCO
	Organism Scientific	:	NICOTIANA TABACUM
	Organism Taxid	:	4097
	Synonym	:	SABP2

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 40)

No.	Name	Count	Type	Full Name
1	MSE	36	Mod. Amino Acid	SELENOMETHIONINE
2	STH	4	Ligand/Ion	2-AMINO-4H-1,3-BENZOXATHIIN-4-OL

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:12 , ALA A:13 , SER A:81 , LEU A:82 , PHE A:107 , TYR A:122 , TRP A:131 , PHE A:151 , LEU A:181 , GLY A:212 , HIS A:238	BINDING SITE FOR RESIDUE STH A 297
2	AC2	SOFTWARE	GLY B:12 , ALA B:13 , SER B:81 , LEU B:82 , PHE B:107 , TYR B:122 , TRP B:131 , LEU B:181 , GLY B:212 , HIS B:238	BINDING SITE FOR RESIDUE STH B 298
3	AC3	SOFTWARE	GLY C:12 , ALA C:13 , SER C:81 , LEU C:82 , PHE C:107 , TYR C:122 , TRP C:131 , MSE C:149 , PHE C:151 , LEU C:181 , GLY C:212 , HIS C:238	BINDING SITE FOR RESIDUE STH C 299
4	AC4	SOFTWARE	GLY D:12 , ALA D:13 , SER D:81 , LEU D:82 , PHE D:107 , TYR D:122 , PHE D:151 , LEU D:181 , GLY D:212 , HIS D:238	BINDING SITE FOR RESIDUE STH D 300

(no "SS Bond" information available for 1XKL)

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

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

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LIPASE_SER	PS00120	Lipases, serine active site.	SABP2_TOBAC	75-84	4	A:75-84 B:75-84 C:75-84 D:75-84

(no "Exon" information available for 1XKL)

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:258
 aligned with SABP2_TOBAC | Q6RYA0 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:258
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252        
          SABP2_TOBAC     3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLMELMESLSADEKVILVGHSLGGMNLGLAMEKYPQKIYAAVFLAAFMPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSMFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFMEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHMAMLCEPQKLCASLLEIAHKYN 260
               SCOP domains d1xkla_ A: Salicylic acid-binding protein 2 (SABP2)                                                                                                                                                                                                                SCOP domains
               CATH domains 1xklA00 A:3-260  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhhhhhh..eeee...........hhhhh.hhhhhhhhhhhhhhh......eeeeee.hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhh.........eeee........eeee.hhhhhhhhh....hhhhhhhhhhhh.....hhhhhhhh......hhhhh.eeeeee......hhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------LIPASE_SER-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1xkl A   3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLmELmESLSADEKVILVGHSLGGmNLGLAmEKYPQKIYAAVFLAAFmPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSmFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFmEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHmAmLCEPQKLCASLLEIAHKYN 260
                                    12        22        32        42        52        62|  |    72        82  |     92       102     | 112       122       132       142      |152       162       172       182|      192       202       212       222       232      |242       252        
                                                                                       63-MSE                85-MSE |              108-MSE                                  149-MSE                           183-MSE                                                 239-MSE                 
                                                                                          66-MSE                   91-MSE                                                                                                                                               241-MSE

Chain B from PDB  Type:PROTEIN  Length:256
 aligned with SABP2_TOBAC | Q6RYA0 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:256
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252      
          SABP2_TOBAC     3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLMELMESLSADEKVILVGHSLGGMNLGLAMEKYPQKIYAAVFLAAFMPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSMFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFMEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHMAMLCEPQKLCASLLEIAHK 258
               SCOP domains d1xklb_ B: Salicylic acid-binding protein 2 (SABP2)                                                                                                                                                                                                              SCOP domains
               CATH domains 1xklB00 B:3-258  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhhhhhh..eeee...........hhhhh.hhhhhhhhhhhhhhh......eeeeee.hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhhhhhhhhh..eeee........eeee.hhhhhhhhh....hhhhhhhhhhhh.....hhhhhhhh......hhhhh.eeeeee......hhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------LIPASE_SER------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkl B   3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLmELmESLSADEKVILVGHSLGGmNLGLAmEKYPQKIYAAVFLAAFmPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSmFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFmEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHmAmLCEPQKLCASLLEIAHK 258
                                    12        22        32        42        52        62|  |    72        82  |     92       102     | 112       122       132       142      |152       162       172       182|      192       202       212       222       232      |242       252      
                                                                                       63-MSE                85-MSE |              108-MSE                                  149-MSE                           183-MSE                                                 239-MSE               
                                                                                          66-MSE                   91-MSE                                                                                                                                               241-MSE

Chain C from PDB  Type:PROTEIN  Length:257
 aligned with SABP2_TOBAC | Q6RYA0 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:257
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       
          SABP2_TOBAC     3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLMELMESLSADEKVILVGHSLGGMNLGLAMEKYPQKIYAAVFLAAFMPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSMFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFMEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHMAMLCEPQKLCASLLEIAHKY 259
               SCOP domains d1xklc_ C: Salicylic acid-binding protein 2 (SABP2)                                                                                                                                                                                                               SCOP domains
               CATH domains 1xklC00 C:3-259  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhhhhhh..eeeee..........hhhhh.hhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhhhhhhhhh..eeee........eeee.hhhhhhhhh....hhhhhhhhhhhh.....hhhhhhh.......hhhhh.eeeeee......hhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------LIPASE_SER------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkl C   3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLmELmESLSADEKVILVGHSLGGmNLGLAmEKYPQKIYAAVFLAAFmPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSmFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFmEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHmAmLCEPQKLCASLLEIAHKY 259
                                    12        22        32        42        52        62|  |    72        82  |     92       102     | 112       122       132       142      |152       162       172       182|      192       202       212       222       232      |242       252       
                                                                                       63-MSE                85-MSE |              108-MSE                                  149-MSE                           183-MSE                                                 239-MSE                
                                                                                          66-MSE                   91-MSE                                                                                                                                               241-MSE

Chain D from PDB  Type:PROTEIN  Length:257
 aligned with SABP2_TOBAC | Q6RYA0 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:258
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252        
          SABP2_TOBAC     3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLMELMESLSADEKVILVGHSLGGMNLGLAMEKYPQKIYAAVFLAAFMPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSMFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFMEDLSKAKYFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHMAMLCEPQKLCASLLEIAHKYN 260
               SCOP domains d1xkld_ D: Salicylic acid-binding protein 2 (SABP2)                                                                                                                                                                                                                SCOP domains
               CATH domains 1xklD00 D:3-260  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee.....hhhhhh.hhhhhhhh..eeee...........hhhhh.hhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhh.hhhhhh..eeee........eeee.hhhhhhhhh....hhhhhhhhhhhh.....hhhhhh..-.....hhhhh.eeeeee......hhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------LIPASE_SER-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1xkl D   3 EGKHFVLVHGACHGGWSWYKLKPLLEAAGHKVTALDLAASGTDLRKIEELRTLYDYTLPLmELmESLSADEKVILVGHSLGGmNLGLAmEKYPQKIYAAVFLAAFmPDSVHNSSFVLEQYNERTPAENWLDTQFLPYGSPEEPLTSmFFGPKFLAHKLYQLCSPEDLALASSLVRPSSLFmEDLSKA-YFTDERFGSVKRVYIVCTEDKGIPEEFQRWQIDNIGVTEAIEIKGADHmAmLCEPQKLCASLLEIAHKYN 260
                                    12        22        32        42        52        62|  |    72        82  |     92       102     | 112       122       132       142      |152       162       172       182|     |192       202       212       222       232      |242       252        
                                                                                       63-MSE                85-MSE |              108-MSE                                  149-MSE                           183-MSE89 |                                             239-MSE                 
                                                                                          66-MSE                   91-MSE                                                                                             191                                               241-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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: alpha/beta-Hydrolases (971)

Superfamily: alpha/beta-Hydrolases (971)

Family: Hydroxynitrile lyase-like (34)

Protein domain: Salicylic acid-binding protein 2 (SABP2) (3)

Tobacco (Nicotiana tabacum) [TaxId: 4097] (3)

1a	d1xkla_	A:
1b	d1xklb_	B:
1c	d1xklc_	C:
1d	d1xkld_	D:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.1820, no name defined] (692)

Common tobacco (Nicotiana tabacum) (3)

1a	1xklA00	A:3-260
1b	1xklC00	C:3-259
1c	1xklD00	D:3-260
1d	1xklB00	B:3-258

(no "Pfam Domain" information available for 1XKL)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (SABP2_TOBAC | Q6RYA0)

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.
	GO:0016298	lipase activity	Catalysis of the hydrolysis of a lipid or phospholipid.
	GO:0080031	methyl salicylate esterase activity	Catalysis of the reaction: methyl salicylate + H2O = salicylic acid + methanol + H+.
biological process
	GO:0006952	defense response	Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
	GO:0002376	immune system process	Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
	GO:0045087	innate immune response	Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
	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:0009862	systemic acquired resistance, salicylic acid mediated signaling pathway	The series of molecular signals mediated by salicylic acid involved in systemic acquired resistance.

Asymmetric/Biological Unit
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	1xkl
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	SABP2_TOBAC \| Q6RYA0	:	1y7h 1y7i

(no "Related Entries Specified in the PDB File" available for 1XKL)

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (2, 40)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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