1RQR - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE AND MECHANISM OF A BACTERIAL FLUORINATING ENZYME, PRODUCT COMPLEX

Authors :   C. Dong, F. Huang, H. Deng, C. Schaffrath, J. B. Spencer, D. O'Hagan, J. H

Date :   07 Dec 03 (Deposition) - 02 Mar 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.67

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

Keywords :   Fluorinase, Central 7 Stranded Beta Sheets, Anti-Parallel Beta Sheets, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Dong, F. Huang, H. Deng, C. Schaffrath, J. B. Spencer, D. O'Hagan, J. H. Naismith
Crystal Structure And Mechanism Of A Bacterial Fluorinating Enzyme
Nature V. 427 561 2004
PubMed-ID: 14765200 | Reference-DOI: 10.1038/NATURE02280
(for further references see the PDB file header)

Molecule 1 - 5'-FLUORO-5'-DEOXYADENOSINE SYNTHASE
	Chains	:	A, B, C
	EC Number	:	2.5.1.63
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	FLA
	Organism Scientific	:	STREPTOMYCES CATTLEYA
	Organism Taxid	:	29303

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 21)

No.	Name	Count	Type	Full Name
1	5FD	3	Ligand/Ion	5'-FLUORO-5'-DEOXYADENOSINE
2	MET	3	Ligand/Ion	METHIONINE
3	MSE	15	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (3, 42)

No.	Name	Count	Type	Full Name
1	5FD	6	Ligand/Ion	5'-FLUORO-5'-DEOXYADENOSINE
2	MET	6	Ligand/Ion	METHIONINE
3	MSE	30	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (3, 42)

No.	Name	Count	Type	Full Name
1	5FD	6	Ligand/Ion	5'-FLUORO-5'-DEOXYADENOSINE
2	MET	6	Ligand/Ion	METHIONINE
3	MSE	30	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:16 , TRP A:50 , THR A:76 , TYR A:77 , PRO A:78 , THR A:80 , THR A:155 , PHE A:156 , TYR A:157 , SER A:158 , MET A:600 , PHE B:213 , ASN B:215 , PHE B:254 , ARG B:277 , ALA B:279	BINDING SITE FOR RESIDUE 5FD A 500
2	AC2	SOFTWARE	ASP A:21 , SER A:23 , THR A:155 , 5FD A:500 , HOH A:601 , HOH A:640 , ASP B:210 , PHE B:213 , TRP B:217 , SER B:269 , ARG B:270	BINDING SITE FOR RESIDUE MET A 600
3	AC3	SOFTWARE	ASP B:16 , TRP B:50 , THR B:76 , TYR B:77 , PRO B:78 , THR B:80 , THR B:155 , PHE B:156 , TYR B:157 , SER B:158 , MET B:600 , PHE C:213 , ASN C:215 , PHE C:254 , ARG C:277 , ALA C:279	BINDING SITE FOR RESIDUE 5FD B 500
4	AC4	SOFTWARE	ASP B:21 , SER B:23 , THR B:155 , 5FD B:500 , ASP C:210 , SER C:269 , ARG C:270	BINDING SITE FOR RESIDUE MET B 600
5	AC5	SOFTWARE	PHE A:213 , ASN A:215 , PHE A:254 , ARG A:277 , ALA A:279 , ASP C:16 , TRP C:50 , THR C:76 , TYR C:77 , PRO C:78 , THR C:80 , THR C:155 , PHE C:156 , TYR C:157 , SER C:158 , MET C:600	BINDING SITE FOR RESIDUE 5FD C 500
6	AC6	SOFTWARE	ASP A:210 , PHE A:213 , SER A:269 , ARG A:270 , HOH A:603 , HOH A:609 , ASP C:21 , SER C:23 , THR C:155 , 5FD C:500 , HOH C:624	BINDING SITE FOR RESIDUE MET C 600

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

Asymmetric Unit

No.	Residues
1	His A:211	-	Pro A:212
2	His B:211	-	Pro B:212
3	His C:211	-	Pro C:212

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

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

(no "Exon" information available for 1RQR)

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:291
 aligned with FLA_STRCT | Q70GK9 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:291
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297 
            FLA_STRCT     8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
               SCOP domains d1rqra2 A:8-192 5'-fluoro-5'-deoxyadenosine synthase                                                                                                                                     d1rqra1 A:193-298 5'-fluoro-5'-deoxyadenosine synthase                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh...eeee........hhhhhhhhhh.hhhhh....eeeee...........eeeee..........................eeee.....hhhhhhhhheeeeee..............hhhhhhhhhhhhhhhhh.hhhhh....hhhhh........eee..eeeeeeeeee....eeeeeeehhhhh........eeeeee......eee...hhhhhh....eeeee....eeeeee....hhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rqr A   8 RPIIAFmSDLGTTDDSVAQCKGLmYSICPDVTVVDVCHSmTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREmVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGmSARVEA 298
                                  | 17        27   |    37        47        57        67        77        87        97       107       117       127       137       147       157   |   167       177       187       197       207       217       227       237       247       257       267       277       287    |  297 
                                 14-MSE           31-MSE          47-MSE                                                                                                           161-MSE                                                                                                                            292-MSE

Chain B from PDB  Type:PROTEIN  Length:291
 aligned with FLA_STRCT | Q70GK9 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:291
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297 
            FLA_STRCT     8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
               SCOP domains d1rqrb2 B:8-192 5'-fluoro-5'-deoxyadenosine synthase                                                                                                                                     d1rqrb1 B:193-298 5'-fluoro-5'-deoxyadenosine synthase                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh...eeeeee......hhhhhhhh...hhhhh....eeeee...........eeeee..........................eeee.....hhhhhhhhheeeeee..............hhhhhhhhhhhhhhhh..hhhhh....hhhhh..............eeeeeeeee....eeeeeeehhhhh........eeeeee...eeeeeeee.hhhhhh....eeeee....eeeeee...............eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rqr B   8 RPIIAFmSDLGTTDDSVAQCKGLmYSICPDVTVVDVCHSmTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREmVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGmSARVEA 298
                                  | 17        27   |    37        47        57        67        77        87        97       107       117       127       137       147       157   |   167       177       187       197       207       217       227       237       247       257       267       277       287    |  297 
                                 14-MSE           31-MSE          47-MSE                                                                                                           161-MSE                                                                                                                            292-MSE

Chain C from PDB  Type:PROTEIN  Length:291
 aligned with FLA_STRCT | Q70GK9 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:291
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297 
            FLA_STRCT     8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
               SCOP domains d1rqrc2 C:8-192 5'-fluoro-5'-deoxyadenosine synthase                                                                                                                                     d1rqrc1 C:193-298 5'-fluoro-5'-deoxyadenosine synthase                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh...eeee........hhhhhhhh...hhhhh....eeeee...........eeeee..........................eeee.....hhhhhhhhheeeeee..............hhhhhhhhhhhhhhhh..hhhhhh...hhhhh........eee..eeeeeeeeee....eeeeeeehhhhh........eeeeee...eeeeeeee..hhhhh....eeeee....eeeeee...............eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rqr C   8 RPIIAFmSDLGTTDDSVAQCKGLmYSICPDVTVVDVCHSmTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREmVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGmSARVEA 298
                                  | 17        27   |    37        47        57        67        77        87        97       107       117       127       137       147       157   |   167       177       187       197       207       217       227       237       247       257       267       277       287    |  297 
                                 14-MSE           31-MSE          47-MSE                                                                                                           161-MSE                                                                                                                            292-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 "CATH Domain" information available for 1RQR)

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (FLA_STRCT | Q70GK9)

molecular function
	GO:0033846		adenosyl-fluoride synthase activity		Catalysis of the reaction: S-adenosyl-L-methionine + fluoride = 5'-deoxy-5'-fluoroadenosine + L-methionine.
	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.

Asymmetric Unit
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	Cis Peptide Bonds
		His A:211 - Pro A:212	[ RasMol ]
		His B:211 - Pro B:212	[ RasMol ]
		His C:211 - Pro C:212	[ RasMol ]

Biological Units
	Complete Structure
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Access by PDB/NDB ID
	1rqr
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	2.5.1.63
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		Domain Information	:	XDom
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UniProtKB/Swiss-Prot
	FLA_STRCT \| Q70GK9	:	1rqp 2c2w 2c4t 2c4u 2c5b 2c5h 2cbx 2cc2 2v7t 2v7u 2v7v 2v7w 2v7x 4cqj 5fiu

1rqp	SUBSTRATE COMPLEX

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 21)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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