3LVM - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF E.COLI ISCS

Authors :   R. Shi, A. Proteau, A. Matte, M. Cygler, Montreal-Kingston Bacterial Structural Genomics Initiative (Bsgi)

Date :   22 Feb 10 (Deposition) - 21 Apr 10 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.05

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

Keywords :   Cysteine Desulfurase, Structural Genomics, Montreal-Kingston Bacterial Structural Genomics Initiative, Bsgi, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Shi, A. Proteau, M. Villarroya, I. Moukadiri, L. Zhang, J. F. Trempe A. Matte, M. E. Armengod, M. Cygler
Structural Basis For Fe-S Cluster Assembly And Trna Thiolation Mediated By Iscs Protein-Protein Interactions.
Plos Biol. V. 8 E1000 2010
PubMed-ID: 20404999 | Reference-DOI: 10.1371/JOURNAL.PBIO.1000354

Molecule 1 - CYSTEINE DESULFURASE
	Chains	:	A, B
	EC Number	:	2.8.1.7
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	ISCS
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	155864

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	PLP	2	Ligand/Ion	PYRIDOXAL-5'-PHOSPHATE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:74 , ALA A:75 , THR A:76 , HIS A:104 , MET A:151 , ASN A:155 , ASP A:180 , THR A:182 , GLN A:183 , SER A:203 , HIS A:205 , LYS A:206 , HOH A:426 , HOH A:528 , THR B:243	BINDING SITE FOR RESIDUE PLP A 764
2	AC2	SOFTWARE	THR A:243 , GLY B:74 , ALA B:75 , THR B:76 , HIS B:104 , MET B:151 , ASN B:155 , ASP B:180 , THR B:182 , GLN B:183 , SER B:203 , HIS B:205 , LYS B:206 , HOH B:491 , HOH B:539	BINDING SITE FOR RESIDUE PLP B 764

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

Asymmetric/Biological Unit

No.	Residues
1	Leu A:3	-	Pro A:4
2	Lys A:221	-	Pro A:222
3	Leu B:3	-	Pro B:4
4	Lys B:221	-	Pro B:222

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AA_TRANSFER_CLASS_5	PS00595	Aminotransferases class-V pyridoxal-phosphate attachment site.	ISCS_ECO57	197-216	2	A:197-216 B:197-216

(no "Exon" information available for 3LVM)

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:393
 aligned with ISCS_ECO57 | P0A6B9 from UniProtKB/Swiss-Prot  Length:404

    Alignment length:398
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390        
           ISCS_ECO57     1 MKLPIYLDYSATTPVDPRVAEKMMQFMTMDGTFGNPASRSHRFGWQAEEAVDIARNQIADLVGADPREIVFTSGATESDNLAIKGAANFYQKKGKHIITSKTEHKAVLDTCRQLEREGFEVTYLAPQRNGIIDLKELEAAMRDDTILVSIMHVNNEIGVVQDIAAIGEMCRARGIIYHVDATQSVGKLPIDLSQLKVDLMSFSGHKIYGPKGIGALYVRRKPRVRIEAQMHGGGHERGMRSGTLPVHQIVGMGEAYRIAKEEMATEMERLRGLRNRLWNGIKDIEEVYLNGDLEHGAPNILNVSFNYVEGESLIMALKDLAVSSGSACTSASLEPSYVLRALGLNDELAHSSIRFSLGRFTTEEEIDYTIELVRKSIGRLRDLSPLWEMYKQGVDLNS 398
               SCOP domains d3lvma_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.........hhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhh.hhh.eeee.hhhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhh..eeeee........hhhhhhhhh...eeeee............hhhhhhhhhhhhh.eeeee..................eeeee..........eeeee..........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee.........eeeeee...hhhhhhhhh..ee......-----...hhhhhhhh.hhhhhhheeeee.....hhhhhhhhhhhhhhhhhhhhh.hhhhhhh........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA_TRANSFER_CLASS_5 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lvm A   1 MKLPIYLDYSATTPVDPRVAEKMMQFMTMDGTFGNPASRSHRFGWQAEEAVDIARNQIADLVGADPREIVFTSGATESDNLAIKGAANFYQKKGKHIITSKTEHKAVLDTCRQLEREGFEVTYLAPQRNGIIDLKELEAAMRDDTILVSIMHVNNEIGVVQDIAAIGEMCRARGIIYHVDATQSVGKLPIDLSQLKVDLMSFSGHKIYGPKGIGALYVRRKPRVRIEAQMHGGGHERGMRSGTLPVHQIVGMGEAYRIAKEEMATEMERLRGLRNRLWNGIKDIEEVYLNGDLEHGAPNILNVSFNYVEGESLIMALKDLAVSSGSA-----LEPSYVLRALGLNDELAHSSIRFSLGRFTTEEEIDYTIELVRKSIGRLRDLSPLWEMYKQGVDLNS 398
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320      |  -  |    340       350       360       370       380       390        
                                                                                                                                                                                                                                                                                                                                                                327   333

Chain B from PDB  Type:PROTEIN  Length:394
 aligned with ISCS_ECO57 | P0A6B9 from UniProtKB/Swiss-Prot  Length:404

    Alignment length:399
                                  1                                                                                                                                                                                                                                                                                                                                                                                                        
                                  |  4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384         
           ISCS_ECO57     - ------MKLPIYLDYSATTPVDPRVAEKMMQFMTMDGTFGNPASRSHRFGWQAEEAVDIARNQIADLVGADPREIVFTSGATESDNLAIKGAANFYQKKGKHIITSKTEHKAVLDTCRQLEREGFEVTYLAPQRNGIIDLKELEAAMRDDTILVSIMHVNNEIGVVQDIAAIGEMCRARGIIYHVDATQSVGKLPIDLSQLKVDLMSFSGHKIYGPKGIGALYVRRKPRVRIEAQMHGGGHERGMRSGTLPVHQIVGMGEAYRIAKEEMATEMERLRGLRNRLWNGIKDIEEVYLNGDLEHGAPNILNVSFNYVEGESLIMALKDLAVSSGSACTSASLEPSYVLRALGLNDELAHSSIRFSLGRFTTEEEIDYTIELVRKSIGRLRDLSPLWEMYKQG 393
               SCOP domains d3lvmb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------Aminotran_5-3lvmB01 B:5-369                                                                                                                                                                                                                                                                                                                                                  ------------------------ Pfam domains (1)
           Pfam domains (2) ----------Aminotran_5-3lvmB02 B:5-369                                                                                                                                                                                                                                                                                                                                                  ------------------------ Pfam domains (2)
         Sec.struct. author hhhhhh....ee.........hhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhh.hhh.eeee.hhhhhhhhhhhhhhhhh.....eeeee...hhhhhhhhhhhhhh..eeeee........hhhhhhhhh...eeeee............hhhhhhhhhhhh..eeeee..................eeeee..........eeeee..........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee.........eeeeee...hhhhhhhhh..ee......-----...hhhhhhh..hhhhhhheeeee.....hhhhhhhhhhhhhhhhhhhhh.hhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA_TRANSFER_CLASS_5 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lvm B  -5 YGVYRAMKLPIYLDYSATTPVDPRVAEKMMQFMTMDGTFGNPASRSHRFGWQAEEAVDIARNQIADLVGADPREIVFTSGATESDNLAIKGAANFYQKKGKHIITSKTEHKAVLDTCRQLEREGFEVTYLAPQRNGIIDLKELEAAMRDDTILVSIMHVNNEIGVVQDIAAIGEMCRARGIIYHVDATQSVGKLPIDLSQLKVDLMSFSGHKIYGPKGIGALYVRRKPRVRIEAQMHGGGHERGMRSGTLPVHQIVGMGEAYRIAKEEMATEMERLRGLRNRLWNGIKDIEEVYLNGDLEHGAPNILNVSFNYVEGESLIMALKDLAVSSGSA-----LEPSYVLRALGLNDELAHSSIRFSLGRFTTEEEIDYTIELVRKSIGRLRDLSPLWEMYKQG 393
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324  |    334       344       354       364       374       384         
                                                                                                                                                                                                                                                                                                                                                                      327   333

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: PLP-dependent transferase-like (627)

Superfamily: PLP-dependent transferases (625)

Family: Cystathionine synthase-like (64)

Protein domain: automated matches (14)

Escherichia coli [TaxId: 155864] (3)

1a	d3lvma_	A:
1b	d3lvmb_	B:

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

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PLP_aminotran (240)

Family: Aminotran_5 (20)

Escherichia coli O157:H7 (3)

1a	Aminotran_5-3lvmB01	B:5-369
1b	Aminotran_5-3lvmB02	B:5-369

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (ISCS_ECO57 | P0A6B9)

molecular function
	GO:0051537	2 iron, 2 sulfur cluster binding	Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0031071	cysteine desulfurase activity	Catalysis of the reaction: L-cysteine + [enzyme]-cysteine = L-alanine + [enzyme]-S-sulfanylcysteine.
	GO:0051536	iron-sulfur cluster binding	Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0030170	pyridoxal phosphate binding	Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
	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.
biological process
	GO:0044571	[2Fe-2S] cluster assembly	The incorporation of two iron atoms and two sulfur atoms into an iron-sulfur cluster.
	GO:0008033	tRNA processing	The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Leu A:3 - Pro A:4	[ RasMol ]
		Leu B:3 - Pro B:4	[ RasMol ]
		Lys A:221 - Pro A:222	[ RasMol ]
		Lys B:221 - Pro B:222	[ RasMol ]

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	ISCS_ECO57 \| P0A6B9	:	3lvj 3lvk 3lvl

3lvj	CRYSTAL STRUCTURE OF E.COLI ISCS-TUSA COMPLEX (FORM 1)
3lvk	CRYSTAL STRUCTURE OF E.COLI ISCS-TUSA COMPLEX (FORM 2)
3lvl	CRYSTAL STRUCTURE OF E.COLI ISCS-ISCU COMPLEX RELATED ID: ISCS_ECO57 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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