1YW6 - JenaLib

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Title :   CRYSTAL STRUCTURE OF SUCCINYLGLUTAMATE DESUCCINYLASE FROM ESCHERICHIA COLI, NORTHEAST STRUCTURAL GENOMICS TARGET ET72.

Authors :   F. Forouhar, W. Yong, A. P. Kuzin, M. Ciano, T. B. Acton, G. T. Montelione, L. Tong, J. F. Hunt, Northeast Structural Genomics Consortium (Nesg)

Date :   17 Feb 05 (Deposition) - 08 Mar 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.10

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

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

Reference :   F. Forouhar, W. Yong, A. P. Kuzin, M. Ciano, T. B. Acton, G. T. Montelione, L. Tong, J. F. Hunt
Crystal Structure Of Succinylglutamate Desuccinylase From Escherichia Coli, Northeast Structural Genomics Target Et72.
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - SUCCINYLGLUTAMATE DESUCCINYLASE
	Chains	:	A, B
	EC Number	:	3.1.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	BL21
	Expression System Strain	:	BL21(DE3)+MAGIC
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	ASTE
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 18)

No.	Name	Count	Type	Full Name
1	MSE	16	Mod. Amino Acid	SELENOMETHIONINE
2	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 18)

No.	Name	Count	Type	Full Name
1	MSE	16	Mod. Amino Acid	SELENOMETHIONINE
2	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 36)

No.	Name	Count	Type	Full Name
1	MSE	32	Mod. Amino Acid	SELENOMETHIONINE
2	SO4	4	Ligand/Ion	SULFATE ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:31 , HOH A:407 , LYS B:13 , ASP B:31 , GLU B:124	BINDING SITE FOR RESIDUE SO4 A 401
2	AC2	SOFTWARE	ILE A:16 , THR A:17 , TRP A:26 , TRP A:28	BINDING SITE FOR RESIDUE SO4 A 402

Asymmetric Unit

No.	Residues
1	A:120	-	B:120

(no "Cis Peptide Bond" information available for 1YW6)

(no "SAP(SNP)/Variant" information available for 1YW6)

(no "PROSITE Motif" information available for 1YW6)

(no "Exon" information available for 1YW6)

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:316
 aligned with ASTE_ECOLI | P76215 from UniProtKB/Swiss-Prot  Length:322

    Alignment length:325
                               1                                                                                                                                                                                                                                                                                                                                 
                               |     7        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       307       317     
           ASTE_ECOLI     - ---MDNFLALTLTGKKPVITEREINGVRWRWLGDGVLELTPLTPPQGALVISAGIHGNETAPVEMLDALLGAISHGEIPLRWRLLVILGNPPALKQGKRYCHSDMNRMFGGRWQLFAESGETCRARELEQCLEDFYDQGKESVRWHLDLHTAIRGSLHPQFGVLPQRDIPWDEKFLTWLGAAGLEALVFHQEPGGTFTHFSARHFGALACTLELGKALPFGQNDLRQFAVTASAIAALLSGESVGIVRTPPLRYRVVSQITRHSPSFEMHMASDTLNFMPFEKGTLLAQDGEERFTVTHDVEYVLFPNPLVALGLRAGLMLEKIS 322
               SCOP domains ---d1yw6a1 A:1-322 Succinylglutamate desuccinylase AstE                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh......eee...eeeeeee..eeeeee......eeeeee......hhhhhhhhhhhhhhhh.......eeeee..hhhhhh....---................hhhhhhhhhhhhhhhhhhhh.....eeeeeee..........eeee.......hhhhhhhhhhh...eeee......hhhhhhhhhh..eeeeee.....------..hhhhhhhhhhhhhh...........eeeeeee.........ee..........eee.....ee...........eeeee.............eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yw6 A  -2 GDPmDNFLALTLTGKKPVITEREINGVRWRWLGDGVLELTPLTPPQGALVISAGIHGNETAPVEmLDALLGAISHGEIPLRWRLLVILGNPPALKQGKR---SDmNRmFGGRWQLFAESGETCRARELEQCLEDFYDQGKESVRWHLDLHTAIRGSLHPQFGVLPQRDIPWDEKFLTWLGAAGLEALVFHQEPGGTFTHFSARHFGALACTLELGKAL------LRQFAVTASAIAALLSGESVGIVRTPPLRYRVVSQITRHSPSFEmHmASDTLNFmPFEKGTLLAQDGEERFTVTHDVEYVLFPNPLVALGLRAGLmLEKIS 322
                               |     7        17        27        37        47        57    |   67        77        87        |-  | |  107       117       127       137       147       157       167       177       187       197       207       | -    |  227       237       247       257       267|      277       287       297       307       317     
                               |                                                           62-MSE                            96 100 |  |                                                                                                           215    222                                         266-MSE   276-MSE                                  317-MSE 
                               1-MSE                                                                                              102-MSE                                                                                                                                                               268-MSE                                                  
                                                                                                                                     105-MSE

Chain B from PDB  Type:PROTEIN  Length:303
 aligned with ASTE_ECOLI | P76215 from UniProtKB/Swiss-Prot  Length:322

    Alignment length:322
                                    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  
           ASTE_ECOLI     1 MDNFLALTLTGKKPVITEREINGVRWRWLGDGVLELTPLTPPQGALVISAGIHGNETAPVEMLDALLGAISHGEIPLRWRLLVILGNPPALKQGKRYCHSDMNRMFGGRWQLFAESGETCRARELEQCLEDFYDQGKESVRWHLDLHTAIRGSLHPQFGVLPQRDIPWDEKFLTWLGAAGLEALVFHQEPGGTFTHFSARHFGALACTLELGKALPFGQNDLRQFAVTASAIAALLSGESVGIVRTPPLRYRVVSQITRHSPSFEMHMASDTLNFMPFEKGTLLAQDGEERFTVTHDVEYVLFPNPLVALGLRAGLMLEKIS 322
               SCOP domains d1yw6b_ B: Succinylglutamate desuccinylase AstE                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------------------AstE_AspA-1yw6B01 B:42-322                                                                                                                                                                                                                                                                Pfam domains (1)
           Pfam domains (2) -----------------------------------------AstE_AspA-1yw6B02 B:42-322                                                                                                                                                                                                                                                                Pfam domains (2)
         Sec.struct. author hhhhhhhhhhh......eee...eeeeeee..eeeeee.......eeeee.....hhhhhhhhhhhhhhhhhh.......eeee..hhhhhhh.......hhhhh..hhhhhh...hhhhhhhhhhhhhhhhh........eeeeee..........eeee..---..hhhhhhhhhhh...eeee.--...hhhhhhhhhh..eeeeee.----------...hhhhhhhhhhhhh.----......eeeee...........ee.........eeee...eeeee..eeee....eeeee.............eeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yw6 B   1 mDNFLALTLTGKKPVITEREINGVRWRWLGDGVLELTPLTPPQGALVISAGIHGNETAPVEmLDALLGAISHGEIPLRWRLLVILGNPPALKQGKRYCHSDmNRmFGGRWQLFAESGETCRARELEQCLEDFYDQGKESVRWHLDLHTAIRGSLHPQFGVLPQ---PWDEKFLTWLGAAGLEALVFH--PGGTFTHFSARHFGALACTLEL----------LRQFAVTASAIAALLSG----IVRTPPLRYRVVSQITRHSPSFEmHmASDTLNFmPFEKGTLLAQDGEERFTVTHDVEYVLFPNPLVALGLRAGLmLEKIS 322
                            |       10        20        30        40        50        60 |      70        80        90       100 |  |  110       120       130       140       150       160  |   |170       180      |190       200       210|        - |     230       | -  |    250       260     | 270     | 280       290       300       310      |320  
                            1-MSE                                                       62-MSE                                 102-MSE                                                      163 167                 187  |                  211        222             238  243                    266-MSE   276-MSE                                  317-MSE 
                                                                                                                                  105-MSE                                                                              190                                                                           268-MSE

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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: Phosphorylase/hydrolase-like (558)

Superfamily: Zn-dependent exopeptidases (214)

Family: AstE/AspA-like (10)

Protein domain: Succinylglutamate desuccinylase AstE (4)

Escherichia coli [TaxId: 562] (1)

1a	d1yw6a1	A:1-322
1b	d1yw6b_	B:

(no "CATH Domain" information available for 1YW6)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Peptidase_MH (119)

Family: AstE_AspA (12)

Escherichia coli (strain K12) (1)

1a	AstE_AspA-1yw6B01	B:42-322
1b	AstE_AspA-1yw6B02	B:42-322

Asymmetric Unit(hide GO term definitions)

Chain A,B (ASTE_ECOLI | P76215)

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:0016788	hydrolase activity, acting on ester bonds	Catalysis of the hydrolysis of any ester bond.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0009017	succinylglutamate desuccinylase activity	Catalysis of the reaction: N-succinyl-L-glutamate + H(2)O = L-glutamate + succinate.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0019544	arginine catabolic process to glutamate	The chemical reactions and pathways resulting in the breakdown of arginine into other compounds, including glutamate.
	GO:0019545	arginine catabolic process to succinate	The chemical reactions and pathways resulting in the breakdown of arginine into other compounds, including succinate.
	GO:0006525	arginine metabolic process	The chemical reactions and pathways involving arginine, 2-amino-5-(carbamimidamido)pentanoic acid.
	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.

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SS Bonds (1, 1)

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