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Title :   CRYSTAL STRUCTURE OF THE STREPTOCCOCUS SUIS SEROTYPE2 D-MANNONATE DEHYDRATASE IN COMPLEX WITH ITS SUBSTRATE

Authors :   H. Peng, Q. Zhang, F. Gao, G. F. Gao

Date :   02 Jun 08 (Deposition) - 23 Jun 09 (Release) - 08 Sep 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.90

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

Keywords :   Tim Barrel, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Q. Zhang, F. Gao, H. Peng, H. Cheng, Y. Liu, J. Tang, J. Thompson, G. Wei, J. Zhang, Y. Du, J. Yan, G. F. Gao
Crystal Structures Of Streptococcus Suis Mannonate Dehydratase (Mand) And Its Complex With Substrate: Genetic And Biochemical Evidence For A Catalytic Mechanism
J. Bacteriol. V. 191 5832 2009
PubMed-ID: 19617363 | Reference-DOI: 10.1128/JB.00599-09
(for further references see the PDB file header)

Compounds

Molecule 1 - MANNONATE DEHYDRATASE
	Chains	:	A, B
	EC Number	:	4.2.1.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	UXUA, SSU05_1157
	Organism Scientific	:	STREPTOCOCCUS SUIS
	Organism Taxid	:	391295
	Strain	:	05ZYH33
	Synonym	:	D-MANNONATE HYDROLASE

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (3, 3)

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS B:219 , CYS B:257 , HIS B:286 , ARG B:288 , ASP B:330	BINDING SITE FOR RESIDUE MN B 387
2	AC2	SOFTWARE	HIS A:219 , CYS A:257 , HIS A:286 , ASP A:330	BINDING SITE FOR RESIDUE MN A 387
3	AC3	SOFTWARE	ARG A:26 , TYR A:28 , TRP A:131 , HIS A:219 , ASP A:222 , HIS A:286 , ARG A:328 , ASP A:330 , HIS A:331 , PRO A:343 , TYR A:345	BINDING SITE FOR RESIDUE CS2 A 388

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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:349
 aligned with UXUA_STRSY | A4VVI4 from UniProtKB/Swiss-Prot  Length:366

    Alignment length:363
                              1                                                                                                                                                                                                                                                                                                                                                                        
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358   
           UXUA_STRSY     - --MKMSFRWYGKKDPVTLEEIKAIPGMQGIVTAVYDVPVGQAWPLENILELKKMVEEAGLEITVIESIPVHEDIKQGKPNRDALIENYKTSIRNVGAAGIPVVCYNFMPVFDWTRSDLHHPLPDGSTSLAFLKSDLAGVDPVADDLNLPGWDSSYSKEEMKAIIENYRQNISEEDLWANLEYFIKAILPTAEEAGVKMAIHPDDPPYGIFGLPRIITGQEAVERFLNLYDSEHNGITMCVGSYASDPKNDVLAMTEYALKRNRINFMHTRNVTAGAWGFQETAHLSQAGDIDMNAVVKLLVDYDWQGSLRPDHGRRIWGDQTKTPGYGLYDRALGATYFNGLYEANMRAAGKTPDFGIKAKTV 361
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee........hhhhhhhh....eeee...........hhhhhhhhhhhhhh...eeeeee....hhhhhh...hhhhhhhhhhhhhhhhhhhh..eeee...........eeeee.....eeeeee.........--------------.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.................hhhhhhhhhhhh....eeeeeehhhhhh....hhhhhhhhhhhh..eeeee...ee....eeee...hhhhh..hhhhhhhhhhhh....eee..................hhhhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dbn A  19 SHMKMSFRWYGKKDPVTLEEIKAIPGMQGIVTAVYDVPVGQAWPLENILELKKMVEEAGLEITVIESIPVHEDIKQGKPNRDALIENYKTSIRNVGAAGIPVVCYNFMPVFDWTRSDLHHPLPDGSTSLAFLKSDLAGVDP--------------SKEEMKAIIENYRQNISEEDLWANLEYFIKAILPTAEEAGVKMAIHPDDPPYGIFGLPRIITGQEAVERFLNLYDSEHNGITMCVGSYASDPKNDVLAMTEYALKRNRINFMHTRNVTAGAWGFQETAHLSQAGDIDMNAVVKLLVDYDWQGSLRPDHGRRIWGDQTKTPGYGLYDRALGATYFNGLYEANMRAAGKTPDFGIKAKTV 381
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158|        -     | 178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378   
                                                                                                                                                                      159            174

Chain B from PDB  Type:PROTEIN  Length:349
 aligned with UXUA_STRSY | A4VVI4 from UniProtKB/Swiss-Prot  Length:366

    Alignment length:368
                               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       327       337       347       357        
           UXUA_STRSY     - ---MKMSFRWYGKKDPVTLEEIKAIPGMQGIVTAVYDVPVGQAWPLENILELKKMVEEAGLEITVIESIPVHEDIKQGKPNRDALIENYKTSIRNVGAAGIPVVCYNFMPVFDWTRSDLHHPLPDGSTSLAFLKSDLAGVDPVADDLNLPGWDSSYSKEEMKAIIENYRQNISEEDLWANLEYFIKAILPTAEEAGVKMAIHPDDPPYGIFGLPRIITGQEAVERFLNLYDSEHNGITMCVGSYASDPKNDVLAMTEYALKRNRINFMHTRNVTAGAWGFQETAHLSQAGDIDMNAVVKLLVDYDWQGSLRPDHGRRIWGDQTKTPGYGLYDRALGATYFNGLYEANMRAAGKTPDFGIKAKTVGTKE 365
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee........hhhhhhh.....eeee...........hhhhhhhhhhhhhhh..eeeeee....hhhhhhh..hhhhhhhhhhhhhhhhhhh...eeee...........eeeee.....eeeeee..........-------------------hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.eeee.................hhhhhhhhhhhh....eeeeeehhhhhh....hhhhhhhhhhhhh.eeeee...eeee..eeee...hhhhh..hhhhhhhhhhhh....eee.................hhhhhhhhhhhhhhhhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dbn B  18 GSHMKMSFRWYGKKDPVTLEEIKAIPGMQGIVTAVYDVPVGQAWPLENILELKKMVEEAGLEITVIESIPVHEDIKQGKPNRDALIENYKTSIRNVGAAGIPVVCYNFMPVFDWTRSDLHHPLPDGSTSLAFLKSDLAGVDPV-------------------AIIENYRQNISEEDLWANLEYFIKAILPTAEEAGVKMAIHPDDPPYGIFGLPRIITGQEAVERFLNLYDSEHNGITMCVGSYASDPKNDVLAMTEYALKRNRINFMHTRNVTAGAWGFQETAHLSQAGDIDMNAVVKLLVDYDWQGSLRPDHGRRIWGDQTKTPGYGLYDRALGATYFNGLYEANMRAAGKTPDFGIKAKTVGTKE 385
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -         -  |    187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377        
                                                                                                                                                                        160                 180

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (3, 3)

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