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(-) Description

Title :  CRYSTAL STRUCTURE OF SSOPOX W263T
 
Authors :  G. Gotthard, J. Hiblot, E. Chabriere, M. Elias
Date :  26 Apr 13  (Deposition) - 02 Oct 13  (Release) - 20 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  (Beta/Alpha)8-Hydrolase, Lactonase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Hiblot, G. Gotthard, M. Elias, E. Chabriere
Differential Active Site Loop Conformations Mediate Promiscuous Activities In The Lactonase Ssopox.
Plos One V. 8 75272 2013
PubMed-ID: 24086491  |  Reference-DOI: 10.1371/JOURNAL.PONE.0075272

(-) Compounds

Molecule 1 - ARYLDIALKYLPHOSPHATASE
    Chains: A, B, C, D
    EC Number: 3.1.8.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: BL21(DE3)-PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PHP, PHP SSO2522, SSO2522
    Mutation: YES
    Organism Scientific: SULFOLOBUS SOLFATARICUS
    Organism Taxid: 2287
    Synonym: PARAOXONASE, SSOPOX, PHOSPHOTRIESTERASE-LIKE LACTONASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 38)

Asymmetric Unit (6, 38)
No.NameCountTypeFull Name
1CO4Ligand/IonCOBALT (II) ION
2EDO10Ligand/Ion1,2-ETHANEDIOL
3FE24Ligand/IonFE (II) ION
4GOL14Ligand/IonGLYCEROL
5KCX4Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
6PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (5, 16)
No.NameCountTypeFull Name
1CO-1Ligand/IonCOBALT (II) ION
2EDO5Ligand/Ion1,2-ETHANEDIOL
3FE22Ligand/IonFE (II) ION
4GOL6Ligand/IonGLYCEROL
5KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
6PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 2 (5, 18)
No.NameCountTypeFull Name
1CO-1Ligand/IonCOBALT (II) ION
2EDO5Ligand/Ion1,2-ETHANEDIOL
3FE22Ligand/IonFE (II) ION
4GOL8Ligand/IonGLYCEROL
5KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
6PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (34, 34)

Asymmetric Unit (34, 34)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:22 , HIS A:24 , KCX A:137 , ASP A:256 , CO A:402 , EDO A:407 , HOH A:591BINDING SITE FOR RESIDUE FE2 A 401
02AC2SOFTWAREKCX A:137 , HIS A:170 , HIS A:199 , FE2 A:401 , EDO A:407 , HOH A:591BINDING SITE FOR RESIDUE CO A 402
03AC3SOFTWAREASP A:256 , EDO A:407BINDING SITE FOR RESIDUE PEG A 403
04AC4SOFTWAREASN A:160 , LYS A:164 , GLY A:189 , ASP A:191 , LYS A:194 , HOH A:545BINDING SITE FOR RESIDUE GOL A 404
05AC5SOFTWARESER A:171 , ASN A:172 , ALA A:173 , HIS A:174 , ASP A:202 , PHE A:229 , HOH A:568 , HOH A:590BINDING SITE FOR RESIDUE GOL A 405
06AC6SOFTWAREARG A:55 , THR A:281 , GLU A:285 , HOH A:553 , HOH A:631 , PRO B:289 , LYS B:292BINDING SITE FOR RESIDUE EDO A 406
07AC7SOFTWARETYR A:97 , KCX A:137 , FE2 A:401 , CO A:402 , PEG A:403 , HOH A:591BINDING SITE FOR RESIDUE EDO A 407
08AC8SOFTWAREPRO A:289 , ARG A:293 , PRO B:276 , ARG B:277 , HOH B:529 , HOH B:577 , HOH B:586BINDING SITE FOR RESIDUE GOL A 408
09AC9SOFTWARELEU A:102 , PRO A:103 , PHE A:104 , PHE A:106 , LEU A:107 , ASP A:148 , LYS A:151BINDING SITE FOR RESIDUE GOL A 409
10BC1SOFTWAREPRO A:4 , LEU A:5 , LYS A:8 , ASP A:9 , SER A:10 , LEU A:130 , ASN A:131 , LYS A:132 , HOH A:639BINDING SITE FOR RESIDUE GOL A 410
11BC2SOFTWAREILE A:98 , TYR A:99 , ILE A:100 , ASP A:101 , HOH A:511 , HOH A:574 , PHE C:104BINDING SITE FOR RESIDUE EDO A 411
12BC3SOFTWAREPHE A:18 , LYS A:292 , GLU A:298 , HOH A:599 , GLN B:58 , HOH B:659BINDING SITE FOR RESIDUE EDO B 401
13BC4SOFTWAREHIS B:22 , HIS B:24 , KCX B:137 , ASP B:256 , CO B:403 , HOH B:600BINDING SITE FOR RESIDUE FE2 B 402
14BC5SOFTWAREKCX B:137 , HIS B:170 , HIS B:199 , FE2 B:402 , HOH B:600BINDING SITE FOR RESIDUE CO B 403
15BC6SOFTWAREASN B:160 , LYS B:164 , GLY B:189 , ASP B:191 , HOH B:610 , HOH B:663 , MET C:1BINDING SITE FOR RESIDUE GOL B 404
16BC7SOFTWAREPRO B:4 , LEU B:5 , LYS B:8 , ASP B:9 , SER B:10 , LEU B:130 , ASN B:131 , LYS B:132BINDING SITE FOR RESIDUE GOL B 405
17BC8SOFTWARESER B:171 , ASN B:172 , ALA B:173 , HIS B:174 , ASP B:202 , PHE B:229 , HOH B:597 , HOH B:644BINDING SITE FOR RESIDUE GOL B 406
18BC9SOFTWAREALA B:173 , HIS B:174 , ASN B:175 , ASN B:176 , ASN B:205 , TYR B:208BINDING SITE FOR RESIDUE GOL B 407
19CC1SOFTWAREARG B:154 , GLU B:188BINDING SITE FOR RESIDUE PEG B 408
20CC2SOFTWAREHIS B:120 , GLU B:124 , GLY B:128 , THR B:129 , HOH B:518 , HOH B:645BINDING SITE FOR RESIDUE GOL B 409
21CC3SOFTWAREPHE B:18 , LYS B:292 , GLU B:298 , HOH B:553 , HOH B:640 , HOH B:664BINDING SITE FOR RESIDUE EDO B 410
22CC4SOFTWAREHIS C:22 , HIS C:24 , KCX C:137 , ASP C:256 , CO C:402 , HOH C:572BINDING SITE FOR RESIDUE FE2 C 401
23CC5SOFTWAREKCX C:137 , HIS C:170 , HIS C:199 , FE2 C:401 , HOH C:572BINDING SITE FOR RESIDUE CO C 402
24CC6SOFTWAREARG A:77 , ASN C:160 , LYS C:164 , GLY C:189 , VAL C:190 , ASP C:191 , LYS C:194BINDING SITE FOR RESIDUE GOL C 403
25CC7SOFTWAREARG C:33 , PRO C:37BINDING SITE FOR RESIDUE EDO C 404
26CC8SOFTWAREASN C:172 , ALA C:173 , HIS C:174 , ASP C:202 , PHE C:229 , HOH C:589BINDING SITE FOR RESIDUE EDO C 405
27CC9SOFTWAREHIS D:22 , HIS D:24 , KCX D:137 , ASP D:256 , CO D:402 , HOH D:561BINDING SITE FOR RESIDUE FE2 D 401
28DC1SOFTWAREKCX D:137 , HIS D:170 , HIS D:199 , FE2 D:401 , EDO D:403 , HOH D:561BINDING SITE FOR RESIDUE CO D 402
29DC2SOFTWARETYR D:97 , KCX D:137 , HIS D:170 , ARG D:223 , CO D:402 , HOH D:561BINDING SITE FOR RESIDUE EDO D 403
30DC3SOFTWAREASN D:172 , ALA D:173 , HIS D:174 , ASP D:202 , PHE D:229 , HOH D:522BINDING SITE FOR RESIDUE GOL D 404
31DC4SOFTWAREALA D:173 , HIS D:174 , ASN D:175 , ASN D:176 , ASN D:205BINDING SITE FOR RESIDUE GOL D 405
32DC5SOFTWAREASN D:160 , LYS D:164 , GLY D:189 , VAL D:190 , ASP D:191 , LYS D:194BINDING SITE FOR RESIDUE GOL D 406
33DC6SOFTWAREARG D:26 , PHE D:28 , GLY D:73 , ARG D:74 , ASP D:75 , MET D:79 , HOH D:524BINDING SITE FOR RESIDUE EDO D 407
34DC7SOFTWAREVAL D:6 , GLY D:7 , GLU D:80 , LYS D:84 , ASN D:131 , HOH D:536BINDING SITE FOR RESIDUE EDO D 408

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4KES)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KES)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KES)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KES)

(-) Exons   (0, 0)

(no "Exon" information available for 4KES)

(-) Sequences/Alignments

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:314
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4kesa_ A: automated matches                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eeeehhhhh..ee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhhhhh.eeee.eee......hhhhh..hhhhhhhhhhhhhhh...........eeee......hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhhhhhh.eee............hhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kes A   1 MRIPLVGKDSIESKDIGFTLIHEHLRVFSEAVRQQWPHLYNEDEEFRNAVNEVKRAMQFGVKTIVDPTVMGLGRDIRFMEKVVKATGINLVAGTGIYIYIDLPFYFLNRSIDEIADLFIHDIKEGIQGTLNKAGFVkIAADEPGITKDVEKVIRAAAIANKETKVPIITHSNAHNNTGLEQQRILTEEGVDPGKILIGHLGDTDNIDYIKKIADKGSFIGLDRYGLDLFLPVDKRNETTLRLIKDGYSDKIMISHDYCCTIDTGTAKPEYKPKLAPRWSITLIFEDTIPFLKRNGVNEEVIATIFKENPKKFFS 314
                                    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    
                                                                                                                                                                  137-KCX                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:314
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4kesb_ B: automated matches                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eeeehhhhh..ee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhhhhh.eeee.eee......hhhhh..hhhhhhhhhhhhhhh...........eeee......hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhhhhhh.eee.........hhhhh..hhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kes B   1 MRIPLVGKDSIESKDIGFTLIHEHLRVFSEAVRQQWPHLYNEDEEFRNAVNEVKRAMQFGVKTIVDPTVMGLGRDIRFMEKVVKATGINLVAGTGIYIYIDLPFYFLNRSIDEIADLFIHDIKEGIQGTLNKAGFVkIAADEPGITKDVEKVIRAAAIANKETKVPIITHSNAHNNTGLEQQRILTEEGVDPGKILIGHLGDTDNIDYIKKIADKGSFIGLDRYGLDLFLPVDKRNETTLRLIKDGYSDKIMISHDYCCTIDTGTAKPEYKPKLAPRWSITLIFEDTIPFLKRNGVNEEVIATIFKENPKKFFS 314
                                    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    
                                                                                                                                                                  137-KCX                                                                                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:314
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4kesc_ C: automated matches                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eeeehhhhh..ee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhhhhh.eeee.ee.......hhhhh..hhhhhhhhhhhhhhh...........eeee......hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhh.hhh.eee.............hhhhhhhhh.....hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kes C   1 MRIPLVGKDSIESKDIGFTLIHEHLRVFSEAVRQQWPHLYNEDEEFRNAVNEVKRAMQFGVKTIVDPTVMGLGRDIRFMEKVVKATGINLVAGTGIYIYIDLPFYFLNRSIDEIADLFIHDIKEGIQGTLNKAGFVkIAADEPGITKDVEKVIRAAAIANKETKVPIITHSNAHNNTGLEQQRILTEEGVDPGKILIGHLGDTDNIDYIKKIADKGSFIGLDRYGLDLFLPVDKRNETTLRLIKDGYSDKIMISHDYCCTIDTGTAKPEYKPKLAPRWSITLIFEDTIPFLKRNGVNEEVIATIFKENPKKFFS 314
                                    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    
                                                                                                                                                                  137-KCX                                                                                                                                                                             


Chain D from PDB  Type:PROTEIN  Length:314
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4kesd_ D: automated matches                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eeeehhhhh..ee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhhhhh.eeee.eee......hhhhh..hhhhhhhhhhhhhhh...........eeee......hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhh.hhh.eee.........hhhhhhhhhhhhh.....hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kes D   1 MRIPLVGKDSIESKDIGFTLIHEHLRVFSEAVRQQWPHLYNEDEEFRNAVNEVKRAMQFGVKTIVDPTVMGLGRDIRFMEKVVKATGINLVAGTGIYIYIDLPFYFLNRSIDEIADLFIHDIKEGIQGTLNKAGFVkIAADEPGITKDVEKVIRAAAIANKETKVPIITHSNAHNNTGLEQQRILTEEGVDPGKILIGHLGDTDNIDYIKKIADKGSFIGLDRYGLDLFLPVDKRNETTLRLIKDGYSDKIMISHDYCCTIDTGTAKPEYKPKLAPRWSITLIFEDTIPFLKRNGVNEEVIATIFKENPKKFFS 314
                                    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    
                                                                                                                                                                  137-KCX
   Legend:   → Mismatch (orange background)
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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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KES)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KES)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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  PHP_SULSO | Q97VT7
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        PHP_SULSO | Q97VT7: 2vc5 2vc7 3uf9 4ker 4ket 4keu 4kev 4kez 4kf1

(-) Related Entries Specified in the PDB File

2vc5 WILD TYPE SSOPOX
2vc7 WILD TYPE SSOPOX IN COMPLEX WITH LACTONE MIMIC
3uf9 WILD TYPE SSOPOX IN COMPLEX WITH FENSULFOTHION
4ker SSOPOX W263V MUTANT
4ket SSOPOX W263I MUTANT
4keu SSOPOX W263M MUTANT
4kev SSOPOX W263L MUTANT
4kez SSOPOX W263F MUTANT
4kf1 SSOPOX W263I IN COMPLEX WITH C10HTL