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(-) Description

Title :  CRYSTAL STRUCTURE OF ALPHA/BETA SUPERFAMILY HYDROLASE FROM OENOCOCCUS OENI PSU-1
 
Authors :  B. Nocek, L. Bigelow, G. Cobb, A. Joachimiak, Midwest Center For Str Genomics (Mcsg)
Date :  09 Jan 09  (Deposition) - 27 Jan 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C,D  (1x)
Biol. Unit 2:  A,B,C  (1x)
Biol. Unit 3:  A,C,D  (1x)
Biol. Unit 4:  A,B,C,D  (1x)
Keywords :  Alpha/Beta Superfamily Hydrolase, Pf00561, Mcsg, Psi, Psi-2, Structural Genomics, Protein Structure Initiative, Midwest Center For Structural Genomics, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Nocek, L. Bigelow, G. Cobb, A. Joachimiak
Crystal Structure Of Alpha/Beta Superfamily Hydrolase From Oenococcus Oeni Psu-1
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ALPHA/BETA SUPERFAMILY HYDROLASE
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: OEOE_1827
    Organism Scientific: OENOCOCCUS OENI
    Organism Taxid: 203123
    Strain: PSU-1
 
Molecule 2 - ALPHA/BETA SUPERFAMILY HYDROLASE
    Chains: D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: OEOE_1827
    Organism Scientific: OENOCOCCUS OENI
    Organism Taxid: 203123
    Strain: PSU-1

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A CD
Biological Unit 2 (1x): ABC 
Biological Unit 3 (1x): A CD
Biological Unit 4 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 40)

Asymmetric Unit (6, 40)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2CSO3Mod. Amino AcidS-HYDROXYCYSTEINE
3EDO7Ligand/Ion1,2-ETHANEDIOL
4GOL2Ligand/IonGLYCEROL
5MSE19Mod. Amino AcidSELENOMETHIONINE
6SO47Ligand/IonSULFATE ION
Biological Unit 1 (5, 30)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CSO2Mod. Amino AcidS-HYDROXYCYSTEINE
3EDO6Ligand/Ion1,2-ETHANEDIOL
4GOL2Ligand/IonGLYCEROL
5MSE14Mod. Amino AcidSELENOMETHIONINE
6SO46Ligand/IonSULFATE ION
Biological Unit 2 (5, 29)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CSO3Mod. Amino AcidS-HYDROXYCYSTEINE
3EDO4Ligand/Ion1,2-ETHANEDIOL
4GOL1Ligand/IonGLYCEROL
5MSE15Mod. Amino AcidSELENOMETHIONINE
6SO46Ligand/IonSULFATE ION
Biological Unit 3 (5, 30)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CSO2Mod. Amino AcidS-HYDROXYCYSTEINE
3EDO6Ligand/Ion1,2-ETHANEDIOL
4GOL2Ligand/IonGLYCEROL
5MSE14Mod. Amino AcidSELENOMETHIONINE
6SO46Ligand/IonSULFATE ION
Biological Unit 4 (5, 38)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CSO3Mod. Amino AcidS-HYDROXYCYSTEINE
3EDO7Ligand/Ion1,2-ETHANEDIOL
4GOL2Ligand/IonGLYCEROL
5MSE19Mod. Amino AcidSELENOMETHIONINE
6SO47Ligand/IonSULFATE ION

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:140 , ILE A:141 , PHE A:150 , EDO B:1002BINDING SITE FOR RESIDUE EDO A1001
02AC2SOFTWAREASP A:180 , LYS A:181 , THR A:182 , HOH A:484BINDING SITE FOR RESIDUE EDO A1003
03AC3SOFTWAREASP A:124 , GLN A:188 , ASN A:189 , ASN A:190 , TYR A:191 , SER A:192 , HOH A:517BINDING SITE FOR RESIDUE GOL A3002
04AC4SOFTWAREARG A:86 , ARG A:87 , HOH A:350 , ASN B:9BINDING SITE FOR RESIDUE SO4 A 401
05AC5SOFTWARELEU A:27 , SER A:94 , VAL A:120 , HIS A:125 , ARG A:128 , GLN A:188 , TYR A:191 , VAL A:218 , HOH A:372 , HOH A:392BINDING SITE FOR RESIDUE SO4 A 406
06AC6SOFTWAREEDO A:1001 , ASP B:140 , ILE B:141BINDING SITE FOR RESIDUE EDO B1002
07AC7SOFTWARELEU B:27 , VAL B:120 , HIS B:125 , ARG B:128 , GLN B:188 , TYR B:191 , VAL B:218 , HOH B:297BINDING SITE FOR RESIDUE SO4 B 402
08AC8SOFTWARETYR C:191 , SER C:192BINDING SITE FOR RESIDUE EDO C2001
09AC9SOFTWARELEU C:27 , VAL C:120 , HIS C:125 , ARG C:128 , GLN C:188 , TYR C:191 , VAL C:218 , HOH C:363BINDING SITE FOR RESIDUE SO4 C 404
10BC1SOFTWAREILE C:15 , GLY C:16 , GLY C:45 , ARG C:49BINDING SITE FOR RESIDUE SO4 C 405
11BC2SOFTWAREASN C:59 , LYS C:178BINDING SITE FOR RESIDUE SO4 C 407
12BC3SOFTWAREASP D:124 , GLN D:188 , ASN D:189 , ASN D:190 , TYR D:191 , SER D:192BINDING SITE FOR RESIDUE GOL D3002
13BC4SOFTWARELEU C:154 , LEU D:137 , GLU D:139 , ASP D:140 , ILE D:141 , EDO D:1002BINDING SITE FOR RESIDUE EDO D1001
14BC5SOFTWAREASP C:140 , ILE C:141 , EDO D:1001BINDING SITE FOR RESIDUE EDO D1002
15BC6SOFTWAREALA D:102 , HIS D:106 , PHE D:195 , LEU D:199BINDING SITE FOR RESIDUE EDO D1003
16BC7SOFTWARELEU D:27 , SER D:94 , VAL D:120 , HIS D:125 , ARG D:128 , TYR D:191 , VAL D:218 , HOH D:452BINDING SITE FOR RESIDUE SO4 D 403

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Ser A:64 -Pro A:65
2Glu B:39 -Pro B:40
3Ser B:64 -Pro B:65
4Ser C:64 -Pro C:65
5Ser D:64 -Pro D:65

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3FSG)

(-) Exons   (0, 0)

(no "Exon" information available for 3FSG)

(-) 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:267
 aligned with Q04D10_OENOB | Q04D10 from UniProtKB/TrEMBL  Length:269

    Alignment length:267
                                    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       
         Q04D10_OENOB     1 MKEYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTCLFFEPLSNVGQYQRIYLDLPGMGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSMNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKIMVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLMIDQREAVGFHFDLFLDELNS 267
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -3fsgA00 A:2-267  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....eeeee....eeeee.....hhhhhhhhhh........eeeee..............hhhhhhhhhhhhhhhhhh...eeeeeeehhhhhhhhhhhhh...eeeeeeeee....hhhhh.......ee........hhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhh.......eeeeee.......hhhhhhhhh....eeeeee.....hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fsg A   1 mKEYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTcLFFEPLSNVGQYQRIYLDLPGmGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSmNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKImVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLmIDQREAVGFHFDLFLDELNS 267
                            |       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       
                            |                                35-CSO                57-MSE                                                                                            156-MSE                                                211-MSE                             247-MSE                
                            1-MSE                                                                                                                                                                                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:266
 aligned with Q04D10_OENOB | Q04D10 from UniProtKB/TrEMBL  Length:269

    Alignment length:266
                                    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      
         Q04D10_OENOB     1 MKEYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTCLFFEPLSNVGQYQRIYLDLPGMGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSMNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKIMVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLMIDQREAVGFHFDLFLDELN 266
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -3fsgB00 B:2-266  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....eeeeee..eeeeee.....hhhhhhhhhh.......eeeeee..............hhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhh...eeeeeee......hhhhh.......ee........hhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhh.....eeeeee.......hhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fsg B   1 mKEYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTcLFFEPLSNVGQYQRIYLDLPGmGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSmNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKImVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLmIDQREAVGFHFDLFLDELN 266
                            |       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      
                            1-MSE                            35-CSO                57-MSE                                                                                            156-MSE                                                211-MSE                             247-MSE               


Chain C from PDB  Type:PROTEIN  Length:266
 aligned with Q04D10_OENOB | Q04D10 from UniProtKB/TrEMBL  Length:269

    Alignment length:266
                                    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      
         Q04D10_OENOB     1 MKEYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTCLFFEPLSNVGQYQRIYLDLPGMGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSMNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKIMVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLMIDQREAVGFHFDLFLDELN 266
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -3fsgC00 C:2-266  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....eeeee...eeeeee.....hhhhhhhhhh.......eeeeee..............hhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhh...eeeeeee......hhhhh.......ee........hhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhh.....eeeeee.......hhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fsg C   1 mKEYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTcLFFEPLSNVGQYQRIYLDLPGmGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSmNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKImVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLmIDQREAVGFHFDLFLDELN 266
                            |       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      
                            1-MSE                            35-CSO                57-MSE                                                                                            156-MSE                                                211-MSE                             247-MSE               


Chain D from PDB  Type:PROTEIN  Length:264
 aligned with Q04D10_OENOB | Q04D10 from UniProtKB/TrEMBL  Length:269

    Alignment length:264
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262    
         Q04D10_OENOB     3 EYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTCLFFEPLSNVGQYQRIYLDLPGMGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSMNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKIMVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLMIDQREAVGFHFDLFLDELN 266
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3fsgD00 D:3-266  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee.....eeeee...eeeeee.....hhhhhhhhhh.......eeeeee..............hhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhh...eeeeeee......hhhhh.......ee........hhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhh.......eeeeee.......hhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3fsg D   3 EYLTRSNISYFSIGSGTPIIFLHGLSLDKQSTCLFFEPLSNVGQYQRIYLDLPGmGNSDPISPSTSDNVLETLIEAIEEIIGARRFILYGHSYGGYLAQAIAFHLKDQTLGVFLTCPVITADHSKRLTGKHINILEEDINPVENKEYFADFLSmNVIINNQAWHDYQNLIIPGLQKEDKTFIDQLQNNYSFTFEEKLKNINYQFPFKImVGRNDQVVGYQEQLKLINHNENGEIVLLNRTGHNLmIDQREAVGFHFDLFLDELN 266
                                    12        22        32        42        52    |   62        72        82        92       102       112       122       132       142       152   |   162       172       182       192       202       212       222       232       242    |  252       262    
                                                                                 57-MSE                                                                                            156-MSE                                                211-MSE                             247-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 3FSG)

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3FSG)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q04D10_OENOB | Q04D10)
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.

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  3fsg
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  Q04D10_OENOB | Q04D10
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