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(-) Description

Title :  CRYSTAL STRUCTURE OF UNCHARACTERIZED PROTEIN WS1659 FROM WOLINELLA SUCCINOGENES
 
Authors :  U. A. Ramagopal, R. Toro, S. K. Burley, S. C. Almo, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date :  21 Sep 09  (Deposition) - 13 Oct 09  (Release) - 13 Oct 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,E  (1x)
Biol. Unit 2:  C,D,F  (1x)
Biol. Unit 3:  A (1x),B (1x),C (1x),D (1x),E (1x),F (1x)
Keywords :  Structural Genomics, Unknown Function, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  U. A. Ramagopal, R. Toro, S. K. Burley, S. C. Almo
Crystal Structure Of Uncharacterized Protein Ws1659 From Wolinella Succinogenes
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BC-PSGX4(BC)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: WS1659
    Organism Scientific: WOLINELLA SUCCINOGENES
    Organism Taxid: 844

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB  E 
Biological Unit 2 (1x):   CD F
Biological Unit 3 (1x): A (1x)B (1x)C (1x)D (1x)E (1x)F (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 18)

Asymmetric Unit (2, 18)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
2ZN6Ligand/IonZINC ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
2ZN-1Ligand/IonZINC ION
Biological Unit 3 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
2ZN-1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:15 , CYS A:34 , HIS A:38 , HIS A:40 , HOH A:217 , HOH A:714BINDING SITE FOR RESIDUE ZN A 200
2AC2SOFTWAREHIS B:15 , CYS B:34 , HIS B:38 , HIS B:40 , HOH B:229BINDING SITE FOR RESIDUE ZN B 200
3AC3SOFTWAREHIS C:15 , CYS C:34 , HIS C:38 , HIS C:40 , HOH C:221 , HOH C:494BINDING SITE FOR RESIDUE ZN C 200
4AC4SOFTWAREHIS D:15 , CYS D:34 , HIS D:38 , HIS D:40 , HOH D:202 , HOH D:203BINDING SITE FOR RESIDUE ZN D 200
5AC5SOFTWAREHIS E:15 , CYS E:34 , HIS E:38 , HIS E:40 , HOH E:346 , HOH E:713BINDING SITE FOR RESIDUE ZN E 200
6AC6SOFTWAREHIS F:15 , CYS F:34 , HIS F:38 , HIS F:40 , HOH F:205 , HOH F:712BINDING SITE FOR RESIDUE ZN F 200

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3JYG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3JYG)

(-) 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:180
 aligned with Q7MR56_WOLSU | Q7MR56 from UniProtKB/TrEMBL  Length:180

    Alignment length:180
                             1                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
         Q7MR56_WOLSU     - -MIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGMVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWMEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeee.......hhhhhh...hhhhh.eeeeeeeeeeeee.........hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhh....eee....eeee.hhhhh..hhhhhhhhhheeee....hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3jyg A   0 SLIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGmVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWmEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
                                     9        19        29        39        49       |59        69        79        89        99    |  109       119       129       139       149       159       169       179
                                                                                    57-MSE                                        104-MSE                                                                       


Chain B from PDB  Type:PROTEIN  Length:180
 aligned with Q7MR56_WOLSU | Q7MR56 from UniProtKB/TrEMBL  Length:180

    Alignment length:180
                             1                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
         Q7MR56_WOLSU     - -MIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGMVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWMEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeee.......hhhhhh...hhhhh.eeeeeeeeeeeee.........hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhh....eee.....eee.hhhhh..hhhhhhhhhheeee....hhhhhhhhhhhhhhh.hhhhh.eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3jyg B   0 SLIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGmVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWmEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
                                     9        19        29        39        49       |59        69        79        89        99    |  109       119       129       139       149       159       169       179
                                                                                    57-MSE                                        104-MSE                                                                       


Chain C from PDB  Type:PROTEIN  Length:180
 aligned with Q7MR56_WOLSU | Q7MR56 from UniProtKB/TrEMBL  Length:180

    Alignment length:180
                             1                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
         Q7MR56_WOLSU     - -MIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGMVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWMEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeee.......hhhhhh...hhhhh.eeeeeeeeeeeee.........hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhh....eee....eeee.hhhhh..hhhhhhhhhheeee....hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3jyg C   0 SLIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGmVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWmEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
                                     9        19        29        39        49       |59        69        79        89        99    |  109       119       129       139       149       159       169       179
                                                                                    57-MSE                                        104-MSE                                                                       


Chain D from PDB  Type:PROTEIN  Length:180
 aligned with Q7MR56_WOLSU | Q7MR56 from UniProtKB/TrEMBL  Length:180

    Alignment length:180
                             1                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
         Q7MR56_WOLSU     - -MIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGMVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWMEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeee.......hhhhhh...hhhhh.eeeeeeeeeeeee.........hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhh....eee....eeee.hhhhh..hhhhhhhhhheeee....hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3jyg D   0 SLIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGmVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWmEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
                                     9        19        29        39        49       |59        69        79        89        99    |  109       119       129       139       149       159       169       179
                                                                                    57-MSE                                        104-MSE                                                                       


Chain E from PDB  Type:PROTEIN  Length:180
 aligned with Q7MR56_WOLSU | Q7MR56 from UniProtKB/TrEMBL  Length:180

    Alignment length:180
                             1                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
         Q7MR56_WOLSU     - -MIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGMVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWMEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeee.......hhhhhh...hhhhh.eeeeeeeeeeeee.........hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhh....eee.....eee.hhhhh..hhhhhhhhhheeee....hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3jyg E   0 SLIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGmVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWmEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
                                     9        19        29        39        49       |59        69        79        89        99    |  109       119       129       139       149       159       169       179
                                                                                    57-MSE                                        104-MSE                                                                       


Chain F from PDB  Type:PROTEIN  Length:180
 aligned with Q7MR56_WOLSU | Q7MR56 from UniProtKB/TrEMBL  Length:180

    Alignment length:180
                             1                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
         Q7MR56_WOLSU     - -MIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGMVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWMEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ----PTPS-3jygF01 F:4-179                                                                                                                                                             Pfam domains (1)
           Pfam domains (2) ----PTPS-3jygF02 F:4-179                                                                                                                                                             Pfam domains (2)
           Pfam domains (3) ----PTPS-3jygF03 F:4-179                                                                                                                                                             Pfam domains (3)
           Pfam domains (4) ----PTPS-3jygF04 F:4-179                                                                                                                                                             Pfam domains (4)
           Pfam domains (5) ----PTPS-3jygF05 F:4-179                                                                                                                                                             Pfam domains (5)
           Pfam domains (6) ----PTPS-3jygF06 F:4-179                                                                                                                                                             Pfam domains (6)
         Sec.struct. author .eeeeeeeeeeeeeee.......hhhhhh...hhhhh.eeeeeeeeeeeee.........hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhh....eee.....eee.hhhhh..hhhhhhhhhheeee....hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3jyg F   0 SLIYQIAKEFDFCYGHRVWSQELNPDFSLDPCLSCRHLHGHQGKVIVHLESRELQRGmVTDFAHLNWFKRFIDEVLDHRFIIDIDDPLFPTLLPHFADKSALVWmEEGYARVDFERIKGESSPILELYESFVVVRFVPTSESIASWLLELLRSRIQPLGVKVSSVEFLETPKSRARVYNE 179
                                     9        19        29        39        49       |59        69        79        89        99    |  109       119       129       139       149       159       169       179
                                                                                    57-MSE                                        104-MSE
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: THBO-biosyn (64)
(-)
Family: PTPS (5)
(-)
Wolinella succinogenes (1)
1aPTPS-3jygF01F:4-179
1bPTPS-3jygF02F:4-179
1cPTPS-3jygF03F:4-179
1dPTPS-3jygF04F:4-179
1ePTPS-3jygF05F:4-179
1fPTPS-3jygF06F:4-179

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3JYG)

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