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(-) Description

Title :  CRYSTAL STRUCTURE OF M. ACETIVORANS PERIPLASMIC BINDING PROTEIN MODA/WTPA WITH BOUND TUNGSTATE
 
Authors :  M. Comellas-Bigler, K. Hollenstein, K. P. Locher
Date :  04 Mar 08  (Deposition) - 10 Mar 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B,S#
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 
Keywords :  Abc Transporter, Binding Protein, Molybdate, Tungstate, Ligand, Unknown Function, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Hollenstein, M. Comellas-Bigler, L. E. Bevers, M. C. Feiters, W. Meyer-Klaucke, P. L. Hagedoorn, K. P. Locher
Distorted Octahedral Coordination Of Tungstate In A Subfamily Of Specific Binding Proteins.
J. Biol. Inorg. Chem. V. 14 663 2009
PubMed-ID: 19234723  |  Reference-DOI: 10.1007/S00775-009-0479-7

(-) Compounds

Molecule 1 - UPF0100 PROTEIN MA_0280
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-19B
    Expression System Strain: BL21-CODON PLUS(DE3)-RIPL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: MODA
    Organism Scientific: METHANOSARCINA ACETIVORANS
    Organism Taxid: 2214
    Other Details: MOLYBDATE ABC TRANSPORTER, SOLUTE-BINDING PROTEIN
    Synonym: MOLYBDATE ABC TRANSPORTER, SOLUTE-BINDING PROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABS#
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric Unit (3, 10)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2MG4Ligand/IonMAGNESIUM ION
3WO42Ligand/IonTUNGSTATE(VI)ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
3WO41Ligand/IonTUNGSTATE(VI)ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
3WO41Ligand/IonTUNGSTATE(VI)ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:175 , ASP A:181 , ASP A:185 , HOH A:902 , HOH A:1046BINDING SITE FOR RESIDUE MG A 703
02AC2SOFTWAREGLU A:59 , GLU A:63 , ASP A:70 , VAL A:71 , HOH A:1025 , HOH A:1036BINDING SITE FOR RESIDUE MG A 704
03AC3SOFTWAREALA A:48 , GLY A:49 , SER A:50 , GLY A:77 , SER A:78 , ALA A:98 , ASP A:161 , PRO A:162 , ALA A:163 , MET A:226 , GLU A:227 , TYR A:245BINDING SITE FOR RESIDUE WO4 A 701
04AC4SOFTWAREGLU B:175 , ASP B:181 , ASP B:185 , HOH B:905 , HOH B:910BINDING SITE FOR RESIDUE MG B 705
05AC5SOFTWAREGLU B:59 , GLU B:63 , ASP B:70 , VAL B:71 , HOH B:944 , HOH B:982BINDING SITE FOR RESIDUE MG B 706
06AC6SOFTWAREALA B:48 , GLY B:49 , SER B:50 , GLY B:77 , SER B:78 , ALA B:98 , ASP B:161 , PRO B:162 , ALA B:163 , GLU B:227 , TYR B:245BINDING SITE FOR RESIDUE WO4 B 702
07AC7SOFTWAREASN A:157 , LEU A:223 , SER A:225 , ALA B:190 , HOH B:974 , HOH B:983BINDING SITE FOR RESIDUE GOL A 901
08AC8SOFTWARELYS B:132 , ASP B:150 , ASP B:240 , HOH B:954 , HOH B:994BINDING SITE FOR RESIDUE GOL B 902
09AC9SOFTWAREHIS B:252BINDING SITE FOR RESIDUE GOL B 903
10BC1SOFTWAREGLY A:40 , HIS B:66 , GLU B:310BINDING SITE FOR RESIDUE GOL B 904

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Val A:108 -Pro A:109
2Val B:108 -Pro B:109

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3CFX)

(-) 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:293
 aligned with Y280_METAC | Q8TTZ5 from UniProtKB/Swiss-Prot  Length:352

    Alignment length:293
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329   
           Y280_METAC    40 GEVLTVFHAGSLSVPFEELEAEFEAQHPGVDVQREAAGSAQSVRKITELGKKADVLASADYALIPSLMVPEYADWYAAFARNQMILAYTNESKYGDEINTDNWYEILRRPDVRYGFSNPNDDPAGYRSQMVTQLAESYYNDDMIYDDLMLANTGMTLTTEENGTALIHVPASEEISPNTSKIMLRSMEVELSSALETGEIDYLYIYRSVAEQHGFEYVALPPAIDLSSLEYADNYSKVQVEMVNGEVVTGSPIVYGVTIPNNAENSELATEFVALLLGETGQQIFIENGQPPI 332
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh......eeee...hhhhhhh.......eeeeee..eeeee.............hhhhhhhh....eeee....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..eeee.....eeee..hhhhh......eeee.hhhhhhhhhhh....eeeeehhhhhhhh.eee.........hhhhhhhhh.eeee.....eee....eeeee......hhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfx A  40 GEVLTVFHAGSLSVPFEELEAEFEAQHPGVDVQREAAGSAQSVRKITELGKKADVLASADYALIPSLMVPEYADWYAAFARNQMILAYTNESKYGDEINTDNWYEILRRPDVRYGFSNPNDDPAGYRSQMVTQLAESYYNDDMIYDDLMLANTGMTLTTEENGTALIHVPASEEISPNTSKIMLRSMEVELSSALETGEIDYLYIYRSVAEQHGFEYVALPPAIDLSSLEYADNYSKVQVEMVNGEVVTGSPIVYGVTIPNNAENSELATEFVALLLGETGQQIFIENGQPPI 332
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329   


Chain B from PDB  Type:PROTEIN  Length:293
 aligned with Y280_METAC | Q8TTZ5 from UniProtKB/Swiss-Prot  Length:352

    Alignment length:293
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329   
           Y280_METAC    40 GEVLTVFHAGSLSVPFEELEAEFEAQHPGVDVQREAAGSAQSVRKITELGKKADVLASADYALIPSLMVPEYADWYAAFARNQMILAYTNESKYGDEINTDNWYEILRRPDVRYGFSNPNDDPAGYRSQMVTQLAESYYNDDMIYDDLMLANTGMTLTTEENGTALIHVPASEEISPNTSKIMLRSMEVELSSALETGEIDYLYIYRSVAEQHGFEYVALPPAIDLSSLEYADNYSKVQVEMVNGEVVTGSPIVYGVTIPNNAENSELATEFVALLLGETGQQIFIENGQPPI 332
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh......eeee...hhhhhhh.......eeeeee..eeeee.............hhhhhhhh....eeee....hhhhhhhhhhhhhhhhhhh..hhhhhhh......eeee.....eeee..hhhhh......eeee.hhhhhhhhhhh....eeeeehhhhhhhh.eeee........hhhhhhhhh.eeee.....eee....eeeee......hhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfx B  40 GEVLTVFHAGSLSVPFEELEAEFEAQHPGVDVQREAAGSAQSVRKITELGKKADVLASADYALIPSLMVPEYADWYAAFARNQMILAYTNESKYGDEINTDNWYEILRRPDVRYGFSNPNDDPAGYRSQMVTQLAESYYNDDMIYDDLMLANTGMTLTTEENGTALIHVPASEEISPNTSKIMLRSMEVELSSALETGEIDYLYIYRSVAEQHGFEYVALPPAIDLSSLEYADNYSKVQVEMVNGEVVTGSPIVYGVTIPNNAENSELATEFVALLLGETGQQIFIENGQPPI 332
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329
   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 3CFX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Y280_METAC | Q8TTZ5)
molecular function
    GO:1901359    tungstate binding    Interacting selectively and non-covalently with tungstate.
cellular component
    GO:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.

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 Related Entries

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

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        Y280_METAC | Q8TTZ5: 3k6u 3k6v 3k6w 3k6x

(-) Related Entries Specified in the PDB File

2onr 3cfz 3cg1 3cg3