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(-) Description

Title :  THE 2.0 ANGSTROM CRYSTAL STRUCTURE OF PYROCOCCUS HORIKOSHII CUTA1 COMPLEXED WITH NA+
 
Authors :  B. Bagautdinov, T. H. Tahirov, Riken Structural Genomics/Proteomi Initiative (Rsgi)
Date :  11 Dec 13  (Deposition) - 01 Jan 14  (Release) - 12 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Cuta, Trimer, Divalent Cation Tolerance, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Bagautdinov, T. H. Tahirov
The 2. 0 Angstrom Crystal Structure Of Pyrococcus Horikoshii Complexed With Na+
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIVALENT-CATION TOLERANCE PROTEIN CUTA
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CUTA, PH0992
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: OT3

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 15)

Asymmetric Unit (3, 15)
No.NameCountTypeFull Name
1CSD6Mod. Amino Acid3-SULFINOALANINE
2NA3Ligand/IonSODIUM ION
3SO46Ligand/IonSULFATE ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1CSD3Mod. Amino Acid3-SULFINOALANINE
2NA-1Ligand/IonSODIUM ION
3SO45Ligand/IonSULFATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1CSD3Mod. Amino Acid3-SULFINOALANINE
2NA-1Ligand/IonSODIUM ION
3SO41Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:15 , GLU C:47 , GLU F:15BINDING SITE FOR RESIDUE NA A 1001
2AC2SOFTWAREHOH A:1107 , HOH A:1127 , HOH B:308 , HOH B:314 , HOH C:311 , HOH C:329BINDING SITE FOR RESIDUE NA A 1002
3AC3SOFTWAREMET A:1 , GLU A:59 , LEU A:93 , HOH A:1122BINDING SITE FOR RESIDUE SO4 A 1003
4AC4SOFTWARETRP A:41 , TYR A:75 , ASP A:76 , VAL A:77 , HOH A:1197BINDING SITE FOR RESIDUE SO4 A 1004
5AC5SOFTWAREARG A:33 , ILE A:54 , ARG B:33 , ILE B:54 , HOH B:340 , ARG C:33 , ILE C:54BINDING SITE FOR RESIDUE SO4 B 201
6AC6SOFTWAREMET B:1 , ARG B:58 , GLU B:59 , LEU B:93 , HOH B:312BINDING SITE FOR RESIDUE SO4 B 202
7AC7SOFTWARELYS B:23 , TYR C:75 , ASP C:76 , VAL C:77 , HOH C:364 , HOH C:370BINDING SITE FOR RESIDUE SO4 C 201
8AC8SOFTWAREHOH D:341 , HOH D:349 , HOH E:312 , HOH E:341 , HOH F:206 , HOH F:278BINDING SITE FOR RESIDUE NA D 201
9AC9SOFTWAREARG D:33 , ILE D:54 , ARG E:33 , ILE E:54 , ARG F:33 , ILE F:54BINDING SITE FOR RESIDUE SO4 E 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NYP)

(-) 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:102
                                                                                                                                      
               SCOP domains d4nypa_ A: Cut A1                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh....................eeeeeeeeeeeeehhhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 4nyp A   1 MIIVYTTFPDWESAEKVVKTLLKERLIAcANLREHRAFYWWEGKIEEDKEVGAILKTREDLWEELKERIKELHPYDVPAIIRIDVDDVNEDYLKWLIEETKK 102
                                    10        20        30        40        50        60        70        80        90       100  
                                                       29-CSD                                                                     


Chain B from PDB  Type:PROTEIN  Length:102
                                                                                                                                      
               SCOP domains d4nypb_ B: Cut A1                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh...................eeeeeeeeeeeeeehhhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 4nyp B   1 MIIVYTTFPDWESAEKVVKTLLKERLIAcANLREHRAFYWWEGKIEEDKEVGAILKTREDLWEELKERIKELHPYDVPAIIRIDVDDVNEDYLKWLIEETKK 102
                                    10        20        30        40        50        60        70        80        90       100  
                                                       29-CSD                                                                     


Chain C from PDB  Type:PROTEIN  Length:102
                                                                                                                                      
               SCOP domains d4nypc_ C: Cut A1                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh...................eeeeeeeeeeeeeehhhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 4nyp C   1 MIIVYTTFPDWESAEKVVKTLLKERLIAcANLREHRAFYWWEGKIEEDKEVGAILKTREDLWEELKERIKELHPYDVPAIIRIDVDDVNEDYLKWLIEETKK 102
                                    10        20        30        40        50        60        70        80        90       100  
                                                       29-CSD                                                                     


Chain D from PDB  Type:PROTEIN  Length:102
                                                                                                                                      
               SCOP domains d4nypd_ D: Cut A1                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh...................eeeeeeeeeeeeeehhhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 4nyp D   1 MIIVYTTFPDWESAEKVVKTLLKERLIAcANLREHRAFYWWEGKIEEDKEVGAILKTREDLWEELKERIKELHPYDVPAIIRIDVDDVNEDYLKWLIEETKK 102
                                    10        20        30        40        50        60        70        80        90       100  
                                                       29-CSD                                                                     


Chain E from PDB  Type:PROTEIN  Length:102
                                                                                                                                      
               SCOP domains d4nype_ E: Cut A1                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh...................eeeeeeeeeeeeeehhhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 4nyp E   1 MIIVYTTFPDWESAEKVVKTLLKERLIAcANLREHRAFYWWEGKIEEDKEVGAILKTREDLWEELKERIKELHPYDVPAIIRIDVDDVNEDYLKWLIEETKK 102
                                    10        20        30        40        50        60        70        80        90       100  
                                                       29-CSD                                                                     


Chain F from PDB  Type:PROTEIN  Length:102
                                                                                                                                      
               SCOP domains d4nypf_ F: Cut A1                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhh...................eeeeeeeeeeeeeehhhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 4nyp F   1 MIIVYTTFPDWESAEKVVKTLLKERLIAcANLREHRAFYWWEGKIEEDKEVGAILKTREDLWEELKERIKELHPYDVPAIIRIDVDDVNEDYLKWLIEETKK 102
                                    10        20        30        40        50        60        70        80        90       100  
                                                       29-CSD
   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  (1, 6)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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  CUTA_PYRHO | O58720
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        CUTA_PYRHO | O58720: 1j2v 1uku 1umj 2e66 4nyo

(-) Related Entries Specified in the PDB File

4nyo RELATED ID: RSGI-PHO001000992.1 RELATED DB: TARGETTRACK