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(-) Description

Title :  STRUCTURE OF E. COLI RPPH BOUND TO SULFATE IONS
 
Authors :  N. Vasilyev, A. Serganov
Date :  23 Jan 15  (Deposition) - 11 Feb 15  (Release) - 06 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Nudix Hydrolase, Rna Pyrophosphohydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Vasilyev, A. Serganov
Structures Of Rna Complexes With The Escherichia Coli Rna Pyrophosphohydrolase Rpph Unveil The Basis For Specific 5'-End-Dependent Mrna Decay.
J. Biol. Chem. V. 290 9487 2015
PubMed-ID: 25657011  |  Reference-DOI: 10.1074/JBC.M114.634824

(-) Compounds

Molecule 1 - RNA PYROPHOSPHOHYDROLASE
    Chains: A
    EC Number: 3.6.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RPPH, NUDH, YGDP, B2830, JW2798
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: (DI)NUCLEOSIDE POLYPHOSPHATE HYDROLASE, AP5A PYROPHOSPHATASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 2 (1, 12)
No.NameCountTypeFull Name
1SO412Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:1 , GLY A:40 , ARG A:53 , HOH A:306 , HOH A:332BINDING SITE FOR RESIDUE SO4 A 201
2AC2SOFTWAREARG A:28 , GLN A:38 , TYR A:78 , LEU A:80 , GLN A:96 , LYS A:141 , HOH A:350 , HOH A:353BINDING SITE FOR RESIDUE SO4 A 202
3AC3SOFTWAREASN A:18 , ARG A:19 , GLN A:20 , HOH A:335BINDING SITE FOR RESIDUE SO4 A 203
4AC4SOFTWARETRP A:75 , ARG A:77 , ARG A:142 , ASP A:143 , ARG A:146BINDING SITE FOR RESIDUE SO4 A 204
5AC5SOFTWAREGLN A:31 , HIS A:32 , SER A:33BINDING SITE FOR RESIDUE SO4 A 205
6AC6SOFTWARETRP A:75 , LEU A:76 , ARG A:77 , ARG A:142 , ARG A:147BINDING SITE FOR RESIDUE SO4 A 206

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4S2W)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4S2W)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S2W)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S2W)

(-) Exons   (0, 0)

(no "Exon" information available for 4S2W)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:157
                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeeee.....eeeeee.....ee..eee.....hhhhhhhhhhhhhhh.hhh.eeeeee....eeee...........eeeeeeeeeee..hhhhh.........eeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s2w A   1 SMIDDDGYRPNVGIVICNRQGQVMWARRFGQHSWQFPQGGINPGESAEQAMYRELFEEVGLSRKDVRILASTRNWLRYKLPKRLVKPVCIGQKQKWFLLQLVSGDAEINMQTSSTPEFDGWRWVSYWYPVRQVVSFKRDVYRRVMKEFASVVMSLAA 161
                                    10        20        30        40        50        60        70        80    ||  94       104       114       124       134       144       154       
                                                                                                               85|                                                                       
                                                                                                                90
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4S2W)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S2W)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S2W)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        RPPH_ECOLI | P0A776: 2kdv 2kdw 4s2v 4s2x 4s2y

(-) Related Entries Specified in the PDB File

4s2v 4s2x 4s2y