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(-) Description

Title :  2A X-RAY STRUCTURE OF HPF FROM VIBRIO CHOLERAE
 
Authors :  H. De Bari, E. A. Berry
Date :  03 Oct 12  (Deposition) - 24 Oct 12  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Beta-Alpha-Beta-Beta-Beta-Alpha Secondary Structure Fold Similar To Yfia Of E. Coli, Associates With 100S Ribosome Dimers, Stationary Phase, Translation Inhibition, Translation, Drbd, Double-Stranded Rna Binding Domain, Inhibits Translation By Binding The 30S Ribosome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. De Bari, E. A. Berry
Structure Of Vibrio Cholerae Ribosome Hibernation Promoting Factor.
Acta Crystallogr. , Sect. F V. 69 228 2013
PubMed-ID: 23519794  |  Reference-DOI: 10.1107/S1744309113000961

(-) Compounds

Molecule 1 - RIBOSOME HIBERNATION PROTEIN YHBH
    Chains: A, B
    Organism Scientific: VIBRIO CHOLERAE SEROTYPE O1 (STRAIN ATCC 39315 / EL TOR INABA N16961)
    Organism Taxid: 243277
    Strain: ATCC 39315 / EL TOR INABA N16961

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 17)

Asymmetric Unit (3, 17)
No.NameCountTypeFull Name
13CO4Ligand/IonCOBALT (III) ION
2SCN6Ligand/IonTHIOCYANATE ION
3UNL7Ligand/IonUNKNOWN LIGAND
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
13CO2Ligand/IonCOBALT (III) ION
2SCN1Ligand/IonTHIOCYANATE ION
3UNL5Ligand/IonUNKNOWN LIGAND
Biological Unit 2 (3, 9)
No.NameCountTypeFull Name
13CO2Ligand/IonCOBALT (III) ION
2SCN5Ligand/IonTHIOCYANATE ION
3UNL2Ligand/IonUNKNOWN LIGAND
Biological Unit 3 (3, 17)
No.NameCountTypeFull Name
13CO4Ligand/IonCOBALT (III) ION
2SCN6Ligand/IonTHIOCYANATE ION
3UNL7Ligand/IonUNKNOWN LIGAND

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:55 , GLU B:51 , SCN B:104 , SCN B:105BINDING SITE FOR RESIDUE 3CO A 101
02AC2SOFTWAREHIS A:62 , HIS A:64 , SCN A:103 , GLU B:60BINDING SITE FOR RESIDUE 3CO A 102
03AC3SOFTWAREGLN A:38 , GLU A:51 , THR A:53 , HIS A:62 , HIS A:64 , 3CO A:102 , HIS B:55 , GLU B:60BINDING SITE FOR RESIDUE SCN A 103
04AC4SOFTWAREGLU A:60 , HIS B:62 , HIS B:64 , SCN B:103BINDING SITE FOR RESIDUE 3CO B 102
05AC5SOFTWAREHIS A:55 , GLU A:60 , GLN B:38 , GLU B:51 , THR B:53 , HIS B:62 , HIS B:64 , 3CO B:102BINDING SITE FOR RESIDUE SCN B 103
06AC6SOFTWAREHIS A:36 , HIS A:55 , 3CO A:101 , HIS B:8 , ARG B:42 , GLU B:51 , SCN B:105BINDING SITE FOR RESIDUE SCN B 104
07AC7SOFTWAREHIS A:55 , GLU A:60 , 3CO A:101 , ARG B:42 , GLU B:51 , HIS B:64 , SCN B:104BINDING SITE FOR RESIDUE SCN B 105
08AC8SOFTWAREGLU A:51 , HIS B:55 , GLU B:60 , SCN B:107 , SCN B:108BINDING SITE FOR RESIDUE 3CO B 106
09AC9SOFTWAREHIS A:8 , ARG A:42 , GLU A:51 , HIS B:36 , HIS B:55 , 3CO B:106 , SCN B:108BINDING SITE FOR RESIDUE SCN B 107
10BC1SOFTWAREASP A:32 , ARG A:42 , GLU A:51 , HIS B:55 , GLU B:60 , 3CO B:106 , SCN B:107 , HOH B:202 , HOH B:203BINDING SITE FOR RESIDUE SCN B 108

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:92
                                                                                                                           
               SCOP domains d4heia_ A: automated matches                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....hhhhhhhhhhhhhhhh.....eeeeeeeeeee..eeeeeeeeee..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  4hei A  1 MQINIQGHHIDLTDSMQDYVHSKFDKLERFFDHINHVQVILRVEKLRQIAEATLHVNQAEIHAHADDENMYAAIDSLVDKLVRQLNKHKEKL 92
                                    10        20        30        40        50        60        70        80        90  


Chain B from PDB  Type:PROTEIN  Length:91
                                                                                                                          
               SCOP domains d4heib_ B: automated matches                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....hhhhhhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeeeee..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------- Transcript
                  4hei B  1 MQINIQGHHIDLTDSMQDYVHSKFDKLERFFDHINHVQVILRVEKLRQIAEATLHVNQAEIHAHADDENMYAAIDSLVDKLVRQLNKHKEK 91
                                    10        20        30        40        50        60        70        80        90
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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4fyl