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(-) Description

Title :  H57A HFQ FROM PSEUDOMONAS AERUGINOSA
 
Authors :  O. Moskaleva, B. Melnik, A. Gabdulkhakov, M. Garber, S. Nikonov, E. Stolboushkina, A. Nikulin
Date :  11 Mar 10  (Deposition) - 28 Jul 10  (Release) - 28 Jul 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C,D,E,F  (1x)
Biol. Unit 2:  G,H,I,J,K,L  (1x)
Keywords :  Hfq, Protein Tertiary Structure, Rna-Binding, Protein Stability, Stress Response, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Moskaleva, B. Melnik, A. Gabdulkhakov, M. Garber, S. Nikonov, E. Stolboushkina, A. Nikulin
The Structures Of Mutant Forms Of Hfq From Pseudomonas Aeruginosa Reveal The Importance Of The Conserved His57 For The Protein Hexamer Organization.
Acta Crystallogr. , Sect. F V. 66 760 2010
PubMed-ID: 20606268  |  Reference-DOI: 10.1107/S1744309110017331

(-) Compounds

Molecule 1 - PROTEIN HFQ
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HFQ, PA4944
    Mutation: YES
    Organism Scientific: PSEUDOMONAS AERUGINOSA
    Organism Taxid: 287

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ABCDEFGHIJKL
Biological Unit 1 (1x): ABCDEF      
Biological Unit 2 (1x):       GHIJKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 14)

Asymmetric Unit (1, 14)
No.NameCountTypeFull Name
1ZN14Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:5 , ASP A:9 , HOH A:281 , LYS B:3BINDING SITE FOR RESIDUE ZN A 83
02AC2SOFTWAREHIS B:5 , ASP B:9 , HOH B:222 , SER C:2 , LYS C:3BINDING SITE FOR RESIDUE ZN B 83
03AC3SOFTWAREGLU B:18 , HOH B:216 , GLU E:18BINDING SITE FOR RESIDUE ZN B 84
04AC4SOFTWAREHIS C:5 , ASP C:9 , HOH C:208 , HOH C:228 , HOH C:231BINDING SITE FOR RESIDUE ZN C 83
05AC5SOFTWAREASP D:9 , HOH D:226 , HOH D:250 , HOH E:234BINDING SITE FOR RESIDUE ZN D 83
06AC6SOFTWAREGLU A:18 , GLU D:18BINDING SITE FOR RESIDUE ZN D 84
07AC7SOFTWAREHIS E:5 , ASP E:9 , HOH E:218 , SER F:2 , HOH F:327BINDING SITE FOR RESIDUE ZN E 83
08AC8SOFTWAREHIS F:5 , ASP F:9 , HOH F:84 , HOH F:100 , HOH F:221BINDING SITE FOR RESIDUE ZN F 83
09AC9SOFTWAREHIS G:5 , ASP G:9BINDING SITE FOR RESIDUE ZN G 83
10BC1SOFTWAREHIS H:5 , ASP H:9 , HOH H:276 , HOH H:277BINDING SITE FOR RESIDUE ZN H 83
11BC2SOFTWAREHOH F:143 , HIS I:5 , ASP I:9BINDING SITE FOR RESIDUE ZN I 83
12BC3SOFTWAREGLU G:18 , GLU J:18 , ARG J:69 , HOH J:211 , HOH J:291BINDING SITE FOR RESIDUE ZN J 83
13BC4SOFTWAREHIS K:5 , ASP K:9 , HOH K:86BINDING SITE FOR RESIDUE ZN K 83
14BC5SOFTWAREHIS L:5 , ASP L:9 , HOH L:85 , HOH L:278 , HOH L:279BINDING SITE FOR RESIDUE ZN L 83

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3M4G)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Thr F:49 -Val F:50
2Thr I:49 -Val I:50

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3M4G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3M4G)

(-) Exons   (0, 0)

(no "Exon" information available for 3M4G)

(-) 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:68
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:68
                                    12        22        32        42        52        62        
             HFQ_PSEAE    3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRL 70
               SCOP domains d3m4ga_ A: Pleiotropic translational regulator Hfq                   SCOP domains
               CATH domains -------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee...eeeee...eeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                  3m4g A  3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRL 70
                                    12        22        32        42        52        62        


Chain B from PDB  Type:PROTEIN  Length:69
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:69
                                    12        22        32        42        52        62         
             HFQ_PSEAE    3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gb_ B: Pleiotropic translational regulator Hfq                    SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                  3m4g B  3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    12        22        32        42        52        62         


Chain C from PDB  Type:PROTEIN  Length:70
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:70
                                    11        21        31        41        51        61        71
             HFQ_PSEAE    2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gc_ C: Pleiotropic translational regulator Hfq                     SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                  3m4g C  2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    11        21        31        41        51        61        71


Chain D from PDB  Type:PROTEIN  Length:66
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:66
                                    15        25        35        45        55        65      
             HFQ_PSEAE    6 SLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gd_ D: Pleiotropic translational regulator Hfq                 SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  3m4g D  6 SLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    15        25        35        45        55        65      


Chain E from PDB  Type:PROTEIN  Length:70
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:70
                                    12        22        32        42        52        62        72
             HFQ_PSEAE    3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLPS 72
               SCOP domains d3m4ge_ E: Pleiotropic translational regulator Hfq                     SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                  3m4g E  3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLPS 72
                                    12        22        32        42        52        62        72


Chain F from PDB  Type:PROTEIN  Length:71
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:71
                                    11        21        31        41        51        61        71 
             HFQ_PSEAE    2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLPS 72
               SCOP domains d3m4gf_ F: Pleiotropic translational regulator Hfq                      SCOP domains
               CATH domains ----------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------- Transcript
                  3m4g F  2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLPS 72
                                    11        21        31        41        51        61        71 


Chain G from PDB  Type:PROTEIN  Length:66
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:66
                                    14        24        34        44        54        64      
             HFQ_PSEAE    5 HSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRL 70
               SCOP domains d3m4gg_ G: Pleiotropic translational regulator Hfq                 SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee...eeeee...eeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  3m4g G  5 HSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRL 70
                                    14        24        34        44        54        64      


Chain H from PDB  Type:PROTEIN  Length:69
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:69
                                    12        22        32        42        52        62         
             HFQ_PSEAE    3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gh_ H: Pleiotropic translational regulator Hfq                    SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                  3m4g H  3 KGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    12        22        32        42        52        62         


Chain I from PDB  Type:PROTEIN  Length:71
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:71
                                    11        21        31        41        51        61        71 
             HFQ_PSEAE    2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLPS 72
               SCOP domains d3m4gi_ I: Pleiotropic translational regulator Hfq                      SCOP domains
               CATH domains ----------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------- Transcript
                  3m4g I  2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLPS 72
                                    11        21        31        41        51        61        71 


Chain J from PDB  Type:PROTEIN  Length:68
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:68
                                    13        23        33        43        53        63        
             HFQ_PSEAE    4 GHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gj_ J: Pleiotropic translational regulator Hfq                   SCOP domains
               CATH domains -------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh...eeeee....eeeeeeeee...eeeee...eeeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                  3m4g J  4 GHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    13        23        33        43        53        63        


Chain K from PDB  Type:PROTEIN  Length:68
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:68
                                    13        23        33        43        53        63        
             HFQ_PSEAE    4 GHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gk_ K: Pleiotropic translational regulator Hfq                   SCOP domains
               CATH domains -------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee....eeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                  3m4g K  4 GHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    13        23        33        43        53        63        


Chain L from PDB  Type:PROTEIN  Length:70
 aligned with HFQ_PSEAE | Q9HUM0 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:70
                                    11        21        31        41        51        61        71
             HFQ_PSEAE    2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKHAISTVVPSRPVRLP 71
               SCOP domains d3m4gl_ L: Pleiotropic translational regulator Hfq                     SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------LSM-3m4gL01 L:10-64                                    ------- Pfam domains (1)
           Pfam domains (2) --------LSM-3m4gL02 L:10-64                                    ------- Pfam domains (2)
           Pfam domains (3) --------LSM-3m4gL03 L:10-64                                    ------- Pfam domains (3)
           Pfam domains (4) --------LSM-3m4gL04 L:10-64                                    ------- Pfam domains (4)
           Pfam domains (5) --------LSM-3m4gL05 L:10-64                                    ------- Pfam domains (5)
           Pfam domains (6) --------LSM-3m4gL06 L:10-64                                    ------- Pfam domains (6)
           Pfam domains (7) --------LSM-3m4gL07 L:10-64                                    ------- Pfam domains (7)
           Pfam domains (8) --------LSM-3m4gL08 L:10-64                                    ------- Pfam domains (8)
           Pfam domains (9) --------LSM-3m4gL09 L:10-64                                    ------- Pfam domains (9)
          Pfam domains (10) --------LSM-3m4gL10 L:10-64                                    ------- Pfam domains (10)
          Pfam domains (11) --------LSM-3m4gL11 L:10-64                                    ------- Pfam domains (11)
          Pfam domains (12) --------LSM-3m4gL12 L:10-64                                    ------- Pfam domains (12)
         Sec.struct. author .....hhhhhhhhhhhh..eeeeee....eeeeeeeee...eeeee...eeeee...eeeeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                  3m4g L  2 SKGHSLQDPYLNTLRKERVPVSIYLVNGIKLQGQIESFDQFVILLKNTVSQMVYKAAISTVVPSRPVRLP 71
                                    11        21        31        41        51        61        71
   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, 12)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3M4G)

(-) Pfam Domains  (1, 12)

Asymmetric Unit
(-)
Clan: Sm-like (17)
(-)
Family: LSM (13)
(-)
Pseudomonas aeruginosa (2)
1aLSM-3m4gL01L:10-64
1bLSM-3m4gL02L:10-64
1cLSM-3m4gL03L:10-64
1dLSM-3m4gL04L:10-64
1eLSM-3m4gL05L:10-64
1fLSM-3m4gL06L:10-64
1gLSM-3m4gL07L:10-64
1hLSM-3m4gL08L:10-64
1iLSM-3m4gL09L:10-64
1jLSM-3m4gL10L:10-64
1kLSM-3m4gL11L:10-64
1lLSM-3m4gL12L:10-64

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H,I,J,K,L   (HFQ_PSEAE | Q9HUM0)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.

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  3m4g
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 Related Entries

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

UniProtKB/Swiss-Prot
        HFQ_PSEAE | Q9HUM0: 1u1s 1u1t 3inz 3qui 4j5y 4j6w 4j6x 4j6y 4mmk 4mml

(-) Related Entries Specified in the PDB File

1u1s WILD-TYPE PROTEIN
1u1t WILD-TYPE PROTEIN
3inz H57T MUTANT OF THE WILD-TYPE PROTEIN