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(-) Description

Title :  CRYSTAL STRUCTURE OF FITACB FROM NEISSERIA GONORRHOEAE
 
Authors :  K. Mattison, J. S. Wilbur, M. So, R. G. Brennan
Date :  16 May 06  (Deposition) - 26 Sep 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Dna Binding, Pin Domain, Rhh Domain, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Mattison, J. S. Wilbur, M. So, R. G. Brennan
Structure Of Fitab From Neisseria Gonorrhoeae Bound To Dna Reveals A Tetramer Of Toxin-Antitoxin Heterodimers Containing Pin Domains And Ribbon-Helix-Helix Motifs.
J. Biol. Chem. V. 281 37942 2006
PubMed-ID: 16982615  |  Reference-DOI: 10.1074/JBC.M605198200

(-) Compounds

Molecule 1 - TRAFFICKING PROTEIN B
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PET
    Gene: FITB
    Organism Scientific: NEISSERIA GONORRHOEAE
    Organism Taxid: 485
 
Molecule 2 - TRAFFICKING PROTEIN A
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: FITA
    Organism Scientific: NEISSERIA GONORRHOEAE
    Organism Taxid: 485

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MG3Ligand/IonMAGNESIUM ION
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2MG-1Ligand/IonMAGNESIUM ION
3SO44Ligand/IonSULFATE ION
Biological Unit 2 (2, 6)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2MG-1Ligand/IonMAGNESIUM ION
3SO44Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:50 , LEU A:51 , ASN A:52 , HOH A:252BINDING SITE FOR RESIDUE ACT A 140
2AC2SOFTWAREARG A:14 , ARG A:121 , HOH A:255 , HOH A:277BINDING SITE FOR RESIDUE SO4 A 201
3AC3SOFTWAREARG A:20 , TYR A:34 , HIS A:138 , LEU A:139 , HOH A:275BINDING SITE FOR RESIDUE SO4 A 202
4AC4SOFTWARELEU A:3 , LEU A:4 , SER A:36 , THR A:39BINDING SITE FOR RESIDUE MG A 203
5AC5SOFTWAREARG A:44 , HOH A:210 , HOH A:232 , HOH A:251BINDING SITE FOR RESIDUE MG A 204
6AC6SOFTWARESER A:36 , LEU A:76 , PRO A:77 , PHE A:78 , THR A:110BINDING SITE FOR RESIDUE MG A 205

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2H1C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2H1C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2H1C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2H1C)

(-) Exons   (0, 0)

(no "Exon" information available for 2H1C)

(-) 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:139
 aligned with FITB_NEIG1 | Q5F882 from UniProtKB/Swiss-Prot  Length:139

    Alignment length:139
                                    10        20        30        40        50        60        70        80        90       100       110       120       130         
           FITB_NEIG1     1 MILLDTNVISEPLRPQPNERVVAWLDSLILEDVYLSAITVAELRLGVALLLNGKKKNVLHERLEQSILPLFAGRILPFDEPVAAIYAQIRSYAKTHGKEIAAADGYIAATAKQHSLTVATRDTGSFFAADVAVFNPWHD 139
               SCOP domains d2h1ca1 A:1-138 Trafficking protein B                                                                                                     - SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhhh...hhhhhhhhhhhhhh.eeeehhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..ee..hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh.eee...hhhhhhh...ee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2h1c A   1 MILLDTNVISEPLRPQPNERVVAWLDSLILEDVYLSAITVAELRLGVALLLNGKKKNVLHERLEQSILPLFAGRILPFDEPVAAIYAQIRSYAKTHGKEIAAADGYIAATAKQHSLTVATRDTGSFFAADVAVFNPWHL 139
                                    10        20        30        40        50        60        70        80        90       100       110       120       130         


Chain B from PDB  Type:PROTEIN  Length:19
 aligned with FITA_NEIG1 | Q5F881 from UniProtKB/Swiss-Prot  Length:78

    Alignment length:19
                                    55         
           FITA_NEIG1    46 VRLGSMLASIGQEIGGVEL  64
               SCOP domains ------------------- SCOP domains
               CATH domains ------------------- CATH domains
               Pfam domains ------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------- SAPs(SNPs)
                    PROSITE ------------------- PROSITE
                 Transcript ------------------- Transcript
                 2h1c B  46 VRLGSMLASIGQEIGGVEL  64
                                    55
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2H1C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2H1C)

(-) Gene Ontology  (13, 16)

Asymmetric Unit(hide GO term definitions)
Chain A   (FITB_NEIG1 | Q5F882)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0004540    ribonuclease activity    Catalysis of the hydrolysis of phosphodiester bonds in chains of RNA.
biological process
    GO:0090501    RNA phosphodiester bond hydrolysis    The RNA metabolic process in which the phosphodiester bonds between ribonucleotides are cleaved by hydrolysis.
    GO:0044001    migration in host    The directional movement of an organism from one place to another within its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.

Chain B   (FITA_NEIG1 | Q5F881)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
biological process
    GO:0044001    migration in host    The directional movement of an organism from one place to another within its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        FITA_NEIG1 | Q5F881: 2bsq 2h1o
        FITB_NEIG1 | Q5F882: 2bsq 2h1o

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