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(-) Description

Title :  E. COLI SLIDING CLAMP IN COMPLEX WITH (R)-6-BROMO-9-(2-(CARBOXYMETHYLAMINO)-2-OXOETHYL)-2,3,4,9-TETRAHYDRO-1H-CARBAZOLE-2-CARBOXYLIC ACID
 
Authors :  Z. Yin, A. J. Oakley
Date :  21 Feb 14  (Deposition) - 05 Mar 14  (Release) - 24 Jun 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Poliii Beta, Sliding Clamp, Dnan, Transferase, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Yin, L. R. Whittell, Y. Wang, S. Jergic, C. Ma, P. J. Lewis, N. E. Dixon J. L. Beck, M. J. Kelso, A. J. Oakley
Bacterial Sliding Clamp Inhibitors That Mimic The Sequentia Binding Mechanism Of Endogenous Linear Motifs.
J. Med. Chem. V. 58 4693 2015
PubMed-ID: 25970224  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00232

(-) Compounds

Molecule 1 - DNA POLYMERASE III SUBUNIT BETA
    Chains: A, B
    EC Number: 2.7.7.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PND261
    Expression System Strain: AN1459
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BN896_3391, DNAN
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 1403831
    Strain: K-12 SUBSTR. MC4100

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric/Biological Unit (5, 9)
No.NameCountTypeFull Name
12VE1Ligand/Ion(2R)-6-BROMO-9-{2-[(CARBOXYMETHYL)AMINO]-2-OXOETHYL}-2,3,4,9-TETRAHYDRO-1H-CARBAZOLE-2-CARBOXYLIC ACID
2CA1Ligand/IonCALCIUM ION
3CL1Ligand/IonCHLORIDE ION
4PEG5Ligand/IonDI(HYDROXYETHYL)ETHER
5PG41Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:344 , SER A:345 , HOH A:536 , HOH A:620 , GLU B:163 , GLU B:166 , HOH B:632BINDING SITE FOR RESIDUE PEG A 401
2AC2SOFTWAREASP A:121 , TRP A:122 , ARG A:224BINDING SITE FOR RESIDUE PEG A 402
3AC3SOFTWAREGLU A:161 , GLU A:163 , ARG A:168 , ASP A:243 , TYR A:244 , ARG A:245 , HOH A:520BINDING SITE FOR RESIDUE PEG A 403
4AC4SOFTWAREARG A:56 , VAL A:57 , ALA A:58 , ASP A:229BINDING SITE FOR RESIDUE PEG A 404
5AC5SOFTWAREARG A:152 , TYR A:154 , THR A:172 , GLY A:174 , HIS A:175 , ARG A:176 , VAL A:247 , VAL A:360 , MET A:362 , LYS B:250 , ASN B:251BINDING SITE FOR RESIDUE 2VE A 405
6AC6SOFTWARESER A:181BINDING SITE FOR RESIDUE CL A 406
7AC7SOFTWAREGLU A:334BINDING SITE FOR RESIDUE CA A 407
8AC8SOFTWAREGLN A:265 , ARG B:7 , ARG B:80 , LEU B:82BINDING SITE FOR RESIDUE PEG B 401
9AC9SOFTWAREASP B:121 , TRP B:122 , GLN B:217 , ARG B:224 , HOH B:633BINDING SITE FOR RESIDUE PG4 B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OVH)

(-) Sequences/Alignments

Asymmetric/Biological 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:362
                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4ovha1 A:1-122 DNA polymerase III, beta subunit                                                                        d4ovha2 A:123-244 DNA polymerase III, beta subunit                                                                        d4ovha3 A:245-364 DNA polymerase III, beta subunit                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeehhhhhhhhhhhhh.....hhhh.eeeeeee..eeeeeee...eeeeeeee.......eeeeeehhhhhhhhhhh....eeeeeee..eeeeee..eeeeee..hhhhh.........eeeeehhhhhhhhhhhhhhhh.....hhhh.eeeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeeeeeehhhhhhhhhh.......eeeee...eeeeee..eeeeee.......hhhhhh.....eeeeeehhhhhhhhhhhhh.......eeeeeee..eeeeeee.....eeeeeee.ee....eeeeeehhhhhhhhhhhh..eeeeee......eeeee.....eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ovh A   1 MKFTVEREHLLKPLQQVSGPLGGRLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYVVMPM 364
                                    10        20   ||   32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362  
                                                  24|                                                                                                                                                                                                                                                                                                                                                 
                                                   27                                                                                                                                                                                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:366
                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4ovhb1 B:1-122 DNA polymerase III, beta subunit                                                                          d4ovhb2 B:123-244 DNA polymerase III, beta subunit                                                                        d4ovhb3 B:245-366 DNA polymerase III, beta subunit                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeehhhhhhhhhhhhh.......hhhh.eeeeeee..eeeeeee...eeeeeeee.......eeeeeehhhhhhhhhhh....eeeeeee..eeeeee..eeeeee..hhhhh.........eeeeeehhhhhhhhhhhhhhh.....hhhh.eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeeeehhhhhhhhhhh.....eeeeee...eeeeee..eeeeee.......hhhhh......eeeeeehhhhhhhhhhhhhh......eeeeeee..eeeeeee.....eeeeeee.......eeeeeehhhhhhhhhhhh..eeeeee......eeeee..eeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ovh B   1 MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYVVMPMRL 366
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360
   Legend:   → Mismatch (orange background)
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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, 6)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4OVH)

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(-) Related Entries Specified in the PDB File

4ovf 4ovg 4pnu 4pnv 4pnw