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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LAMBDA REPRESSOR C-TERMINAL DOMAIN OCTAMER
 
Authors :  C. E. Bell, M. Lewis
Date :  07 Nov 01  (Deposition) - 21 Dec 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.91
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D,E,F,G,H  (1x)
Biol. Unit 2:  A,B,C,D,E,F,G,H  (2x)
Keywords :  Gene Regulation, Dna-Binding, Lambda Repressor, Protein Oligomerization, Dna-Looping (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. E. Bell, M. Lewis
Crystal Structure Of The Lambda Repressor C-Terminal Domain Octamer.
J. Mol. Biol. V. 314 1127 2001
PubMed-ID: 11743728  |  Reference-DOI: 10.1006/JMBI.2000.5196
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - REPRESSOR PROTEIN CI
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET-14B
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN (RESIDUES 132-236)
    Organism Scientific: ENTEROBACTERIA PHAGE LAMBDA
    Organism Taxid: 10710

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCDEFGH
Biological Unit 2 (2x): ABCDEFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1KCA)

(-) Sites  (0, 0)

(no "Site" information available for 1KCA)

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:215 -A:219
2B:215 -B:219
3C:215 -C:219
4D:215 -D:219
5E:215 -E:219
6F:215 -F:219
7G:215 -G:219
8H:215 -H:219

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Lys A:157 -Pro A:158
2Lys B:157 -Pro B:158
3Lys C:157 -Pro C:158
4Lys D:157 -Pro D:158
5Lys E:157 -Pro E:158
6Lys F:157 -Pro F:158
7Lys G:157 -Pro G:158
8Lys H:157 -Pro H:158

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KCA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1KCA)

(-) Exons   (0, 0)

(no "Exon" information available for 1KCA)

(-) 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:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcaa_ A: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaA00 A:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeee.....eeeeeeeee..eeeee........ee.....eeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca A 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain B from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcab_ B: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaB00 B:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeee.......eeeeee....eeee........ee.....eeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca B 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain C from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcac_ C: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaC00 C:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeeee...eeeeeeeeee..eeeee........ee....eeeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca C 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain D from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcad_ D: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaD00 D:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeee.....eeeeeeeee..eeeee........ee.....eeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca D 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain E from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcae_ E: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaE00 E:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeee.....eeeeeeee....eeee........ee.....eeeeeeeeee.hhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca E 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain F from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcaf_ F: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaF00 F:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeeee......eeeeee....eeee........ee....eeeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca F 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain G from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcag_ G: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaG00 G:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....................eeeee.........eeeeee....eeeeeeeee..eeeee........ee....eeeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca G 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235 


Chain H from PDB  Type:PROTEIN  Length:101
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:101
                                   146       156       166       176       186       196       206       216       226       236 
           RPC1_LAMBD   137 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 237
               SCOP domains d1kcah_ H: lambda repressor C-terminal domain                                                         SCOP domains
               CATH domains 1kcaH00 H:136-236 Umud Fragment, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee..hhhhh.............eeeee.........eeeee.....eeeeeeeee..eeeee........ee.....eeeeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1kca H 136 ASDSAFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIARLGGDEFTFKKLIRDSGQVFLQPLNPQYPMIPCNESCSVVGKVIASQWPEETFG 236
                                   145       155       165       175       185       195       205       215       225       235
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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, 8)

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

(-) CATH Domains  (1, 8)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1KCA)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H   (RPC1_LAMBD | P03034)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    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:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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  Cis Peptide Bonds
    Lys A:157 - Pro A:158   [ RasMol ]  
    Lys B:157 - Pro B:158   [ RasMol ]  
    Lys C:157 - Pro C:158   [ RasMol ]  
    Lys D:157 - Pro D:158   [ RasMol ]  
    Lys E:157 - Pro E:158   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        RPC1_LAMBD | P03034: 1f39 1gfx 1j5g 1lli 1lmb 1lrp 1lwq 1rio 3bdn 3kz3 3woa

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1KCA)