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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE PROTEIN LIN2111 (FUNCTIONALLY UNKNOWN) FROM LISTERIA INNOCUA CLIP11262
 
Authors :  K. Tan, M. Gu, L. Jaurequi, A. Joachimiak, Midwest Center For Struct Genomics (Mcsg)
Date :  03 Sep 08  (Deposition) - 16 Sep 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Apc88337, Lin2111, Listeria Innocua Clip11262, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Dna-Binding, Transcription, Transcription Regulation, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, M. Gu, L. Jaurequi, A. Joachimiak
The Crystal Structure Of The Protein Lin2111 (Functionally Unknown) From Listeria Innocua Clip11262
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - LIN2111 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21
    Expression System Vector Type: PLASMID
    Gene: LIN2111
    Organism Scientific: LISTERIA INNOCUA
    Organism Taxid: 1642
    Strain: CLIP11262

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 19)

Asymmetric/Biological Unit (2, 19)
No.NameCountTypeFull Name
1GOL7Ligand/IonGLYCEROL
2MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:104 , TYR A:110BINDING SITE FOR RESIDUE GOL A 234
2AC2SOFTWAREASP A:100BINDING SITE FOR RESIDUE GOL A 235
3AC3SOFTWARETHR A:45BINDING SITE FOR RESIDUE GOL A 236
4AC4SOFTWARETYR B:102 , HOH B:283BINDING SITE FOR RESIDUE GOL B 234
5AC5SOFTWAREARG B:104 , TYR B:110BINDING SITE FOR RESIDUE GOL B 235
6AC6SOFTWARESER B:43 , THR B:45 , THR B:46 , ARG B:49 , HOH B:260BINDING SITE FOR RESIDUE GOL B 236
7AC7SOFTWAREGLY B:145 , LYS B:168BINDING SITE FOR RESIDUE GOL B 237

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EDP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3EDP)

(-) 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:223
 aligned with Q92A11_LISIN | Q92A11 from UniProtKB/TrEMBL  Length:233

    Alignment length:230
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233
         Q92A11_LISIN     4 KKPLFEVIASKIKDSINRDEYKTGMLMPNETALQEIYSSSRTTIRRAVDLLVEEGLVVRKNGVGLYVQPKLTAQNILEMTGVMKNDTNENLKKDIKDFYIRKAGKFYAEIFGMKENELVYSIKFVQKSEHGATLDRLILPLGLYPDLQAKDFQIINIIELVNSGKYKLFELEQELQLILAGNEQIKNMHLNENDPVFKLSSVFYAENDMPIAIQYHYEDAESTKYVVDFN 233
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3edpA01 A:4-81 'winged h  elix' repressor DNA binding domain                  -3edpA     02 A:83-233 Chorismate lyase                                                                                                                  CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh......--..hhhhhhhhh..hhhhhhhhhhhhhhh..eeee...eeee....hhhhhhhhhh...-----...eeeeeeeeeehhhhhhhhhh.....eeeeeeeeeee..eeeeeeeeee.hhh...hhhhh...hhhhhhh.......eeeeeeeeee.hhhhhhhhh.....eeeeeeeeeee...eeeeeeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3edp A   4 KKPLFEVIASKIKDSINRDEYKTG--mPNETALQEIYSSSRTTIRRAVDLLVEEGLVVRKNGVGLYVQPKLTAQNILEmTGVmK-----NLKKDIKDFYIRKAGKFYAEIFGmKENELVYSIKFVQKSEHGATLDRLILPLGLYPDLQAKDFQIINIIELVNSGKYKLFELEQELQLILAGNEQIKNmHLNENDPVFKLSSVFYAENDmPIAIQYHYEDAESTKYVVDFN 233
                                    13        23   |  | 33        43        53        63        73        83  ||    93       103       113  |    123       133       143       153       163       173       183       193       203       213       223       233
                                                  27  |                                                  82-MSE|    93                    116-MSE                                                                    191-MSE              212-MSE                 
                                                     30-MSE                                                  86-MSE                                                                                                                                               
                                                                                                              87                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:220
 aligned with Q92A11_LISIN | Q92A11 from UniProtKB/TrEMBL  Length:233

    Alignment length:229
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224         
         Q92A11_LISIN     5 KPLFEVIASKIKDSINRDEYKTGMLMPNETALQEIYSSSRTTIRRAVDLLVEEGLVVRKNGVGLYVQPKLTAQNILEMTGVMKNDTNENLKKDIKDFYIRKAGKFYAEIFGMKENELVYSIKFVQKSEHGATLDRLILPLGLYPDLQAKDFQIINIIELVNSGKYKLFELEQELQLILAGNEQIKNMHLNENDPVFKLSSVFYAENDMPIAIQYHYEDAESTKYVVDFN 233
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3edpB01 B:5-81 'winged   helix' repressor DNA binding domain                 -3edp       B02 B:83-233 Chorismate lyase                                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh......--..hhhhhhhhh..hhhhhhhhhhhhhhh..eeee...eeee....hhhhhhhhhh..-------..eeeeeeeeeehhhhhhhhhh.....eeeeeeeeeee..eeeeeeeeee.hhh...hhhhh...hhhhhhh.......eeeeeeeeee.hhhhhhhhh.....eeeeeeeeeee...eeeeeeeeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3edp B   5 KPLFEVIASKIKDSINRDEYKTG--mPNETALQEIYSSSRTTIRRAVDLLVEEGLVVRKNGVGLYVQPKLTAQNILEmTGVm-------LKKDIKDFYIRKAGKFYAEIFGmKENELVYSIKFVQKSEHGATLDRLILPLGLYPDLQAKDFQIINIIELVNSGKYKLFELEQELQLILAGNEQIKNmHLNENDPVFKLSSVFYAENDmPIAIQYHYEDAESTKYVVDFN 233
                                    14        24  |  |  34        44        54        64        74       |84 |      94       104       114 |     124       134       144       154       164       174       184      |194       204       214       224         
                                                 27  |                                                  82-MSE      94                   116-MSE                                                                    191-MSE              212-MSE                 
                                                    30-MSE                                                  86-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 3EDP)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EDP)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q92A11_LISIN | Q92A11)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
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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