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(-) Description

Title :  STRUCTURE OF THE NATIVE AND INACTIVE LICT PRD FROM B. SUBTILIS
 
Authors :  M. Graille, C. -Z. Zhou, V. Receveur-Brechot, B. Collinet, N. Declerck Tilbeurgh
Date :  10 Jun 04  (Deposition) - 08 Feb 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Transcriptional Antitermination, Conformational Change, Lict, Histidine Phosphorylation, Activation Mechanism, Hpr, Dimer Structure, Phosphoenolpyruvate (Pep): Sugar Phosphotransferase System (Pts), Pts Regulation Domains (Prd), Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Graille, C. -Z. Zhou, V. Receveur-Brechot, B. Collinet, N. Declerck, H. Van Tilbeurgh
Activation Of The Lict Transcriptional Antiterminator Involves A Domain Swing/Lock Mechanism Provoking Massive Structural Changes
J. Biol. Chem. V. 280 14780 2005
PubMed-ID: 15699035  |  Reference-DOI: 10.1074/JBC.M414642200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSCRIPTION ANTITERMINATOR LICT
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: PTS-REGULATORY DOMAIN (RESIDUES 57-274)
    Gene: LICT, N15A, BSU39080
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1CME1Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE

(-) Sites  (0, 0)

(no "Site" information available for 1TLV)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1TLV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1TLV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 3)

Asymmetric Unit (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PRD_2PS51372 PRD domain profile.LICT_BACSU65-170
171-277		  2A:65-170
A:171-274
2PRD_1PS00654 PRD domain signature.LICT_BACSU98-110  1A:98-110
Biological Unit 1 (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PRD_2PS51372 PRD domain profile.LICT_BACSU65-170
171-277		  4A:65-170
A:171-274
2PRD_1PS00654 PRD domain signature.LICT_BACSU98-110  2A:98-110

(-) Exons   (0, 0)

(no "Exon" information available for 1TLV)

(-) 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:205
 aligned with LICT_BACSU | P39805 from UniProtKB/Swiss-Prot  Length:277

    Alignment length:221
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273 
           LICT_BACSU    54 DVSEKFKTLLYDIPIECMEVSEEIISYAKLQLGKKLNDSIYVSLTDHINFAIQRNQKGLDIKNALLWETKRLYKDEFAIGKEALVMVKNKTGVSLPEDEAGFIALHIVNAELNEEMPNIINITKVMQEILSIVKYHFKIEFNEESLHYYRFVTHLKFFAQRLFNGTHMESQDDFLLDTVKEKYHRAYECTKKIQTYIEREYEHKLTSDELLYLTIHIERVV 274
               SCOP domains d1tlva1 A:54-168 Transcriptional antiterminator LicT                                                               d1tlva2 A:169-274 Transcrip  tional antiterminator Li              cT                                      SCOP domains
               CATH domains --------------1tlvA01 A:68-167 PTS-regulatory domain, PRD                                                         1tlvA02 A:168-274 PTS-regula  tory domain, PRD                                                              CATH domains
           Pfam domains (1) ---CAT------------------------------------------------------------------------------------------------------------------------PRD-1tlvA01 A:18  0-273                                                                       - Pfam domains (1)
           Pfam domains (2) ------------------------------------------------------------------------------------------------------------------------------PRD-1tlvA02 A:18  0-273                                                                       - Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....--.hhhhhhhhhhhhhhhhhhhh...--------------.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----------PRD_2  PDB: A:65-170 UniProt: 65-170                                                                      PRD_2  PDB: A:171-274 UniProt: 171-277                                                                   PROSITE (1)
                PROSITE (2) --------------------------------------------PRD_1        -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tlv A  54 GAMEKFKTLLYDIPIEcMEVSEEIISYAKLQLGKKLNDSIYVSLTDHINFAIQRNQKGLDIKNALLWETKRLYKDEFAIGKEALVMVKNKTGVSLPEDEAGFIALHIVNAELNEEMPNIINITKVMQEILSIVKYHFKIEFN--SLHYYRFVTHLKFFAQRLFNGTHM--------------YHRAYECTKKIQTYIEREYEHKLTSDELLYLTIHIERVV 274
                                    63      | 73        83        93       103       113       123       133       143       153       163       173       183       193 |  |  203       213       | -         -  |    243       253       263       273 
                                           70-CME                                                                                                                      195  |                    221            236                                      
                                                                                                                                                                          198
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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, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 3)

Asymmetric Unit
(-)
Clan: PRD (1)
(-)
Family: PRD (1)
(-)
Bacillus subtilis (1)
1aPRD-1tlvA01A:180-273
1bPRD-1tlvA02A:180-273
(-)
Clan: no clan defined [family: CAT_RBD] (2)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (LICT_BACSU | P39805)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        LICT_BACSU | P39805: 1h99 1l1c

(-) Related Entries Specified in the PDB File

1h99 PRD OF LICT ANTITERMINATOR FROM BACILLUS SUBTILIS