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(-) Description

Title :  CRYSTAL STRUCTURE OF HETEROCYST DIFFERENTIATION PROTEIN, HETR FROM FISCHERELLA MV11
 
Authors :  Y. Kim, G. Joachimiak, P. Gornicki, A. Joachimiak, Midwest Center Fo Structural Genomics (Mcsg)
Date :  09 Feb 11  (Deposition) - 20 Apr 11  (Release) - 06 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.38
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Helix-Turn-Helix, Transcription Factor, Cytosol, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, G. Joachimiak, Z. Ye, T. A. Binkowski, R. Zhang, P. Gornicki, S. M. Callahan, W. R. Hess, R. Haselkorn, A. Joachimiak
Structure Of Transcription Factor Hetr Required For Heterocyst Differentiation In Cyanobacteria.
Proc. Natl. Acad. Sci. Usa V. 108 10109 2011
PubMed-ID: 21628585  |  Reference-DOI: 10.1073/PNAS.1106840108

(-) Compounds

Molecule 1 - HETEROCYST DIFFERENTIATION PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: HETR
    Organism Scientific: FISCHERELLA THERMALIS
    Organism Taxid: 98439
    Strain: PCC 7521

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 30)

Asymmetric/Biological Unit (1, 30)
No.NameCountTypeFull Name
1MSE30Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3QOD)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Arg B:215 -Pro B:216

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QOD)

(-) 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:294
 aligned with Q2ACK9_9CYAN | Q2ACK9 from UniProtKB/TrEMBL  Length:247

    Alignment length:294
                                                       1                                                                                                                                                                                                                                                   247                    
                                     -         -       | 3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243   |     -         -    
         Q2ACK9_9CYAN     - ---------------------------RTSGHRHGAFLDAAATAAKCAIYMTYLEQGQNLRMTGHLHHLEPKRVKAIVEEVRQALTEGKLLKMLGSQEPRYLIQFPYVWMEKYPWRPGRSRIPGTSLTSEEKRQIEQKLPSNLPDAHLITSFEFLELIEFLHKRSQEDLPKEHQMPLSEALAEHIKRRLLYSGTVTRIDSPWGMPFYALTRPFYAPADDQERTYIMVEDTARFFRMMRDWAEKRPNTMRVLEELDILPEKMQQAKDELDEIIRA--------------------   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhh..............hhhhhhhhhh...........eehhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhh..eeeeee..eeeeeee...........hhhhhhhhhhhhhhhhhhhhh......eeeeeee......hhhhhhhhhhhhhhhhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qod A   2 SNDVDLIKRLGPSAmDQImLYLAFSAmRTSGHRHGAFLDAAATAAKCAIYmTYLEQGQNLRmTGHLHHLEPKRVKAIVEEVRQALTEGKLLKmLGSQEPRYLIQFPYVWmEKYPWRPGRSRIPGTSLTSEEKRQIEQKLPSNLPDAHLITSFEFLELIEFLHKRSQEDLPKEHQmPLSEALAEHIKRRLLYSGTVTRIDSPWGmPFYALTRPFYAPADDQERTYImVEDTARFFRmmRDWAEKRPNTmRVLEELDILPEKmQQAKDELDEIIRAWADKYHQDVPVVLQmVFGKK 297
                                    11    |   21      | 31        41        51|       61 |      71        81        91  |    101       111       121       131       141       151       161       171    |  181       191       201   |   211       221     | 231     ||241       251       261|      271       281 ||    293    
                                         16-MSE      28-MSE                  52-MSE     63-MSE                         94-MSE          111-MSE                                                          176-MSE                      205-MSE               227-MSE   237-MSE     249-MSE      262-MSE              283|     |     
                                             20-MSE                                                                                                                                                                                                                   238-MSE                                       286     |     
                                                                                                                                                                                                                                                                                                                          292-MSE 


Chain B from PDB  Type:PROTEIN  Length:289
 aligned with Q2ACK9_9CYAN | Q2ACK9 from UniProtKB/TrEMBL  Length:247

    Alignment length:294
                                                       1                                                                                                                                                                                                                                                   247                    
                                     -         -       | 3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243   |     -         -    
         Q2ACK9_9CYAN     - ---------------------------RTSGHRHGAFLDAAATAAKCAIYMTYLEQGQNLRMTGHLHHLEPKRVKAIVEEVRQALTEGKLLKMLGSQEPRYLIQFPYVWMEKYPWRPGRSRIPGTSLTSEEKRQIEQKLPSNLPDAHLITSFEFLELIEFLHKRSQEDLPKEHQMPLSEALAEHIKRRLLYSGTVTRIDSPWGMPFYALTRPFYAPADDQERTYIMVEDTARFFRMMRDWAEKRPNTMRVLEELDILPEKMQQAKDELDEIIRA--------------------   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ----------------------------------------------------Peptidase_S48-3qodB01 B:57-205                                                                                                                       --------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------Peptidase_S48-3qodB02 B:57-205                                                                                                                       --------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh..hhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhh..............hhhhhhhhhh............hhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.eeee.......eeee...-----.....hhhhhhhhhhhhhhhhhhh......ee..eeee.hhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qod B   5 SNDVDLIKRLGPSAmDQImLYLAFSAmRTSGHRHGAFLDAAATAAKCAIYmTYLEQGQNLRmTGHLHHLEPKRVKAIVEEVRQALTEGKLLKmLGSQEPRYLIQFPYVWmEKYPWRPGRSRIPGTSLTSEEKRQIEQKLPSNLPDAHLITSFEFLELIEFLHKRSQEDLPKEHQmPLSEALAEHIKRRLLYSGTVTRIDSPWGmPFYALTRP-----DDQERTYImVEDTARFFRmmRDWAEKRPNTmRVLEELDILPEKmQQAKDELDEIIRAWADKYHQDPVVLQmVFGKKE 301
                                    14    |   24      | 34        44        54|       64 |      74        84        94  |    104       114       124       134       144       154       164       174    |  184       194       204   |   214 |     224     | 234     ||244       254       264|      274       284 ||    297    
                                         19-MSE      31-MSE                  55-MSE     66-MSE                         97-MSE          114-MSE                                                          179-MSE                      208-MSE 216   222     230-MSE   240-MSE     252-MSE      265-MSE              286|    |      
                                             23-MSE                                                                                                                                                                                                                   241-MSE                                       290    |      
                                                                                                                                                                                                                                                                                                                         295-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (0, 0)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QOD)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Peptidase_S48] (2)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q2ACK9_9CYAN | Q2ACK9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0043158    heterocyst differentiation    The process in which a relatively unspecialized cell acquires specialized features of a heterocyst, a differentiated cell in certain cyanobacteria whose purpose is to fix nitrogen.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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  Cis Peptide Bonds
    Arg B:215 - Pro B:216   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        Q2ACK9_9CYAN | Q2ACK9: 3qoe 4izz 4j00 4j01

(-) Related Entries Specified in the PDB File

3qoe THE SAME PROTEIN BUT CRYSTALLIZED UNDER DIFFERENT CONDITION