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(-) Description

Title :  X-RAY SNAPSHOTS OF POSSIBLE INTERMEDIATES IN THE TIME COURSE OF SYNTHESIS AND DEGRADATION OF PROTEIN-BOUND FE4S4 CLUSTERS
 
Authors :  Y. Nicolet, R. Rohac, L. Martin, J. C. Fontecilla-Camps
Date :  29 Mar 13  (Deposition) - 01 May 13  (Release) - 15 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Radical Sam Protein, Fefe-Hydrogenase Active Site Assembly, Fe4S4 Cluster, S-Adenosyl-L-Methionine, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Nicolet, R. Rohac, L. Martin, J. C. Fontecilla-Camps
X-Ray Snapshots Of Possible Intermediates In The Time Cours Of Synthesis And Degradation Of Protein-Bound Fe4S4 Clusters.
Proc. Natl. Acad. Sci. Usa V. 110 7188 2013
PubMed-ID: 23596207  |  Reference-DOI: 10.1073/PNAS.1302388110

(-) Compounds

Molecule 1 - FEFE-HYDROGENASE MATURASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Gene: THEMADRAFT_0043, TM1269, TM_1269
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099
    Synonym: RADICAL SAM DOMAIN PROTEIN

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric Unit (4, 9)
No.NameCountTypeFull Name
1CL5Ligand/IonCHLORIDE ION
2H2S1Ligand/IonHYDROSULFURIC ACID
3SF42Ligand/IonIRON/SULFUR CLUSTER
4SO41Ligand/IonSULFATE ION
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2H2S1Ligand/IonHYDROSULFURIC ACID
3SF42Ligand/IonIRON/SULFUR CLUSTER
4SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 8)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2H2S2Ligand/IonHYDROSULFURIC ACID
3SF44Ligand/IonIRON/SULFUR CLUSTER
4SO42Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:63 , CYS A:67 , TYR A:69 , CYS A:70 , LEU A:72 , GLY A:109 , ARG A:172 , H2S A:403 , CL A:404BINDING SITE FOR RESIDUE SF4 A 401
2AC2SOFTWAREARG A:279 , GLN A:304 , TYR A:306 , CYS A:311 , CYS A:319 , CYS A:322BINDING SITE FOR RESIDUE SF4 A 402
3AC3SOFTWARESF4 A:401 , CL A:404BINDING SITE FOR RESIDUE H2S A 403
4AC4SOFTWARESF4 A:401 , H2S A:403 , CL A:407BINDING SITE FOR RESIDUE CL A 404
5AC5SOFTWAREARG A:159 , THR A:269BINDING SITE FOR RESIDUE CL A 405
6AC6SOFTWAREGLU A:58 , GLN A:107BINDING SITE FOR RESIDUE CL A 406
7AC7SOFTWAREGLU A:58 , CL A:404BINDING SITE FOR RESIDUE CL A 407
8AC8SOFTWAREARG A:54 , THR A:134 , ARG A:155BINDING SITE FOR RESIDUE CL A 408
9AC9SOFTWAREVAL A:47 , ASN A:264 , GLY A:339 , GLY A:340 , ARG A:341 , LYS A:342BINDING SITE FOR RESIDUE SO4 A 409

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JY8)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Met A:115 -Pro A:116
2Ser A:297 -Pro A:298

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JY8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JY8)

(-) Exons   (0, 0)

(no "Exon" information available for 4JY8)

(-) 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:346
                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee........................hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhh...eee......hhhhhhhhh...hhhhhhhhhhhhhhh..eeee..ee.....hhhhhhhhhhhhhhhh..ee..ee...............hhhhhhhhhhhhhhhh.....eehhhhhhhh.hhhhhhhh....ee.............ee....ee......hhhhhhhhhhhhh..ee............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jy8 A   2 TGREILEKLERREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYYMPDVISDIVKEIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNCLLTLKELGYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKICVFEKDTACIPCVMKMIELLGRKPGRDWGGRKRVFET 347
                                    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       291       301       311       321       331       341
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4JY8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JY8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JY8)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        HYDE_THEMA | Q9X0Z6: 3ciw 3cix 3iix 3iiz 4jxc 4jy9 4jyd 4jye 4jyf 5fep 5fes 5few 5fex 5fez 5ff0 5ff2 5ff3 5ff4

(-) Related Entries Specified in the PDB File

3ciw INTERMEDIATE IN THE TIME COURSE OF FES CLUSTER DEGRADATION
3iix INTERMEDIATE IN THE TIME COURSE OF FES CLUSTER DEGRADATION
4jxc INTERMEDIATE IN THE TIME COURSE OF FES CLUSTER DEGRADATION
4jy9
4jyd
4jye
4jyf