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(-) Description

Title :  HYDE FROM T. MARITIMA IN COMPLEX WITH (2R,4R)-TDA
 
Authors :  R. Rohac, P. Amara, A. Benjdia, L. Martin, P. Ruffie, A. Favier, O. Berte J. M. Mouesca, J. C. Fontecilla-Camps, Y. Nicolet
Date :  17 Dec 15  (Deposition) - 06 Apr 16  (Release) - 04 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.47
Chains :  Asym./Biol. Unit :  A
Keywords :  Radical Sam Enzyme, Complex, Fefe-Hydrogenase Maturase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Rohac, P. Amara, A. Benjdia, L. Martin, P. Ruffie, A. Favier, O. Berteau, J. M. Mouesca, J. C. Fontecilla-Camps, Y. Nicolet
Carbon-Sulfur Bond-Forming Reaction Catalysed By The Radica Sam Enzyme Hyde.
Nat. Chem. V. 8 491 2016
PubMed-ID: 27102684  |  Reference-DOI: 10.1038/NCHEM.2490

(-) Compounds

Molecule 1 - [FEFE] HYDROGENASE MATURASE SUBUNIT HYDE
    Chains: A
    EC Number: 1.8.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TM_1269, THEMA_07990, TMARI_1274
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 11)

Asymmetric/Biological Unit (6, 11)
No.NameCountTypeFull Name
15XB1Ligand/Ion(2~{R},4~{R})-1,3-THIAZOLIDINE-2,4-DICARBOXYLIC ACID
2CL1Ligand/IonCHLORIDE ION
3CPS5Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
4H2S2Ligand/IonHYDROSULFURIC ACID
5SAH1Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE
6SF41Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:63 , CYS A:67 , CYS A:70 , SAH A:408binding site for residue SF4 A 401
02AC2SOFTWAREGLN A:98 , PHE A:99 , GLY A:100 , PRO A:276 , GLY A:277 , GLU A:280 , ARG A:284 , MET A:324 , LEU A:330 , CPS A:405 , CPS A:406 , HOH A:540 , HOH A:543 , HOH A:561 , HOH A:571 , HOH A:599 , HOH A:657 , HOH A:662 , HOH A:776binding site for residue CPS A 402
03AC3SOFTWARELYS A:37 , ASP A:40 , LYS A:170 , ARG A:284 , SER A:297 , LYS A:315 , ASP A:316 , THR A:317 , HOH A:603 , HOH A:616 , HOH A:623 , HOH A:648 , HOH A:653 , HOH A:737 , HOH A:803 , HOH A:840 , HOH A:903binding site for residue CPS A 403
04AC4SOFTWAREARG A:29 , GLU A:33 , THR A:247 , CPS A:405 , HOH A:521 , HOH A:614 , HOH A:615 , HOH A:687binding site for residue CPS A 404
05AC5SOFTWAREARG A:29 , LYS A:315 , THR A:317 , ALA A:318 , CPS A:402 , CPS A:404 , CPS A:406 , HOH A:626 , HOH A:679 , HOH A:743 , HOH A:755 , HOH A:757binding site for residue CPS A 405
06AC6SOFTWARELYS A:128 , PRO A:321 , MET A:324 , GLU A:328 , CPS A:402 , CPS A:405 , HOH A:505 , HOH A:551 , HOH A:571 , HOH A:585 , HOH A:597 , HOH A:670 , HOH A:702 , HOH A:721 , HOH A:842binding site for residue CPS A 406
07AC7SOFTWAREARG A:54 , THR A:134 , ARG A:155binding site for residue CL A 407
08AC8SOFTWARETYR A:69 , SER A:108 , ARG A:159 , GLU A:161 , ARG A:180 , MET A:199 , PRO A:229 , ILE A:231 , TYR A:303 , LEU A:305 , TYR A:306 , SF4 A:401 , HOH A:589 , HOH A:608 , HOH A:629 , HOH A:633 , HOH A:739binding site for residue SAH A 408
09AC9SOFTWAREGLN A:107 , ARG A:159 , GLY A:226 , THR A:268 , THR A:269 , ALA A:270 , MET A:291 , TYR A:306 , HOH A:535 , HOH A:547 , HOH A:607 , HOH A:768 , HOH A:800binding site for residue 5XB A 409
10AD1SOFTWARECYS A:311 , CYS A:319binding site for residue H2S A 410
11AD2SOFTWARECYS A:322 , HOH A:915binding site for residue H2S A 411

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FF2)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological 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 5FF2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FF2)

(-) Exons   (0, 0)

(no "Exon" information available for 5FF2)

(-) 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:347
                                                                                                                                                                                                                                                                                                                                                                                           
               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..eeeeeeee.....hhhhhhhhhhhhhhhh..eeeeee...............hhhhhhhhhhhhhhhh.......hhhhhhhh.hhhhhhhh....ee........hhhhh..............hhhhhhhhhhhhh..ee............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ff2 A   1 MTGREILEKLERREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYYMPDVISDIVKEIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNCLLTLKELGYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKICVFEKDTACIPCVMKMIELLGRKPGRDWGGRKRVFET 347
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 5FF2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FF2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FF2)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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  5ff2
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  1.8.-.-
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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 4jy8 4jy9 4jyd 4jye 4jyf 5fep 5fes 5few 5fex 5fez 5ff0 5ff3 5ff4

(-) Related Entries Specified in the PDB File

3iix 3iiz 5fep 5fes 5few 5fex 5fez 5ff0