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(-) Description

Title :  HYDE FROM T. MARITIMA IN COMPLEX WITH (2R,4R)-MESETDA, 5'-DEOXYADENOSINE AND METHIONINE
 
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 :  1.35
Chains :  Asym./Biol. Unit :  A
Keywords :  Radical Sam Enzyme, Complex, Fefe-Hydrogenase Maturase, Thiazolidine, 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: 2336

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 10)

Asymmetric/Biological Unit (6, 10)
No.NameCountTypeFull Name
15AD1Ligand/Ion5'-DEOXYADENOSINE
29SE1Ligand/Ion(2~{R},4~{R})-2-METHYL-1,3-SELENAZOLIDINE-2,4-DICARBOXYLIC ACID
3CL1Ligand/IonCHLORIDE ION
4CPS5Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
5MET1Mod. Amino AcidMETHIONINE
6SFS1Ligand/IonFE4-SE4 CLUSTER

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:63 , CYS A:67 , CYS A:70 , MET A:409binding site for residue SFS A 401
02AC2SOFTWAREGLN A:98 , PHE A:99 , GLY A:100 , GLY A:277 , GLU A:280 , ARG A:284 , MET A:324 , LEU A:330 , CPS A:405 , CPS A:406 , HOH A:581 , HOH A:642 , HOH A:686 , HOH A:694 , HOH A:776 , HOH A:779 , HOH A:967binding 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:575 , HOH A:609 , HOH A:628 , HOH A:666 , HOH A:753 , HOH A:915binding site for residue CPS A 403
04AC4SOFTWAREARG A:29 , GLU A:33 , PHE A:246 , THR A:247 , LEU A:250 , CPS A:405 , HOH A:516 , HOH A:676 , HOH A:718 , HOH A:993binding 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:525 , HOH A:643 , HOH A:645 , HOH A:677 , HOH A:737binding site for residue CPS A 405
06AC6SOFTWARELYS A:128 , PRO A:321 , MET A:324 , LYS A:325 , GLU A:328 , TRP A:338 , CPS A:402 , CPS A:405 , HOH A:649 , HOH A:665 , HOH A:670 , HOH A:723 , HOH A:775 , HOH A:820 , HOH A:914 , HOH A:968 , HOH A:986 , HOH A:997binding site for residue CPS A 406
07AC7SOFTWAREARG A:54 , THR A:134 , ARG A:155 , HOH A:938binding site for residue CL A 407
08AC8SOFTWARETYR A:69 , ARG A:159 , GLU A:161 , MET A:199 , PRO A:229 , ILE A:231 , LEU A:305 , TYR A:306 , MET A:409 , 9SE A:410 , HOH A:633 , HOH A:689binding site for residue 5AD A 408
09AC9SOFTWARESER A:108 , SER A:136 , GLY A:138 , ARG A:180 , TYR A:303 , SFS A:401 , 5AD A:408 , HOH A:569 , HOH A:630 , HOH A:633binding site for residue MET A 409
10AD1SOFTWAREILE A:56 , ARG A:159 , THR A:268 , THR A:269 , ALA A:270 , MET A:291 , TYR A:306 , 5AD A:408 , HOH A:526 , HOH A:647 , HOH A:650 , HOH A:685 , HOH A:749binding site for residue 9SE A 410

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 3)

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 5FEZ)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FEZ)

(-) 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....hhhhhhhhhhhh..eee......hhhhhhhhh...hhhhhhhhhhhhhhh..eeeeeeee.....hhhhhhhhhhhhhhhh..eeeeee...............hhhhhhhhhhhhhhhh.......hhhhhhhh.hhhhhhhh....ee........hhhhh..............hhhhhhhhhhhhh..ee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fez A   2 TGREILEKLERREFTREVLKEALSINDRGFNEALFKLADEIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYYMPDVISDIVKEIKKMGVAVTLSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNCLLTLKELGYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVALTRILLPDSNIPATTAMGTIVPGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKISVFEKDTASIPSVMKMIELLGRKPGRDWGGRKRVFETM 409
                                    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     ||
                                                                                                                                                                                                                                                                                                                                                                                   347|
                                                                                                                                                                                                                                                                                                                                                                                    409
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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 5FEZ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        HYDE_THEMA | Q9X0Z6: 3ciw 3cix 3iix 3iiz 4jxc 4jy8 4jy9 4jyd 4jye 4jyf 5fep 5fes 5few 5fex 5ff0 5ff2 5ff3 5ff4

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5FEZ)