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(-) Description

Title :  CRYSTAL STRUCTURE WLARD, A SUGAR 3N-FORMYL TRANSFERASE IN THE PRESENCE OF DTDP AND 5-N-FORMYL-THF
 
Authors :  J. B. Thoden, M. -F. Goneau, M. Gilbert, H. M. Holden
Date :  30 Jul 13  (Deposition) - 14 Aug 13  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Formyl Transferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. B. Thoden, M. F. Goneau, M. Gilbert, H. M. Holden
Structure Of A Sugar N-Formyltransferase From Campylobacter Jejuni.
Biochemistry V. 52 6114 2013
PubMed-ID: 23898784  |  Reference-DOI: 10.1021/BI4009006

(-) Compounds

Molecule 1 - WLARD, A SUGAR 3N-FORMYL TRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: ROSETTA2(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: C8J_1081
    Organism Scientific: CAMPYLOBACTER JEJUNI SUBSP. JEJUNI
    Organism Taxid: 407148
    Strain: 81116

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 26)

Asymmetric/Biological Unit (5, 26)
No.NameCountTypeFull Name
1CL7Ligand/IonCHLORIDE ION
2EDO11Ligand/Ion1,2-ETHANEDIOL
3FON2Ligand/IonN-{[4-({[(6R)-2-AMINO-5-FORMYL-4-OXO-1,4,5,6,7,8-HEXAHYDROPTERIDIN-6-YL]METHYL}AMINO)PHENYL]CARBONYL}-L-GLUTAMIC ACID
4MPO4Ligand/Ion3[N-MORPHOLINO]PROPANE SULFONIC ACID
5TYD2Ligand/IonTHYMIDINE-5'-DIPHOSPHATE

(-) Sites  (26, 26)

Asymmetric Unit (26, 26)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:75 , PHE A:78 , GLN A:80 , ILE A:81 , ILE A:82 , ASN A:94 , ILE A:127 , ASP A:128 , GLY A:130 , ASP A:132 , SER A:191 , ARG A:192 , HOH A:410 , HOH A:485 , HOH A:571 , HOH A:730 , HOH A:767 , HOH A:796 , EDO B:308BINDING SITE FOR RESIDUE FON A 301
02AC2SOFTWARELYS A:9 , VAL A:106 , PHE A:107 , THR A:108 , SER A:109 , TYR A:154 , ARG A:192 , LEU A:197 , PHE A:219 , TYR A:222 , GLN A:223 , HOH A:406 , HOH A:441 , HOH A:580 , HOH A:605 , HOH A:638 , HOH A:749 , HOH A:810 , HOH A:870BINDING SITE FOR RESIDUE TYD A 302
03AC3SOFTWAREPHE A:203 , ILE A:227 , ASN A:228 , PHE A:247 , HOH A:513 , HOH A:559 , HOH A:633 , HOH A:854BINDING SITE FOR RESIDUE MPO A 303
04AC4SOFTWAREASN A:10 , SER A:43 , TRP A:44 , EDO A:307 , HOH A:486 , HOH A:534 , HOH A:644BINDING SITE FOR RESIDUE EDO A 304
05AC5SOFTWAREASP A:138 , LYS A:167 , ASN A:168 , HOH A:640BINDING SITE FOR RESIDUE EDO A 305
06AC6SOFTWAREILE A:84 , ASP A:128 , ASN A:129 , ASN A:135 , LYS A:181 , HOH A:471 , HOH A:558 , HOH A:768 , HOH A:804 , HOH A:876 , PHE B:241 , TYR B:244 , HOH B:645BINDING SITE FOR RESIDUE MPO A 306
07AC7SOFTWARETRP A:44 , TYR A:222 , EDO A:304 , HOH A:745BINDING SITE FOR RESIDUE EDO A 307
08AC8SOFTWAREGLN A:182 , THR A:183BINDING SITE FOR RESIDUE CL A 308
09AC9SOFTWARETYR A:66 , ILE A:82 , LYS A:83 , ASN A:86 , HOH A:684BINDING SITE FOR RESIDUE CL A 309
10BC1SOFTWAREARG A:126 , ASN A:135 , HOH A:542 , HOH A:558 , HOH A:789BINDING SITE FOR RESIDUE CL A 310
11BC2SOFTWARELYS A:83 , GLU A:251BINDING SITE FOR RESIDUE CL A 311
12BC3SOFTWARESER B:75 , PHE B:78 , ASP B:79 , GLN B:80 , ILE B:81 , ILE B:82 , ASN B:94 , ILE B:127 , ASP B:128 , GLY B:130 , ASP B:132 , SER B:191 , ARG B:192 , HOH B:434 , HOH B:469 , HOH B:548 , HOH B:810 , HOH B:881 , HOH B:897BINDING SITE FOR RESIDUE FON B 301
13BC4SOFTWARELYS B:9 , VAL B:106 , PHE B:107 , THR B:108 , SER B:109 , TYR B:154 , ARG B:192 , LEU B:197 , PHE B:219 , TYR B:222 , GLN B:223 , HOH B:402 , HOH B:409 , HOH B:470 , HOH B:607 , HOH B:611 , HOH B:651 , HOH B:733 , HOH B:762 , HOH B:775BINDING SITE FOR RESIDUE TYD B 302
14BC5SOFTWAREPHE B:203 , ILE B:227 , ASN B:228 , PHE B:247 , HOH B:453 , HOH B:487 , HOH B:494 , HOH B:869BINDING SITE FOR RESIDUE MPO B 303
15BC6SOFTWARETYR A:244 , ILE B:84 , ASP B:128 , ASN B:129 , ASN B:135 , LYS B:181 , HOH B:483 , HOH B:520 , HOH B:664 , HOH B:785 , HOH B:814BINDING SITE FOR RESIDUE MPO B 304
16BC7SOFTWAREASN B:147 , LYS B:234 , ILE B:236 , HOH B:654 , HOH B:782BINDING SITE FOR RESIDUE EDO B 305
17BC8SOFTWAREASN B:11 , ASN B:15 , LYS B:46 , ASP B:63 , ASN B:252 , ASN B:270BINDING SITE FOR RESIDUE EDO B 306
18BC9SOFTWAREILE B:137 , ASP B:138 , GLN B:139 , HOH B:492 , HOH B:667 , HOH B:760BINDING SITE FOR RESIDUE EDO B 307
19CC1SOFTWAREFON A:301 , ASN B:245 , ILE B:259 , HOH B:801BINDING SITE FOR RESIDUE EDO B 308
20CC2SOFTWAREGLN B:182 , THR B:183 , HOH B:502 , HOH B:646BINDING SITE FOR RESIDUE CL B 309
21CC3SOFTWAREARG B:126 , ASN B:135 , HOH B:520 , HOH B:579 , HOH B:889BINDING SITE FOR RESIDUE CL B 310
22CC4SOFTWARELEU B:62 , GLN B:80 , HOH B:545BINDING SITE FOR RESIDUE CL B 311
23CC5SOFTWAREASP B:138 , LYS B:167 , ASN B:168 , HOH B:586 , HOH B:864BINDING SITE FOR RESIDUE EDO B 312
24CC6SOFTWARETRP B:44 , ARG B:151 , PHE B:155 , LEU B:269 , ASN B:270 , LYS B:271 , LEU B:272 , HOH B:452 , HOH B:755BINDING SITE FOR RESIDUE EDO B 313
25CC7SOFTWAREILE A:242 , GLY A:243 , HOH A:705 , ILE B:242 , GLY B:243 , EDO B:315 , HOH B:712 , HOH B:714 , HOH B:722BINDING SITE FOR RESIDUE EDO B 314
26CC8SOFTWAREILE A:242 , HOH A:518 , HOH A:754 , ILE B:242 , GLY B:243 , EDO B:314 , HOH B:645 , HOH B:712BINDING SITE FOR RESIDUE EDO B 315

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Leu A:100 -Pro A:101
2Leu B:100 -Pro B:101

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LXQ)

(-) 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:273
                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhhhhhhh.hhh.eeee.............hhhhhhhhh..ee.hhhhhh.....eeeee......hhhhh....eeeee.......ee....hhhhhh...eeeeeeee.........eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh..............eehhhhh..........hhhhhhhhhhh.........ee..eeeeeeeeeeee.....eee...eeee.....eeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lxq A  -1 GHMIKICIAGKNNIAVNSLQFILKNYFEADQIVVIPNKNDKGIDSWQKSLLKFALDNNIKIVTLDEIYNIEQIIFFSLEFDQIIKIENFKSDRLFNIHFSALPKYKGVFTSITPILNNELESGVTLHRIDNGIDTGNIIDQHCFPIDINDTARDLYFNYLKYGESIFKKNIQTIINNSYKDLKQTNINSSYFSRKDINLVHKINFKKTSFEIHNQIRAFIFQEYQLPIINNSKIIKSILANEFIGYNVFEEFENYFIISGIDGFKIIAQKLNK 271
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268   


Chain B from PDB  Type:PROTEIN  Length:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhhhhhhh.hhh.eeeee............hhhhhhhhh..ee.hhhhhh.....eeeee......hhhhh....eeeee.......ee....hhhhhh...eeeeeeee.........eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh..............eehhhhh..........hhhhhhhhhhh.........ee..eeeeeeeeeeee.....eee...eeee.....eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lxq B  -1 GHMIKICIAGKNNIAVNSLQFILKNYFEADQIVVIPNKNDKGIDSWQKSLLKFALDNNIKIVTLDEIYNIEQIIFFSLEFDQIIKIENFKSDRLFNIHFSALPKYKGVFTSITPILNNELESGVTLHRIDNGIDTGNIIDQHCFPIDINDTARDLYFNYLKYGESIFKKNIQTIINNSYKDLKQTNINSSYFSRKDINLVHKINFKKTSFEIHNQIRAFIFQEYQLPIINNSKIIKSILANEFIGYNVFEEFENYFIISGIDGFKIIAQKLNKL 272
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268
   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 4LXQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4LXQ)

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 Related Entries

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(-) Related Entries Specified in the PDB File

4lxt 4lxu 4lxx 4lxy 4ly0 4ly3