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(-) Description

Title :  N-MYRISTOYL TRANSFERASE FROM CANDIDA ALBICANS AT 2.45 A
 
Authors :  S. A. Weston, R. A. Pauptit
Date :  11 Dec 97  (Deposition) - 13 Jan 99  (Release) - 09 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.45
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Myristylation, Antifungal Target, Coa, Transferase, Acyltransferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. A. Weston, R. Camble, J. Colls, G. Rosenbrock, I. Taylor, M. Egerton A. D. Tucker, A. Tunnicliffe, A. Mistry, F. Mancia, E. De La Fortelle J. Irwin, G. Bricogne, R. A. Pauptit
Crystal Structure Of The Anti-Fungal Target N-Myristoyl Transferase.
Nat. Struct. Biol. V. 5 213 1998
PubMed-ID: 9501915  |  Reference-DOI: 10.1038/NSB0398-213
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - N-MYRISTOYL TRANSFERASE
    Cellular LocationCYTOPLASM
    ChainsA, B, C
    EC Number2.3.1.97
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Organism ScientificCANDIDA ALBICANS
    Organism Taxid5476

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 18)

Asymmetric/Biological Unit (1, 18)
No.NameCountTypeFull Name
1GOL18Ligand/IonGLYCEROL

(-) Sites  (21, 21)

Asymmetric Unit (21, 21)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGOL B:2 , TYR B:107 , TYR B:119 , ASN B:175 , PHE B:176 , LEU B:451 , HOH B:535BINDING SITE FOR RESIDUE GOL B 1
02AC2SOFTWAREGOL B:1 , TYR B:225 , TYR B:335 , LEU B:337 , TYR B:354 , LEU B:451 , HOH B:463BINDING SITE FOR RESIDUE GOL B 2
03AC3SOFTWAREGOL A:4 , GOL A:9 , TYR A:225 , LEU A:337 , LEU A:451BINDING SITE FOR RESIDUE GOL A 3
04AC4SOFTWAREGOL A:3 , GOL A:9 , TYR A:107 , TYR A:119 , ASN A:175 , PHE A:176 , LEU A:337BINDING SITE FOR RESIDUE GOL A 4
05AC5SOFTWAREGOL C:6 , TYR C:107 , TYR C:119 , ASN C:175 , PHE C:176 , LEU C:337 , LEU C:451BINDING SITE FOR RESIDUE GOL C 5
06AC6SOFTWAREGOL C:5 , TYR C:225 , TYR C:335 , LEU C:337 , LEU C:451BINDING SITE FOR RESIDUE GOL C 6
07AC7SOFTWARELYS A:161 , TYR A:283 , GLN A:286 , GLU A:287 , LEU A:294BINDING SITE FOR RESIDUE GOL A 7
08AC8SOFTWAREGLU A:173 , GLN A:293 , TRP A:303 , PHE A:356 , TYR A:357 , VAL A:449 , LEU A:451 , HOH A:525BINDING SITE FOR RESIDUE GOL A 8
09AC9SOFTWAREGOL A:3 , GOL A:4 , TYR A:107 , THR A:211 , LEU A:415 , LEU A:451 , HOH A:527 , HOH A:529BINDING SITE FOR RESIDUE GOL A 9
10AVEUNKNOWNLEU A:451C-TERM CARBOXYLATE POSTULATED AS SUBSTRATE BINDING, SINCE IT LIES ON FLOOR OF DEEP POCKET.
11BC1SOFTWAREGLU C:173 , GLN C:293 , TRP C:303 , VAL C:449 , LEU C:451BINDING SITE FOR RESIDUE GOL C 10
12BC2SOFTWARETRP B:133 , LYS B:135 , HOH B:576BINDING SITE FOR RESIDUE GOL B 11
13BC3SOFTWAREASN B:74 , PRO B:76 , ASP B:136 , ARG B:198 , ARG B:199 , HOH B:592BINDING SITE FOR RESIDUE GOL B 12
14BC4SOFTWAREASN A:74 , ASP A:136 , ARG A:198 , ARG A:199BINDING SITE FOR RESIDUE GOL A 13
15BC5SOFTWAREASN C:74 , ASP C:75 , ASP C:136 , ARG C:198BINDING SITE FOR RESIDUE GOL C 14
16BC6SOFTWAREPRO A:217 , THR A:218 , TYR A:418 , PHE A:420 , ARG A:423 , ASN B:166 , HOH B:569BINDING SITE FOR RESIDUE GOL A 15
17BC7SOFTWARELYS A:164 , GLU A:287 , ARG A:288 , PHE A:289 , ASP A:290BINDING SITE FOR RESIDUE GOL A 16
18BC8SOFTWAREGLU B:173 , GLN B:293 , TRP B:303 , PHE B:356 , VAL B:449 , LEU B:451BINDING SITE FOR RESIDUE GOL B 17
19BC9SOFTWAREASN A:314 , LYS A:317 , LEU A:336 , PHE A:386BINDING SITE FOR RESIDUE GOL A 18
20BVEUNKNOWNLEU B:451C-TERM CARBOXYLATE POSTULATED AS SUBSTRATE BINDING, SINCE IT LIES ON FLOOR OF DEEP POCKET.
21CVEUNKNOWNLEU C:451C-TERM CARBOXYLATE POSTULATED AS SUBSTRATE BINDING, SINCE IT LIES ON FLOOR OF DEEP POCKET.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1NMT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1NMT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NMT)

(-) PROSITE Motifs  (2, 6)

Asymmetric/Biological Unit (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1NMT_1PS00975 Myristoyl-CoA:protein N-myristoyltransferase signature 1.NMT_CANAL173-181
 
 
  3A:173-181
B:173-181
C:173-181
2NMT_2PS00976 Myristoyl-CoA:protein N-myristoyltransferase signature 2.NMT_CANAL407-413
 
 
  3A:407-413
B:407-413
C:407-413

(-) Exons   (0, 0)

(no "Exon" information available for 1NMT)

(-) 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:392
 aligned with NMT_CANAL | P30418 from UniProtKB/Swiss-Prot  Length:451

    Alignment length:392
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449  
            NMT_CANAL    60 EGPIDKLKTPEDVPNDPLPLISDFEWSTLDIDDNLQLDELYKLLYDNYVEDIDATFRFKYSHEFFQWALKPPGWRKDWHVGVRVKSTGKLVAFIAATPVTFKLNKSNKVIDSVEINFLCIHKKLRNKRLAPVLIKEITRRVNKQNIWQALYTGGSILPTPLTTCRYQHRPINWSKLHDVGFSHLPPNQTKSSMVASYTLPNNPKLKGLRPMTGKDVSTVLSLLYKYQERFDIVQLFTEEEFKHWMLGHDENSDSNVVKSYVVEDENGVITDYFSYYLLPFTVLDNAQHDELGIAYLFYYASDSFEKPNYKKRLNELITDALITSKKFGVDVFNCLTCQDNTYFLKDCKFGSGDGFLNYYLFNYRTFPMDGGIDKKTKEVVEDQTSGIGVVLL 451
               SCOP domains d1nmta1 A:60-224 N-myristoyl transferase, NMT                                                                                                                        d1nmta2 A:225-451 N-myristoyl transferase, NMT                                                                                                                                                                                      SCOP domains
               CATH domains 1nmtA01 A:60-206  [code=3.40.630.30, no name defined]                                                                                              1nmtA02 A:207-451  [code=3.40.630.30, no name defined]                                                                                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhh...........eeeee.....hhhhhhhhhhhhh.........eee...hhhhhhhh......hhheeeeee.....eeeeeeeeeeeeee....eeeeeeeee............hhhhhhhhhhhhhhhh....eeeee.........eeeeeeee..hhhhhh...........hhhhhhhh..........eee..hhhhhhhhhhhhhhhhh..eeee..hhhhhhhhh..........eeeeeee.....eeeeeeeee..eee..........eeee..eeehhh....hhhhhhhhhhhhhhhhhhh...eeeee....hhh............eeeeeee............................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------NMT_1    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NMT_2  -------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nmt A  60 EGPIDKLKTPEDVPNDPLPLISDFEWSTLDIDDNLQLDELYKLLYDNYVEDIDATFRFKYSHEFFQWALKPPGWRKDWHVGVRVKSTGKLVAFIAATPVTFKLNKSNKVIDSVEINFLCIHKKLRNKRLAPVLIKEITRRVNKQNIWQALYTGGSILPTPLTTCRYQHRPINWSKLHDVGFSHLPPNQTKSSMVASYTLPNNPKLKGLRPMTGKDVSTVLSLLYKYQERFDIVQLFTEEEFKHWMLGHDENSDSNVVKSYVVEDENGIITDYFSYYLLPFTVLDNAQHDELGIAYLFYYASDSFEKPNYKKRLNELITDALITSKKFGVDVFNCLTCQDNTYFLKDCKFGSGDGFLNYYLFNYRTFPMDGGIDKKTKEVVEDQTSGIGVVLL 451
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449  

Chain B from PDB  Type:PROTEIN  Length:392
 aligned with NMT_CANAL | P30418 from UniProtKB/Swiss-Prot  Length:451

    Alignment length:392
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449  
            NMT_CANAL    60 EGPIDKLKTPEDVPNDPLPLISDFEWSTLDIDDNLQLDELYKLLYDNYVEDIDATFRFKYSHEFFQWALKPPGWRKDWHVGVRVKSTGKLVAFIAATPVTFKLNKSNKVIDSVEINFLCIHKKLRNKRLAPVLIKEITRRVNKQNIWQALYTGGSILPTPLTTCRYQHRPINWSKLHDVGFSHLPPNQTKSSMVASYTLPNNPKLKGLRPMTGKDVSTVLSLLYKYQERFDIVQLFTEEEFKHWMLGHDENSDSNVVKSYVVEDENGVITDYFSYYLLPFTVLDNAQHDELGIAYLFYYASDSFEKPNYKKRLNELITDALITSKKFGVDVFNCLTCQDNTYFLKDCKFGSGDGFLNYYLFNYRTFPMDGGIDKKTKEVVEDQTSGIGVVLL 451
               SCOP domains d1nmtb1 B:60-224 N-myristoyl transferase, NMT                                                                                                                        d1nmtb2 B:225-451 N-myristoyl transferase, NMT                                                                                                                                                                                      SCOP domains
               CATH domains 1nmtB01 B:60-206  [code=3.40.630.30, no name defined]                                                                                              1nmtB02 B:207-451  [code=3.40.630.30, no name defined]                                                                                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhh...........eeeee.....hhhhhhhhhhhhhh........eee...hhhhhhhh......hhheeeeee.....eeeeeeeeeeeeee....eeeeeeeee.....hhhhh..hhhhhhhhhhhhhhhh....eeeee.............eeee..hhhhhh...........hhhhhh............eee..hhhhhhhhhhhhhhhhh..eeee..hhhhhhhhh..........eeeeeee.....eeeeeeeee..eee..........eeee..eeehhhh...hhhhhhhhhhhhhhhhhhh...eeee.....hhh..hhh.........eeeee............................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------NMT_1    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NMT_2  -------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nmt B  60 EGPIDKLKTPEDVPNDPLPLISDFEWSTLDIDDNLQLDELYKLLYDNYVEDIDATFRFKYSHEFFQWALKPPGWRKDWHVGVRVKSTGKLVAFIAATPVTFKLNKSNKVIDSVEINFLCIHKKLRNKRLAPVLIKEITRRVNKQNIWQALYTGGSILPTPLTTCRYQHRPINWSKLHDVGFSHLPPNQTKSSMVASYTLPNNPKLKGLRPMTGKDVSTVLSLLYKYQERFDIVQLFTEEEFKHWMLGHDENSDSNVVKSYVVEDENGIITDYFSYYLLPFTVLDNAQHDELGIAYLFYYASDSFEKPNYKKRLNELITDALITSKKFGVDVFNCLTCQDNTYFLKDCKFGSGDGFLNYYLFNYRTFPMDGGIDKKTKEVVEDQTSGIGVVLL 451
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449  

Chain C from PDB  Type:PROTEIN  Length:389
 aligned with NMT_CANAL | P30418 from UniProtKB/Swiss-Prot  Length:451

    Alignment length:392
                                    69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449  
            NMT_CANAL    60 EGPIDKLKTPEDVPNDPLPLISDFEWSTLDIDDNLQLDELYKLLYDNYVEDIDATFRFKYSHEFFQWALKPPGWRKDWHVGVRVKSTGKLVAFIAATPVTFKLNKSNKVIDSVEINFLCIHKKLRNKRLAPVLIKEITRRVNKQNIWQALYTGGSILPTPLTTCRYQHRPINWSKLHDVGFSHLPPNQTKSSMVASYTLPNNPKLKGLRPMTGKDVSTVLSLLYKYQERFDIVQLFTEEEFKHWMLGHDENSDSNVVKSYVVEDENGVITDYFSYYLLPFTVLDNAQHDELGIAYLFYYASDSFEKPNYKKRLNELITDALITSKKFGVDVFNCLTCQDNTYFLKDCKFGSGDGFLNYYLFNYRTFPMDGGIDKKTKEVVEDQTSGIGVVLL 451
               SCOP domains d1nmtc1 C:60-224 N-myristoyl transferase, NMT                                                                                                                        d1nmtc2 C:225-451 N-myristoyl transferase, NMT                                                                                                                                                                                      SCOP domains
               CATH domains 1nmtC01 C:60-206  [code=3.40.630.30, no name defi   ned]                                                                                           1nmtC02 C:207-450  [code=3.40.630.30, no name defined]                                                                                                                                                                                              - CATH domains
           Pfam domains (1) NMT-1nmtC01 C:60-223                                                                                                                                                -------------NMT_C-1nmtC04 C:237-450                                                                                                                                                                                               - Pfam domains (1)
           Pfam domains (2) NMT-1nmtC02 C:60-223                                                                                                                                                -------------NMT_C-1nmtC05 C:237-450                                                                                                                                                                                               - Pfam domains (2)
           Pfam domains (3) NMT-1nmtC03 C:60-223                                                                                                                                                -------------NMT_C-1nmtC06 C:237-450                                                                                                                                                                                               - Pfam domains (3)
         Sec.struct. author .........hhh...........eeeee.....hhhhhhhhhhhhhh..---...eee...hhhhhhhh......hhheeeeee.....eeeeeeeeeeeeee....eeeeeeeee.....hhh.....hhhhhhhhhhhhhhh....eeeee........eeee.eeee..hhhhhh...........hhhhhhhh..........eee..hhhhhhhhhhhhhhhhh..eeee..hhhhhhhhh..........eeeeeee.....eeeeeeeee..eee..........eeee.....hhh....hhhhhhhhhhhhhhhhhhh...eeee.....hhh.hhhh.......eeeeeee............................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------NMT_1    ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NMT_2  -------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nmt C  60 EGPIDKLKTPEDVPNDPLPLISDFEWSTLDIDDNLQLDELYKLLYDNYV---DATFRFKYSHEFFQWALKPPGWRKDWHVGVRVKSTGKLVAFIAATPVTFKLNKSNKVIDSVEINFLCIHKKLRNKRLAPVLIKEITRRVNKQNIWQALYTGGSILPTPLTTCRYQHRPINWSKLHDVGFSHLPPNQTKSSMVASYTLPNNPKLKGLRPMTGKDVSTVLSLLYKYQERFDIVQLFTEEEFKHWMLGHDENSDSNVVKSYVVEDENGIITDYFSYYLLPFTVLDNAQHDELGIAYLFYYASDSFEKPNYKKRLNELITDALITSKKFGVDVFNCLTCQDNTYFLKDCKFGSGDGFLNYYLFNYRTFPMDGGIDKKTKEVVEDQTSGIGVVLL 451
                                    69        79        89        99        |-  |    119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449  
                                                                          108 112                                                                                                                                                                                                                                                                                                                                                   

   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  (1, 6)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (2, 6)

Asymmetric/Biological Unit
(-)
Family: NMT (9)
1aNMT-1nmtC01C:60-223
1bNMT-1nmtC02C:60-223
1cNMT-1nmtC03C:60-223

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (NMT_CANAL | P30418)
molecular function
    GO:0008144    drug binding    Interacting selectively and non-covalently with a drug, any naturally occurring or synthetic substance, other than a nutrient, that, when administered or applied to an organism, affects the structure or functioning of the organism; in particular, any such substance used in the diagnosis, prevention, or treatment of disease.
    GO:0004379    glycylpeptide N-tetradecanoyltransferase activity    Catalysis of the reaction: tetradecanoyl-CoA + glycyl-peptide = CoA + N-tetradecanoylglycyl-peptide.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0018008    N-terminal peptidyl-glycine N-myristoylation    The myristoylation of the N-terminal glycine of proteins to form the derivative N-myristoyl-glycine.
    GO:0006499    N-terminal protein myristoylation    The covalent attachment of a myristoyl group to the N-terminal amino acid residue of a protein.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        NMT_CANAL | P304181iyk 1iyl

(-) Related Entries Specified in the PDB File

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