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(-) Description

Title :  CRYSTAL STRUCTURE OF APO CRYPTOCOCCUS NEOFORMANS H99 ACETYL-COA SYNTHETASE WITH AN ACETYLATED ACTIVE SITE LYSINE
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S D. Fox Iii, D. R. Davies, B. Calhoun
Date :  05 May 17  (Deposition) - 17 May 17  (Release) - 17 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Ssgcid, Nih, Niaid, Sbri, Uw, Beryllium, Synthetase, Acs1, Acetyl- Coa, Prx, Ac-Ams, Coenzyme A, Coa, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Seattle Structural Genomics Center For Infectious Disease (Ssgcid), D. Fox Iii, D. R. Davies, B. Calhoun, T. E. Edwards, D. D. Lorimer, M. W. Mutz, D. J. Krysan
Crystal Structure Of Apo Cryptococcus Neoformans H99 Acetyl-Coa Synthetase With An Acetylated Active Site Lysine
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ACETYL-COENZYME A SYNTHETASE
    Chains: A, B, C
    EC Number: 6.2.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PEMB7013
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: CNAG_00797
    Organism Scientific: CRYPTOCOCCUS NEOFORMANS VAR. GRUBII SEROTYPE A (STRAIN H99 / ATCC 208821 / CBS 10515 / FGSC 9487)
    Organism Taxid: 235443
    Strain: H99 / ATCC 208821 / CBS 10515 / FGSC 9487

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric Unit (3, 13)
No.NameCountTypeFull Name
1ALY2Mod. Amino AcidN(6)-ACETYLLYSINE
2GOL8Ligand/IonGLYCEROL
3PO43Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2GOL4Ligand/IonGLYCEROL
3PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2GOL2Ligand/IonGLYCEROL
3PO41Ligand/IonPHOSPHATE ION
Biological Unit 3 (2, 3)
No.NameCountTypeFull Name
1ALY-1Mod. Amino AcidN(6)-ACETYLLYSINE
2GOL2Ligand/IonGLYCEROL
3PO41Ligand/IonPHOSPHATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:167 , MET A:168 , ARG A:218 , ASP A:331 , GLU A:356binding site for residue GOL A 701
02AC2SOFTWAREARG A:72 , LYS A:82 , HOH A:991binding site for residue GOL A 702
03AC3SOFTWAREPRO A:364 , MET A:392 , HIS A:396 , HOH A:1003binding site for residue GOL A 703
04AC4SOFTWARETRP A:334 , PO4 A:705 , HOH A:1001binding site for residue GOL A 704
05AC5SOFTWARETHR A:336 , TRP A:439 , GOL A:704 , HOH A:1001binding site for residue PO4 A 705
06AC6SOFTWAREGLY B:35 , GLY B:38 , ARG B:39binding site for residue GOL B 701
07AC7SOFTWAREHIS B:43 , GLU B:54 , TYR B:316binding site for residue GOL B 702
08AC8SOFTWARETHR B:336 , TRP B:439binding site for residue PO4 B 703
09AC9SOFTWARETRP C:334 , HOH C:967binding site for residue GOL C 701
10AD1SOFTWAREARG C:72 , PHE C:81 , LYS C:82binding site for residue GOL C 702
11AD2SOFTWARETHR C:336 , TRP C:439binding site for residue PO4 C 703
12AD3SOFTWAREPRO B:634 , LYS B:635 , ILE B:641 , MET B:642binding site for Di-peptide GLY B 639 and ALY B 640
13AD4SOFTWAREASP A:580 , ALA B:573 , PRO B:634 , LYS B:635 , GLY B:639 , MET B:642 , ARG B:643binding site for Di-peptide ALY B 640 and ILE B 641

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Gly A:45 -Pro A:46
2Tyr A:361 -Pro A:362
3Gly B:45 -Pro B:46
4Tyr B:361 -Pro B:362
5Gly C:45 -Pro C:46
6Tyr C:361 -Pro C:362

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5VPV)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5VPV)

(-) 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:657
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhh............hhhhhhhhhhhhh..hhhhhhhhhhhhhh.........ee........ee....eehhhhhhhhhhhhhh...eeeeee..hhhhheeeehhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh..eeeee..eee..eeehhhhhhhhhhh......eeeee.............eeehhhhhhhh........ee...eeeeee......eeeeehhhhhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhh..eeeee.........hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhh.......eeee.....hhhhhhhhhhhh.....eeee...hhhhh..........................eeee............eeeeeee.........ee..hhhhhhhhhh......eeeeeeeee.....eee......eeee..eeeehhhhhhhhh....eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhh..eeee............hhhhhhhhhhhhhhhh......hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5vpv A  13 VHPLPDSVPESEDLFAPPPRMQGKEGRPKPHIGPNYESYVKEWAKTVGPNSDEWWAAKARETLDWYDDFKTVRAGGFEHGDVQWFPEGTLNAAYNCLDRHYYKNPKKTAIIYEADEPSESREVSYEELMQETCRVANVLKSYGVKKGDAVSIYLPMTWQAAAAFLACARIGAIHSAVFAGFSAESLRDRVNDCECKVLITTDEGRRGGKTIATKQIVDAALQQCPLVENVLVLRRTGNKVPMTEGRDKWWDEECAKMPAYCPCERMASEDPLFILYTSGKPKGVVHSTAGYLLGTALTLKYVFDAHPDDRFACMADIGWITGHSYIIYGPLANGITTAVFESTPVYPTPSRYWDFVDKWKATQLYTAPTAIRLLRRMGEDHVKNHDLSSLRVLGSVGEPINPEAWHWYNDFAGKNQCAIVDTYWMTETGSISIAPLPGAISTKPGSATFPFFGMDVDIIDPQTGQVLEGNDVEGVLVARRPWPSIARTVYRDHKRYLETYMKPYPGYFFFGDGAARDYDGYMWIKGRVDDVINVSGHRLSTAEVESALILHKGVAETAVVGCADDLTGQAVYAFVTMKPEFDTKEADLSKELAIQVRKVIGPFAAPKKIYLVSDLPKTRSGkIMRRVLRKIVAGEGDQLGDSIADPQIVEEVKQKVT 681
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595 ||    608       618       628       638 |     648       658||     674       
                                                                                                                                                                                                                                                                                                               290|                                                                                                                                                                                                                                                                                                            597|                                    640-ALY            659|               
                                                                                                                                                                                                                                                                                                                294                                                                                                                                                                                                                                                                                                             601                                                        666               


Chain B from PDB  Type:PROTEIN  Length:649
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.....eee................hhhhh............hhhhhhhhhhhh...hhhhhhhhhhhhhh.........ee........ee....eehhhhhhhhhhhhhh...eeeeee..hhhhheeeehhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhhh.eeee.....hhhhhhhhhhhh...eeeee..eee..eeehhhhhhhhhhh......eeeee.............eeehhhhhh..........ee...eeeeee.....eeeeehhhhhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhh..eeeee.........hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhh.........eeee.....hhhhhhhhhhhh.....eeee...hhhhh..........................eeee............eeeeeee.........ee..hhhhhhhhhh......eeeeeeeee.....eeee.....eeee..eeeehhhhhhhhh....eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhhhhhhhhhhh..eeeee........hhhhhhhhhhh.hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5vpv B   2 GKTEVAPGVHHVHPLPDSVPESEDLFAPPPRMQGKEGRPKPHIGPNYESYVKEWAKTVGPNSDEWWAAKARETLDWYDDFKTVRAGGFEHGDVQWFPEGTLNAAYNCLDRHYYKNPKKTAIIYEADEPSESREVSYEELMQETCRVANVLKSYGVKKGDAVSIYLPMTWQAAAAFLACARIGAIHSAVFAGFSAESLRDRVNDCECKVLITTDEGRRGGKTIATKQIVDAALQQCPLVENVLVLRRTGNKVPMTEGRDKWWDEECAKMPAYCPCERMASEDPLFILYTSKPKGVVHSTAGYLLGTALTLKYVFDAHPDDRFACMADIGWITGHSYIIYGPLANGITTAVFESTPVYPTPSRYWDFVDKWKATQLYTAPTAIRLLRRMGEDHVKNHDLSSLRVLGSVGEPINPEAWHWYNDFAGKNQCAIVDTYWMTETGSISIAPLPGAISTKPGSATFPFFGMDVDIIDPQTGQVLEGNDVEGVLVARRPWPSIARTVYRDHKRYLETYMKPYPGYFFFGDGAARDYDGYMWIKGRVDDVINVSGHRLSTAEVESALILHKGVAETAVVGCADDLTGQAVYAFVTMKPEFDEADLSKELAIQVRKVIGPFAAPKKIYLVSDLPKGkIMRRVLRKIVAGPQIVEEVKQK 679
                                    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       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595 ||    610       620       630    |||643       670         
                                                                                                                                                                                                                                                                                                                          290|                                                                                                                                                                                                                                                                                                           597|                             635||         652|         
                                                                                                                                                                                                                                                                                                                           295                                                                                                                                                                                                                                                                                                            603                              639|          670         
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            640-ALY                  


Chain C from PDB  Type:PROTEIN  Length:519
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh............hhhhhhhhhhhhh...hhhhhhhhhhhhh.........ee........ee....eehhhhhhhhhhhhhh...eeeeee..hhhhheeeehhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh...eeeee..eee..eeehhhhhhhhhhh......eeeee.............eeehhhhhhhh........ee...eeeeee.........eeeeehhhhhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhh..eeeee.........hhhhhhhhhhh..eeeehhhhhhhhhhh..............eeeee....hhhhhhhhhhhh.....eeeee..hhhhh..........................eeee............eeeeeee.........ee..hhhhhhhhhh......eeeeeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5vpv C  25 DLFAPPPRMQGKEGRPKPHIGPNYESYVKEWAKTVGPNSDEWWAAKARETLDWYDDFKTVRAGGFEHGDVQWFPEGTLNAAYNCLDRHYYKNPKKTAIIYEADEPSESREVSYEELMQETCRVANVLKSYGVKKGDAVSIYLPMTWQAAAAFLACARIGAIHSAVFAGFSAESLRDRVNDCECKVLITTDEGRRGGKTIATKQIVDAALQQCPLVENVLVLRRTGNKVPMTEGRDKWWDEECAKMPAYCPCERMASEDPLFILYTSGSTGKPKGVVHSTAGYLLGTALTLKYVFDAHPDDRFACMADIGWITGHSYIIYGPLANGITTAVFESTPVYPTPSRYWDFVDKWKATQLYTAPTAIRLLRRMGEDHVKNHDLSSLRVLGSVGEPINPEAWHWYNDFAGKNQCAIVDTYWMTETGSISIAPLPGAISTKPGSATFPFFGMDVDIIDPQTGQVLEGNDVEGVLVARRPWPSIARTVYRDHKRYLETYMKPYPGYFFFGDGAARDYDGYMWIKGRV 543
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5VPV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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        J9VFT1_CRYNH | J9VFT1: 5ifi 5k85 5k8f

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