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(-) Description

Title :  CRYSTAL STRUCTURE OF AMINOGLYCOSIDE 6'-ACETYLTRANSFERASE-IE
 
Authors :  C. A. Smith, M. Toth, T. M. Weiss, H. Frase, S. B. Vakulenko
Date :  09 May 14  (Deposition) - 22 Oct 14  (Release) - 22 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Antibiotic Resistance, Gnat Family, Acetyltransferase, Acetylcoenzyme-A, Aminoglycoside, Transferase, Transferase- Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. A. Smith, M. Toth, T. M. Weiss, H. Frase, S. B. Vakulenko
Structure Of The Bifunctional Aminoglycoside-Resistance Enzyme Aac(6')-Ie-Aph(2'')-Ia Revealed By Crystallographic And Small-Angle X-Ray Scattering Analysis.
Acta Crystallogr. , Sect. D V. 70 2754 2014
PubMed-ID: 25286858  |  Reference-DOI: 10.1107/S1399004714017635

(-) Compounds

Molecule 1 - BIFUNCTIONAL AAC/APH
    Chains: A, B
    EC Number: 2.3.1.-, 2.7.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: AACA-APHD
    Organism Scientific: STAPHYLOCOCCUS WARNERI
    Organism Taxid: 1292
    Synonym: 6'-AMINOGLYCOSIDE N-ACETYLTRANSFERASE, AAC(6'), 2''- AMINOGLYCOSIDE PHOSPHOTRANSFERASE, APH(2'')

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
130N2Ligand/Ion(3R,5S,9R)-1-[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-4-HYDROXY-3-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]-3,5,9-TRIHYDROXY-8,8-DIMETHYL-10,14-DIOXO-2,4,6-TRIOXA-11,15-DIAZA-3,5-DIPHOSPHAHEPTADECANE-17-SULFINIC ACID 3,5-DIOXIDE (NON-PREFERRED NAME)
2FMT5Ligand/IonFORMIC ACID
3KAN2Ligand/IonKANAMYCIN A
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
130N1Ligand/Ion(3R,5S,9R)-1-[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-4-HYDROXY-3-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]-3,5,9-TRIHYDROXY-8,8-DIMETHYL-10,14-DIOXO-2,4,6-TRIOXA-11,15-DIAZA-3,5-DIPHOSPHAHEPTADECANE-17-SULFINIC ACID 3,5-DIOXIDE (NON-PREFERRED NAME)
2FMT2Ligand/IonFORMIC ACID
3KAN1Ligand/IonKANAMYCIN A
Biological Unit 2 (3, 5)
No.NameCountTypeFull Name
130N1Ligand/Ion(3R,5S,9R)-1-[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-4-HYDROXY-3-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]-3,5,9-TRIHYDROXY-8,8-DIMETHYL-10,14-DIOXO-2,4,6-TRIOXA-11,15-DIAZA-3,5-DIPHOSPHAHEPTADECANE-17-SULFINIC ACID 3,5-DIOXIDE (NON-PREFERRED NAME)
2FMT3Ligand/IonFORMIC ACID
3KAN1Ligand/IonKANAMYCIN A

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:34 , GLY A:35 , HIS A:49 , TYR A:50 , GLU A:52 , TRP A:54 , GLN A:74 , ASP A:136 , HIS A:138 , GLU A:163 , 30N A:202 , FMT A:203 , HOH A:375 , HOH A:377 , HOH A:379 , HOH A:380 , HOH A:381 , HOH A:383 , HOH A:385 , HOH A:386 , HOH A:406 , HOH A:439 , HOH A:459 , HOH A:527 , HOH A:529 , HOH A:577BINDING SITE FOR RESIDUE KAN A 201
2AC2SOFTWAREPHE A:33 , GLN A:100 , PHE A:101 , ILE A:102 , TRP A:108 , SER A:109 , LYS A:110 , GLY A:111 , ILE A:112 , GLY A:113 , THR A:114 , PRO A:137 , ASN A:141 , PRO A:142 , ARG A:143 , ARG A:146 , ALA A:147 , TYR A:148 , LYS A:150 , KAN A:201 , HOH A:301 , HOH A:302 , HOH A:304 , HOH A:318 , HOH A:376 , HOH A:378 , HOH A:387 , HOH A:443 , HOH A:457 , HOH A:465 , HOH A:527 , HOH A:535 , HOH A:595 , HOH A:659BINDING SITE FOR RESIDUE 30N A 202
3AC3SOFTWARETYR A:34 , GLY A:35 , TYR A:41 , TYR A:50 , KAN A:201 , HOH A:405 , HOH A:607BINDING SITE FOR RESIDUE FMT A 203
4AC4SOFTWAREHOH A:457 , HOH A:657 , HOH A:674BINDING SITE FOR RESIDUE FMT A 204
5AC5SOFTWAREASN A:66 , TYR B:34 , GLY B:35 , HIS B:49 , TYR B:50 , GLU B:52 , TRP B:54 , ARG B:60 , GLN B:74 , LEU B:82 , ASP B:85 , TYR B:86 , ASP B:99 , ASP B:136 , HIS B:138 , GLU B:163 , 30N B:202 , FMT B:203 , HOH B:301 , HOH B:398 , HOH B:399 , HOH B:439 , HOH B:445 , HOH B:468 , HOH B:469 , HOH B:471 , HOH B:550BINDING SITE FOR RESIDUE KAN B 201
6AC6SOFTWAREARG A:146 , GLN A:149 , TYR A:173 , HOH A:432 , HOH A:462 , HOH A:678 , PHE B:33 , GLN B:100 , PHE B:101 , ILE B:102 , TRP B:108 , SER B:109 , LYS B:110 , GLY B:111 , ILE B:112 , GLY B:113 , THR B:114 , PRO B:137 , ASN B:141 , ARG B:143 , ALA B:144 , ARG B:146 , ALA B:147 , TYR B:148 , LYS B:150 , KAN B:201 , HOH B:301 , HOH B:302 , HOH B:351 , HOH B:352 , HOH B:365 , HOH B:378 , HOH B:379 , HOH B:397 , HOH B:405 , HOH B:439 , HOH B:505BINDING SITE FOR RESIDUE 30N B 202
7AC7SOFTWARETYR B:34 , GLY B:35 , TYR B:41 , TYR B:50 , KAN B:201 , HOH B:399BINDING SITE FOR RESIDUE FMT B 203
8AC8SOFTWARELYS A:126 , LEU B:13 , HOH B:335 , HOH B:356 , HOH B:487 , HOH B:495 , HOH B:597BINDING SITE FOR RESIDUE FMT B 204
9AC9SOFTWARELEU A:164 , GLY A:167 , ASN B:106 , TYR B:107 , LYS B:110 , HOH B:577BINDING SITE FOR RESIDUE FMT B 205

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QC6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QC6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QC6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QC6)

(-) Exons   (0, 0)

(no "Exon" information available for 4QC6)

(-) 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:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeee.hhhhhhhhhhhh.hhhhhh.........hhhhhhhhh.......eeeeeeee..eeeeeeeeee.hhhhhhhhh.......eeeeeeee.hhhhh..hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeeeeeeeeeee..eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qc6 A   1 MNIVENEICIRTLIDDDFPLMLKWLTDERVLEFYGGRDKKYTLESLKKHYTEPWEDEVFRVIIEYNNVPIGYGQIYKMYDELYTDYHYPKTDEIVYGMDQFIGEPNYWSKGIGTRYIKLIFEFLKKERNANAVILDPHKNNPRAIRAYQKSGFRIIEDLPEHELHEGKKEDCYLMEYRY 179
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170         


Chain B from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeee.hhhhhhhhhhhh.hhhhhh.........hhhhhhhhh.......eeeeeeee..eeeeeeeeee.hhhhhhhhh.......eeeeeeee.hhhhh..hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeeeeeeeeeee..eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qc6 B   1 MNIVENEICIRTLIDDDFPLMLKWLTDERVLEFYGGRDKKYTLESLKKHYTEPWEDEVFRVIIEYNNVPIGYGQIYKMYDELYTDYHYPKTDEIVYGMDQFIGEPNYWSKGIGTRYIKLIFEFLKKERNANAVILDPHKNNPRAIRAYQKSGFRIIEDLPEHELHEGKKEDCYLMEYRY 179
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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 4QC6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QC6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QC6)

(-) Gene Ontology  (11, 11)

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