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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOSPHOAPANTETHEINE ADENYLYLTRANSFERASE PPAT/COAD WITH COA AND PYROPHOSPHATE FROM PSEUDOMONAS AERUGINOSA
 
Authors :  R. Chatterjee, S. Datta
Date :  20 Nov 14  (Deposition) - 25 Nov 15  (Release) - 04 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,C,F  (1x)
Biol. Unit 2:  B,D,E  (1x)
Keywords :  Rossmann Fold, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Chatterjee, A. Mondal, A. Basu, S. Datta
Transition Of Phosphopantetheine Adenylyltransferase From Catalytic To Allosteric State Is Characterized By Ternary Complex Formation In Pseudomonas Aeruginosa
Biochim. Biophys. Acta V. 1864 773 2016
PubMed-ID: 27041211  |  Reference-DOI: 10.1016/J.BBAPAP.2016.03.018

(-) Compounds

Molecule 1 - PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE
    Chains: A, B, C, D, E, F
    EC Number: 2.7.7.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: COAD, PA0363, PA2G_04277
    Organism Scientific: PSEUDOMONAS AERUGINOSA 2192
    Organism Taxid: 350703
    Synonym: DEPHOSPHO-COA PYROPHOSPHORYLASE, PANTETHEINE-PHOSPHATE ADENYLYLTRANSFERASE

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A C  F
Biological Unit 2 (1x):  B DE 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 39)

Asymmetric Unit (7, 39)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2CA2Ligand/IonCALCIUM ION
3COA6Ligand/IonCOENZYME A
4DMS9Ligand/IonDIMETHYL SULFOXIDE
5FMT15Ligand/IonFORMIC ACID
6GOL1Ligand/IonGLYCEROL
7POP2Ligand/IonPYROPHOSPHATE 2-
Biological Unit 1 (5, 19)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3COA3Ligand/IonCOENZYME A
4DMS6Ligand/IonDIMETHYL SULFOXIDE
5FMT6Ligand/IonFORMIC ACID
6GOL-1Ligand/IonGLYCEROL
7POP1Ligand/IonPYROPHOSPHATE 2-
Biological Unit 2 (6, 18)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3COA3Ligand/IonCOENZYME A
4DMS3Ligand/IonDIMETHYL SULFOXIDE
5FMT9Ligand/IonFORMIC ACID
6GOL1Ligand/IonGLYCEROL
7POP1Ligand/IonPYROPHOSPHATE 2-

(-) Sites  (37, 37)

Asymmetric Unit (37, 37)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:7 , GLY A:8 , THR A:9 , HIS A:17 , LYS A:41 , LEU A:72 , LEU A:73 , ARG A:87 , ARG A:90 , TYR A:97 , LEU A:101 , SER A:127 , SER A:128 , THR A:129 , ARG A:132 , DMS A:204 , DMS A:205 , ACT A:208 , HOH A:320 , HOH A:321 , LEU F:130 , GLU F:133BINDING SITE FOR RESIDUE COA A 201
02AC2SOFTWARELYS A:15 , ASP A:19 , TYR A:123BINDING SITE FOR RESIDUE DMS A 202
03AC3SOFTWAREALA A:135 , GLY A:138 , GLY A:139 , ASP A:140 , ILE A:141BINDING SITE FOR RESIDUE DMS A 203
04AC4SOFTWAREALA A:36 , ALA A:37 , SER A:38 , PHE A:69 , THR A:71 , COA A:201 , HOH A:317 , LEU F:137BINDING SITE FOR RESIDUE DMS A 204
05AC5SOFTWAREGLY A:16 , ARG A:90 , COA A:201 , ACT A:208BINDING SITE FOR RESIDUE DMS A 205
06AC6SOFTWAREASP A:140BINDING SITE FOR RESIDUE FMT A 206
07AC7SOFTWARETYR A:6 , PRO A:7 , ARG A:87 , GLY A:88 , COA A:201 , DMS A:205BINDING SITE FOR RESIDUE ACT A 208
08AC8SOFTWAREPRO B:7 , GLY B:8 , THR B:9 , HIS B:17 , ALA B:36 , LYS B:41 , PHE B:69 , THR B:71 , LEU B:72 , LEU B:73 , ARG B:87 , TYR B:97 , LEU B:101 , SER B:127 , SER B:128 , THR B:129 , ARG B:132 , HOH B:306 , GLU E:133 , LEU E:137BINDING SITE FOR RESIDUE COA B 201
09AC9SOFTWARESER B:25BINDING SITE FOR RESIDUE FMT B 202
10BC1SOFTWAREVAL B:67 , GLY B:68BINDING SITE FOR RESIDUE FMT B 204
11BC2SOFTWAREGLN B:55 , GLU B:65 , VAL B:66BINDING SITE FOR RESIDUE FMT B 205
12BC3SOFTWAREGLU B:65 , VAL B:67 , GLN B:80BINDING SITE FOR RESIDUE FMT B 206
13BC4SOFTWAREASP B:140 , ILE B:141 , SER B:142 , LYS B:143 , PHE B:144BINDING SITE FOR RESIDUE FMT B 207
14BC5SOFTWARELEU A:130 , GLU A:133 , LEU A:137 , GLY C:8 , THR C:9 , LYS C:41 , PHE C:69 , LEU C:72 , LEU C:73 , ARG C:87 , TYR C:97 , LEU C:101 , SER C:127 , SER C:128 , THR C:129 , HOH C:305BINDING SITE FOR RESIDUE COA C 201
15BC6SOFTWARELYS C:81 , ALA C:82BINDING SITE FOR RESIDUE FMT C 202
16BC7SOFTWARELYS C:15 , GLY C:18 , ASP C:19 , HOH C:317BINDING SITE FOR RESIDUE FMT C 203
17BC8SOFTWAREGLU C:65 , GLN C:80BINDING SITE FOR RESIDUE FMT C 204
18BC9SOFTWAREASN C:83 , ASP C:111 , ARG D:26BINDING SITE FOR RESIDUE FMT C 205
19CC1SOFTWARETYR C:6 , HIS C:17 , ARG C:87 , GLY C:88 , ARG C:90BINDING SITE FOR RESIDUE ACT C 206
20CC2SOFTWAREGLU B:133 , LEU B:137 , PRO D:7 , GLY D:8 , THR D:9 , LYS D:41 , LEU D:72 , LEU D:73 , ARG D:87 , ARG D:90 , SER D:93 , ASP D:94 , TYR D:97 , LEU D:101 , SER D:127 , SER D:128 , THR D:129 , DMS D:203 , HOH D:318BINDING SITE FOR RESIDUE COA D 201
21CC3SOFTWARETYR D:6 , HIS D:17 , LEU D:20 , ARG D:87 , GLY D:88 , ARG D:90BINDING SITE FOR RESIDUE POP D 202
22CC4SOFTWARELEU B:137 , ALA D:36 , ALA D:37 , SER D:38 , PHE D:69 , SER D:70 , THR D:71 , COA D:201BINDING SITE FOR RESIDUE DMS D 203
23CC5SOFTWAREGLY D:68 , PHE D:69 , SER D:70 , THR D:71 , FMT D:205BINDING SITE FOR RESIDUE DMS D 204
24CC6SOFTWAREDMS D:204BINDING SITE FOR RESIDUE FMT D 205
25CC7SOFTWARELYS D:40 , LYS D:41BINDING SITE FOR RESIDUE GOL D 206
26CC8SOFTWAREARG E:132BINDING SITE FOR RESIDUE FMT E 201
27CC9SOFTWARELEU D:130 , ILE D:134 , LEU D:137 , PRO E:7 , GLY E:8 , THR E:9 , PHE E:10 , HIS E:17 , ALA E:36 , SER E:38 , LYS E:41 , PHE E:69 , SER E:70 , THR E:71 , LEU E:73 , ARG E:87 , TYR E:97 , LEU E:101 , SER E:127 , SER E:128 , THR E:129 , CA E:203 , ACT E:206 , HOH E:303 , HOH E:305BINDING SITE FOR RESIDUE COA E 202
28DC1SOFTWAREHIS E:17 , ARG E:90 , SER E:128 , COA E:202BINDING SITE FOR RESIDUE CA E 203
29DC2SOFTWARELYS E:15 , GLY E:18 , ASP E:19BINDING SITE FOR RESIDUE DMS E 204
30DC3SOFTWARESER E:25 , ARG E:26 , LEU E:27 , PHE E:28BINDING SITE FOR RESIDUE FMT E 205
31DC4SOFTWARETYR E:6 , ARG E:87 , GLY E:88 , ARG E:90 , COA E:202BINDING SITE FOR RESIDUE ACT E 206
32DC5SOFTWARELEU C:130 , LEU C:137 , PRO F:7 , GLY F:8 , THR F:9 , PHE F:10 , HIS F:17 , ALA F:36 , ALA F:37 , SER F:38 , LYS F:41 , PHE F:69 , SER F:70 , THR F:71 , LEU F:72 , LEU F:73 , ARG F:87 , TYR F:97 , LEU F:101 , SER F:127 , SER F:128 , THR F:129 , CA F:203 , ACT F:206 , HOH F:305 , HOH F:310 , HOH F:318BINDING SITE FOR RESIDUE COA F 201
33DC6SOFTWARELYS F:15 , GLY F:18 , ASP F:19 , GLU F:22 , VAL F:57BINDING SITE FOR RESIDUE POP F 202
34DC7SOFTWAREHIS F:17 , SER F:128 , COA F:201 , HOH F:314BINDING SITE FOR RESIDUE CA F 203
35DC8SOFTWAREARG B:26 , ASN F:83 , ASP F:111BINDING SITE FOR RESIDUE DMS F 204
36DC9SOFTWAREMET F:1 , ARG F:3 , LYS F:81BINDING SITE FOR RESIDUE DMS F 205
37EC1SOFTWARETYR F:6 , ARG F:87 , GLY F:88 , ARG F:90 , COA F:201BINDING SITE FOR RESIDUE ACT F 206

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Asp A:11 -Pro A:12
2Asp B:11 -Pro B:12
3Asp C:11 -Pro C:12
4Asp D:11 -Pro D:12
5Asp E:11 -Pro E:12
6Asp F:11 -Pro F:12

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RUK)

(-) 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:157
                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhhh....eeeeee..hhhhhhhhh...eeeee..hhhhhhhhhhhhhhhhhhh...eeeee..hhhhhh.hhhhhhhhhhh........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ruk A   2 NRVLYPGTFDPITKGHGDLIERASRLFDHVIIAVAASPKKNPLFSLEQRVALAQEVTKHLPNVEVVGFSTLLAHFVKEQKANVFLRGLRAVSDFEYEFQLANMNRQLAPDVESMFLTPSEKYSFISSTLVREIAALGGDISKFVHPAVADALAERFK 158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       


Chain B from PDB  Type:PROTEIN  Length:158
                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhhh....eeeeee..hhhhhhhhh...eeeee..hhhhhhhhhhhhhhhhhhh...eeeee..hhhhhh.hhhhhhhhhhh........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ruk B   1 MNRVLYPGTFDPITKGHGDLIERASRLFDHVIIAVAASPKKNPLFSLEQRVALAQEVTKHLPNVEVVGFSTLLAHFVKEQKANVFLRGLRAVSDFEYEFQLANMNRQLAPDVESMFLTPSEKYSFISSTLVREIAALGGDISKFVHPAVADALAERFK 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150        


Chain C from PDB  Type:PROTEIN  Length:158
                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhhhh...eeeeeee.........hhhhhhhhhhhhhh....eeeeee..hhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhh...eeeee..hhhhh..hhhhhhhhhhh........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ruk C   1 MNRVLYPGTFDPITKGHGDLIERASRLFDHVIIAVAASPKKNPLFSLEQRVALAQEVTKHLPNVEVVGFSTLLAHFVKEQKANVFLRGLRAVSDFEYEFQLANMNRQLAPDVESMFLTPSEKYSFISSTLVREIAALGGDISKFVHPAVADALAERFK 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150        


Chain D from PDB  Type:PROTEIN  Length:158
                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhhhh...eeeeeee.........hhhhhhhhhhhhhh....eeeeee..hhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhh...eeeee..hhhhh..hhhhhhhhhhh........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ruk D   1 MNRVLYPGTFDPITKGHGDLIERASRLFDHVIIAVAASPKKNPLFSLEQRVALAQEVTKHLPNVEVVGFSTLLAHFVKEQKANVFLRGLRAVSDFEYEFQLANMNRQLAPDVESMFLTPSEKYSFISSTLVREIAALGGDISKFVHPAVADALAERFK 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150        


Chain E from PDB  Type:PROTEIN  Length:158
                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh.....eeeeee..hhhhhhhhh...eeeee..hhhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhhh........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ruk E   1 MNRVLYPGTFDPITKGHGDLIERASRLFDHVIIAVAASPKKNPLFSLEQRVALAQEVTKHLPNVEVVGFSTLLAHFVKEQKANVFLRGLRAVSDFEYEFQLANMNRQLAPDVESMFLTPSEKYSFISSTLVREIAALGGDISKFVHPAVADALAERFK 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150        


Chain F from PDB  Type:PROTEIN  Length:158
                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhhh....eeeeee..hhhhhhhhh...eeeee..hhhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhhh........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ruk F   1 MNRVLYPGTFDPITKGHGDLIERASRLFDHVIIAVAASPKKNPLFSLEQRVALAQEVTKHLPNVEVVGFSTLLAHFVKEQKANVFLRGLRAVSDFEYEFQLANMNRQLAPDVESMFLTPSEKYSFISSTLVREIAALGGDISKFVHPAVADALAERFK 158
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   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 4RUK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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

UniProtKB/TrEMBL
        A0A0X1KGP2_P | A0A0X1KGP2: 3x1j 3x1k 3x1m

(-) Related Entries Specified in the PDB File

3x1j 3x1k 3x1m