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(-) Description

Title :  IMPORTANCE OF HYDROPHOBIC CAVITIES IN ALLOSTERIC REGULATION OF FORMYLGLYCINAMIDE SYNTHETASE: INSIGHT FROM XENON TRAPPING AND STATISTICAL COUPLING ANALYSIS
 
Authors :  A. S. Tanwar, V. D. Goyal, D. Choudhary, S. Panjikar, R. Anand
Date :  30 Jun 13  (Deposition) - 11 Dec 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.48
Chains :  Asym./Biol. Unit :  A
Keywords :  Amido Transferase, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. S. Tanwar, V. D. Goyal, D. Choudhary, S. Panjikar, R. Anand
Importance Of Hydrophobic Cavities In Allosteric Regulation Of Formylglycinamide Synthetase: Insight From Xenon Trappin And Statistical Coupling Analysis
Plos One V. 8 77781 2013
PubMed-ID: 24223728  |  Reference-DOI: 10.1371/JOURNAL.PONE.0077781

(-) Compounds

Molecule 1 - PHOSPHORIBOSYLFORMYLGLYCINAMIDINE SYNTHASE
    Chains: A
    EC Number: 6.3.5.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: SALMONELLA TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2 / SGSC1412 / ATCC 700720
    Synonym: FGAM SYNTHASE, FGAMS, FORMYLGLYCINAMIDE RIBOTIDE AMIDOTRANSFERASE, FGARAT, FORMYLGLYCINAMIDE RIBOTIDE SYNTHETASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 41)

Asymmetric/Biological Unit (7, 41)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
3CL6Ligand/IonCHLORIDE ION
4CYG1Mod. Amino Acid2-AMINO-4-(AMINO-3-OXO-PROPYLSULFANYLCARBONYL)-BUTYRICACID
5GOL4Ligand/IonGLYCEROL
6MG7Ligand/IonMAGNESIUM ION
7SO419Ligand/IonSULFATE ION

(-) Sites  (40, 40)

Asymmetric Unit (40, 40)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:333 , THR A:386 , GLY A:387 , TYR A:388 , PHE A:389 , LYS A:649 , LEU A:652 , VAL A:653 , GLN A:668 , PRO A:676 , ALA A:678 , ASP A:679 , GLU A:718 , ASN A:722 , SER A:886 , MG A:1302 , MG A:1303 , MG A:1304 , HOH A:1404 , HOH A:1420 , HOH A:1428 , HOH A:1430 , HOH A:1488 , HOH A:1567 , HOH A:1568 , HOH A:1742 , HOH A:1751 , HOH A:2421 , HOH A:2423 , HOH A:2424 , HOH A:2425 , HOH A:2426 , HOH A:2427BINDING SITE FOR RESIDUE ADP A 1301
02AC2SOFTWAREASP A:679 , ASN A:722 , ASP A:884 , ADP A:1301 , HOH A:2423 , HOH A:2425BINDING SITE FOR RESIDUE MG A 1302
03AC3SOFTWAREGLU A:718 , ADP A:1301 , HOH A:1420 , HOH A:2422 , HOH A:2424 , HOH A:2427BINDING SITE FOR RESIDUE MG A 1303
04AC4SOFTWAREADP A:1301 , HOH A:1404 , HOH A:1428 , HOH A:2421 , HOH A:2426BINDING SITE FOR RESIDUE MG A 1304
05AC5SOFTWAREHIS A:216 , GLY A:504 , ALA A:505 , LYS A:776 , HOH A:2093BINDING SITE FOR RESIDUE SO4 A 1305
06AC6SOFTWAREHIS A:216 , THR A:295 , HIS A:296 , ASN A:297 , HIS A:298 , SER A:778 , HOH A:1692 , HOH A:1817 , HOH A:2004 , HOH A:2786 , HOH A:2821BINDING SITE FOR RESIDUE SO4 A 1306
07AC7SOFTWARETYR A:690 , ARG A:812 , LYS A:1228 , VAL A:1229 , HOH A:1553 , HOH A:1813 , HOH A:1962 , HOH A:2338 , HOH A:2829BINDING SITE FOR RESIDUE SO4 A 1307
08AC8SOFTWAREPRO A:356 , GLU A:357 , ARG A:358 , HOH A:2057 , HOH A:2091 , HOH A:2140BINDING SITE FOR RESIDUE SO4 A 1308
09AC9SOFTWAREPRO A:1040 , LYS A:1041 , HIS A:1086 , HOH A:1635 , HOH A:2067 , HOH A:2431 , HOH A:2508 , HOH A:2550BINDING SITE FOR RESIDUE SO4 A 1309
10BC1SOFTWARELYS A:833 , HIS A:835 , ARG A:858 , HOH A:1865 , HOH A:2165 , HOH A:2525BINDING SITE FOR RESIDUE SO4 A 1310
11BC2SOFTWARETRP A:305 , ARG A:1159 , ARG A:1164 , HOH A:1460 , HOH A:1505 , HOH A:2500 , HOH A:2546 , HOH A:2561 , HOH A:2580 , HOH A:2685BINDING SITE FOR RESIDUE SO4 A 1311
12BC3SOFTWAREHIS A:1086 , ARG A:1126 , PRO A:1127 , GLN A:1128 , THR A:1129 , HOH A:1709 , HOH A:2460 , HOH A:2537 , HOH A:2565 , HOH A:2951BINDING SITE FOR RESIDUE SO4 A 1312
13BC4SOFTWAREGLN A:1176 , GLY A:1184 , MET A:1185 , VAL A:1186 , HOH A:1703 , HOH A:1839 , HOH A:2554 , HOH A:2610 , HOH A:2706BINDING SITE FOR RESIDUE SO4 A 1313
14BC5SOFTWAREALA A:911 , HIS A:953 , HOH A:1608 , HOH A:1646 , HOH A:1672BINDING SITE FOR RESIDUE SO4 A 1314
15BC6SOFTWAREGLN A:767 , ASP A:859 , VAL A:860 , ALA A:861 , HOH A:1969BINDING SITE FOR RESIDUE SO4 A 1315
16BC7SOFTWAREGLN A:54 , PHE A:1112 , HIS A:1114 , HOH A:1859 , HOH A:1864 , HOH A:2215 , HOH A:2699BINDING SITE FOR RESIDUE SO4 A 1316
17BC8SOFTWARELYS A:196 , ASN A:1113 , ARG A:1115 , HOH A:1769BINDING SITE FOR RESIDUE SO4 A 1317
18BC9SOFTWAREASN A:1251 , ARG A:1253 , HOH A:2255 , HOH A:2418 , HOH A:2552BINDING SITE FOR RESIDUE SO4 A 1318
19CC1SOFTWARESER A:12 , ALA A:13 , PHE A:14 , ASN A:998 , HIS A:1161 , HOH A:1759 , HOH A:2430BINDING SITE FOR RESIDUE SO4 A 1319
20CC2SOFTWARETHR A:632 , ILE A:633 , HOH A:1648 , HOH A:1716 , HOH A:2301 , HOH A:2398BINDING SITE FOR RESIDUE SO4 A 1320
21CC3SOFTWAREHIS A:68 , THR A:69 , HOH A:2680BINDING SITE FOR RESIDUE SO4 A 1321
22CC4SOFTWARESER A:-1 , ARG A:-3 , GLY A:-2 , HIS A:152 , HOH A:2548 , HOH A:2599BINDING SITE FOR RESIDUE SO4 A 1322
23CC5SOFTWAREGLY A:913 , ASP A:914 , ASP A:915 , HOH A:1700 , HOH A:2109BINDING SITE FOR RESIDUE SO4 A 1323
24CC6SOFTWAREVAL A:432 , THR A:581 , GLU A:582 , GLU A:583 , HOH A:2606 , HOH A:2677BINDING SITE FOR RESIDUE ACT A 1324
25CC7SOFTWAREARG A:108 , HOH A:1669 , HOH A:2175 , HOH A:2709 , HOH A:2743 , HOH A:2815BINDING SITE FOR RESIDUE ACT A 1325
26CC8SOFTWARETHR A:247 , LYS A:638 , TRP A:984 , HOH A:1804 , HOH A:2160 , HOH A:2324 , HOH A:2636 , HOH A:2710BINDING SITE FOR RESIDUE ACT A 1326
27CC9SOFTWARESER A:689 , TYR A:691 , VAL A:1229 , THR A:1230 , GLU A:1231 , MG A:1338 , HOH A:1825 , HOH A:2055 , HOH A:2259BINDING SITE FOR RESIDUE GOL A 1327
28DC1SOFTWAREHIS A:902 , CYS A:903 , GLY A:961 , ARG A:978 , ASP A:1012 , HOH A:1618 , HOH A:1722 , HOH A:2832BINDING SITE FOR RESIDUE GOL A 1328
29DC2SOFTWAREGLU A:264 , ALA A:267 , PRO A:286 , ASP A:1003 , GLN A:1004 , GLU A:1007 , HOH A:1846 , HOH A:2019 , HOH A:2045 , HOH A:2382 , HOH A:2538 , HOH A:2808BINDING SITE FOR RESIDUE GOL A 1329
30DC3SOFTWAREILE A:84 , SER A:85 , PRO A:86 , MET A:136 , ARG A:472 , HOH A:1660 , HOH A:1786 , HOH A:1871 , HOH A:2088BINDING SITE FOR RESIDUE GOL A 1330
31DC4SOFTWAREGLN A:52 , ALA A:53 , HOH A:2263 , HOH A:2963BINDING SITE FOR RESIDUE CL A 1331
32DC5SOFTWAREGLU A:1173 , VAL A:1174 , HOH A:2778BINDING SITE FOR RESIDUE CL A 1332
33DC6SOFTWARETRP A:1272 , HIS A:1273 , HOH A:1638BINDING SITE FOR RESIDUE CL A 1333
34DC7SOFTWAREALA A:1102 , ASN A:1143 , PHE A:1157 , HOH A:1594BINDING SITE FOR RESIDUE CL A 1334
35DC8SOFTWAREPHE A:1124 , ASN A:1251 , ARG A:1253 , HOH A:1756BINDING SITE FOR RESIDUE CL A 1335
36DC9SOFTWAREALA A:384 , LEU A:652 , HOH A:1455 , HOH A:1530BINDING SITE FOR RESIDUE CL A 1336
37EC1SOFTWAREPHE A:1169 , HOH A:1470 , HOH A:2998 , HOH A:3007BINDING SITE FOR RESIDUE MG A 1337
38EC2SOFTWAREALA A:267 , GLU A:1231 , THR A:1232 , GOL A:1327 , HOH A:2055BINDING SITE FOR RESIDUE MG A 1338
39EC3SOFTWAREPHE A:1112 , ASN A:1113 , HOH A:1632 , HOH A:2204BINDING SITE FOR RESIDUE MG A 1339
40EC4SOFTWAREGLN A:727 , HIS A:813 , ALA A:875 , PHE A:1226 , HOH A:1990BINDING SITE FOR RESIDUE MG A 1340

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:1233 -Pro A:1234

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LGY)

(-) 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:1288
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eeeeeeeeee..hhhhhhhhhhhhhhh.....eeeeeeeeeeee....hhhhhhhhhhhh.............eeeeeee.....hhhhhhhhhhhhhh....eeeeeeeeeeeee....hhhhhhhhhhhh.....eeee.hhhhhhhhhh..........hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhheeee..ee...hhhhhhhhhhhhh...eee......eeeeeeeeeeeee......eeeeeeeeeeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeee.......................hhhhhhhhhhhhhhhhhhhhh..eeeeeeee.eeeeee..eeeeee....eeeeeeeeeehhhhh.........eeeeee........hhhhh...hhhhhhhhhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhh..eeeee.hhh.......hhhhhhhh....eeeeeehhhhhhhhhhhhhhhh..eeeeeeee...eeeeee....eeeeeeehhhhh......eeee...............hhhhhhhhhhh......hhhhhh.........eee..ee....ee....eeee.......eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh.....hhhh.eeeeeee......hhhhhhhhhhhhhhhhhhhhhh.eeeeeeee...eeeee....eeeee...eeeeeeeeee.hhhhh.........eeeeeee..........hhhhhhh...........hhhhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhhhhh.eeeee.hhhh.hhhhhhhh...eeeeeee..hhhhhhhhhhhhhhhh.eeeeeeee...eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhh.....eeeeee.....hhhhhhhhhhhh..eeeeeehhhhhh...hhhhh.eeee...hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhh.......eee.......eeeeeeeee....hhhhh.....eeeeeeee...eee..hhhhhhhhhhhh.eeeee.................hhh.eeeee.....eeee..hhhhh.hhhhh............hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4lgy A   -9 GDGLVPRGSHMMEILRGSPALSAFRINKLLARFQAANLQVHNIYAEYVHFADLNAPLNDSEQAQLTRLLQYGPALSSHTPAGKLLLVTPRPGTISPWSSKATDIAHNCGLQQVDRLERGVAYYIEASTLTAEQWRQVAAELHDRMMETVFSSLTDAEKLFIHHQPAPVSSVDLLGEGRQALIDANLRLGLALAEDEIDYLQEAFTKLGRNPNDIELYMWAQANSEHCRHKIFNADWIIDGKPQPKSLFKMIKNTFETTPDYVLSAYKDNAAVMEGSAVGRYFADHNTGRYDFHQEPAHILMKVETHNHPTAISPWPGAATGSGGEIRDEGATGRGAKPKAGLVGFSVSNLRIPGFEQPWEEDFGKPERIVTALDIMTEGPLGGAAFNNEFGRPALTGYFRTYEEKVNSHNGEELRGYHKPIMLAGGIGNIRADHVQKGEIVVGAKLIVLGGPAMNIGLDFASVQRDNPEMERRCQEVIDRCWQLGDANPILFIHDVGAGGLSNAMPELVSDGGRGGKFELRDILSDEPGMSPLEIWCNESQERYVLAVAADQLPLFDELCKRERAPYAVIGDATEEQHLSLHDNHFDNQPIDLPLDVLLGKTPKMTRDVQTLKAKGDALNRADITIADAVKRVLHLPTVAEKTFLVTIGDRTVTGMVARDQMVGPWQVPVADCAVTTASLDSYYGEAMSIGERAPVALLDFAASARLAVGEALTNIAATQIGDIKRIKLSANWMAAAGHPGEDAGLYDAVKAVGEELCPQLGLTIPVGKDSMSMKTRWQEGNEQREMTSPLSLVISAFARVEDVRHTLTPQLSTEDNALLLIDLGKGHNALGATALAQVYRQLGDKPADVRDVAQLKGFYDAMQALVAARKLLAWHDRSDGGLLVTLAEMAFAGHCGVQVDIAALGDDHLAALFNEELGGVIQVRAEDRDAVEALLAQYGLADCVHYLGQALAGDRFVITANDQTVFSESRTTLRVWWAETTWQMQRLRDNPQCADQEHEAKANDTDPGLNVKLSFDINEDIAAPYIATGARPKVAVLREQGVNSHVEMAAAFHRAGFDAIDVHMSDLLGGRIGLGNFHALVACGGFSYGDVLGAGEGWAKSILFNHRVRDEFETFFHRPQTLALGVcNGCQMMSNLRELIPGSELWPRFVRNHSDRFEARFSLVEVTQSPSLLLQGMVGSQMPIAVSHGEGRVEVRDDAHLAALESKGLVALRYVDNFGKVTETYPANPNGSPNGITAVTTENGRVTIMMPHPERVFRTVANSWHPENWGEDSPWMRIFRNARKQLG 1295
                                     0        10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007      1017      1027      1037      1047      1057      1067      1077      1087      1097      1107      1117      1127      1137      1147      1157      1167      1177      1187      1197      1207      1217      1227      1237      1247      1257      1267      1277      1287        
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   448|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         1135-CYG                                                                                                                                                            
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    466
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  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 4LGY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

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    Tyr A:1233 - Pro A:1234   [ RasMol ]  
 

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 Related Entries

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        PUR4_SALTY | P74881: 1t3t 3ugj 3ujn 3umm 4l78 4mgh 4r7g

(-) Related Entries Specified in the PDB File

1t3t 3umm 4l78 4mgh