7DW7 | pdb_00007dw7

Crystal Structure of N1051A mutant of Formylglycinamidine Synthetase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 
    0.163 (Depositor), 0.164 (DCC) 
  • R-Value Work: 
    0.133 (Depositor), 0.135 (DCC) 
  • R-Value Observed: 
    0.135 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7DW7

Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Mechanism of Coordinated Gating and Signal Transduction in Purine Biosynthetic Enzyme Formylglycinamidine Synthetase.

Sharma, N.Singh, S.Tanwar, A.S.Mondal, J.Anand, R.

(2022) ACS Catal 12: 1930-1944

Macromolecule Content 

  • Total Structure Weight: 148.49 kDa 
  • Atom Count: 11,709 
  • Modeled Residue Count: 1,290 
  • Deposited Residue Count: 1,304 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Phosphoribosylformylglycinamidine synthase1,304Salmonella enterica subsp. enterica serovar TyphimuriumMutation(s): 1 
Gene Names: 
purLpurGpurISBOV26371A2O69_17590A3104_16255A3111_08100A3122_18440A3146_22385A3R41_17625A3S30_13250A3T21_10505A3T81_16595A3U32_08475A3V03_16720A3V89_16515A3W57_16230A3W75_20755A3W86_18500A3X15_15670A3X55_14035A3Y76_05480A3Z96_12825A4J27_15875A4N07_15655A4O05_06975A4O41_14450A4R48_16020A6D61_24255A9C21_04580A9T39_19375A9U46_14690A9U64_15215A9U69_19055AAA76_16570AAB27_11330AAB39_12415AAC08_06585AAC35_16200AAC42_09705AAC44_12025AAC95_16560AAC98_09945AAP89_12795AAQ24_07270AB424_15930ABO94_11255ABP11_16550ABP87_05665ABQ69_09980ADQ28_03390ADQ45_16805AE787_16995AF480_17925AF488_17545AF489_22720AF497_12625AGC55_16995AGM99_18200AGQ32_23665AHN93_16575AIC76_18365AKH62_12480AKH68_16995AKI16_18240APP08_23575APY91_18855AQ530_23875AS118_03895AT354_18810AU613_11785AU805_16475AU830_15095AU839_06730AU951_18320AU965_11910AVA38_20870AVB77_16640AVB94_15795AVC05_06750AVC09_10410AVD08_16510AVD75_14010AVD94_20515AVG17_14605AVL02_16280AVL16_17615AVM19_18735AWT30_17030AXM10_19555AXM23_16430AXR84_14985AXU58_19905AXX99_12450B1265_16065B1398_09135B1642_18315B1B86_19260B1B89_17620B1I91_12415B1P38_17380B1Q82_11795B2E31_23025B4V59_22480B4W90_16890B5A40_18360B6362_16405B6G98_15375B6M25_19030B6M43_17840B7071_16295B7890_22540B7J30_12935B7Q27_17855B8Y16_17215B8Y36_15580B8Z46_18075B9653_12045B9C61_15035B9C90_12665B9C91_18265B9C96_16400B9M14_15595B9O84_21470B9U29_19195BBQ66_17520BEL47_16170BGP52_19030BIC00_17045BIC01_21680BIC03_14975BIC13_15755BK110_19395BKM50_19320BLB03_17550BMG85_17290BMS46_22775BMU56_15580BSC80_19775BSD55_20250BZ210_16255BZG47_23445BZN20_18305BZZ88_07515C4E88_18085C5U54_19795C5W43_24185CA117_20565CB102_10010CB161_13345CB198_03930CB380_20190CB383_17555CB416_16065CB530_14865CB570_16700CB657_14195CBH20_18495CBM40_19115CBM67_16805CBM76_15200CBN77_13885CBO42_16770CBR08_14850CBU32_18440CBZ90_15660CC339_07915CC403_09750CC453_10200CC594_05605CC725_15135CC886_22240CC918_14765CC944_11990CC971_14385CCF93_17950CCP17_15995CCW27_15290CD48_18635CD977_22430CDJ75_17175CDQ60_19245CDT37_15180CDZ72_05835CE355_18340CE615_21850CE70_16235CE806_13055CE87_17250CE896_15210CEC46_16085CEC56_16535CED07_14385CEQ70_20455CER78_17685CET98_19110CEY64_22365CFB16_18015CFB28_23180CFE76_17880CFE79_20830CFF58_22075CFF59_18880CFJ48_18365CGG73_23390CHN22_16310CI444_19665CIX60_17685CJC42_21375CPR79_10095CPS79_05985CPX68_12615CQE35_19945CQG18_10955CQO33_17440CR370_21095CRB02_18825CSG22_24365CVR97_20395D3147_13305D3174_00215D3F31_09610D3T68_00215D3Y48_16720D4361_16195D4369_16945D4380_16750D4387_12680D4422_14070D4E62_19290D4E68_15700D4E74_19230D4X64_15550D4X79_12920D4Y62_15155D5B48_15160D5C67_17315D5C71_22405D5N86_16030D5N95_16325D5O82_17300D5P17_17865D5X47_16715D5Y28_19380D6360_16405D6367_17265D6371_16345D6373_22570D6395_11705D6421_22605D6422_16430D6J79_18305D6K10_17770D6P67_13400D6Q64_21125D6S43_16890D6T00_15860D6T40_17645D7F20_16615D7H43_17315D7N92_13955D7O44_22815D8Q90_17775D8S24_17865D8W49_04685D9O84_21005DD95_10355DJ388_18875DJ702_22460DK061_12960DK631_18935DK641_17945DK642_10080DK696_12090DK698_13835DKJ10_17715DKR95_18750DKS55_12840DKU45_22760DKU57_15990DKU80_15995DLB14_15700DLB57_14330DLB93_18200DLR28_17285DM322_04295DMI89_21350DMO92_16580DMV40_15670DMZ93_06125DN165_15860DN204_22790DN359_20260DNB97_23660DNL62_16070DNM27_16110DNM63_13000DNU59_13690DNV08_16715DNV12_14075DNV30_16170DNY92_11520DNZ37_16820DO350_18375DO533_21640DO585_16520DO640_15275DO698_10865DO828_21380DO960_10500DOC60_16595DOH72_16180DOI32_14020DOI53_16615DOI92_14625DOJ91_18820DOQ54_15255DOR12_17610DOV43_10980DOW25_17835DP680_16650DPB45_15245DPB48_16730DPD91_10520DPD95_18900DPF41_23405DPF68_12070DPK32_15240DPL02_16870DPP94_22595DPP97_17500DPS76_15800DPT18_17685DPU20_15725DPY58_12185DQ848_14480DQ947_17390DQ951_15690DQC39_22590DQC52_17305DQD03_12855DQD22_16910DQE64_16525DQK42_18425DQQ98_13840DQR10_14065DQR44_14895DQR61_12035DQS14_13865DQY10_15940DQZ46_13200DQZ56_19790DR982_09385DRL45_16095DRM14_16020DRM16_17910DRR75_18130DRT38_15885DRT61_05315DRT65_21530DRV05_15600DRW84_15215DRX66_14380DS270_13885DS296_07805DS451_12890DS453_15970DS521_15840DS619_15480DSF69_22175DSG41_12910DSM38_15480DSN15_14920DSR36_14390DTE73_15610DTF68_15005DTG22_22705DTG27_17970DTW13_23245DTW14_22955DTW26_16940DU223_15055DU657_22005DU821_16535DU879_15365DU924_17705DUQ28_16005DUQ56_15100DUQ92_16380DUR36_15970DUW10_21475DUW48_14350DVF14_12155DVF88_12770DVG01_17470DVZ53_14695DWU22_12665DY580_08165DYM27_04335DYS82_09835DZG11_13480E0584_18030E0595_22890E0935_17655E0989_17815E0M34_12385E0U75_17105E0V94_14440E1336_04465E1A11_17470E5196_14165E6W45_13110EBB93_14240EBC01_15760EBD14_12425EBD99_16685EBK21_17215EBO41_14340EBP31_15665EC404_21070EC52_23920ECA50_13625ECC89_16040ED424_14225ED467_23130EDL18_17295EEK73_22610EEQ30_09285EER35_13770EGL32_13655EGN81_13750EGU67_22080EHB09_12375EHB24_14185EHB55_15660EHC98_16430EIE48_15360EIW53_12810EJI18_17070EJO08_22055EJO98_11125EK393_22360EKA25_10550EL822_14930ELO47_17135ELR28_12385ELS01_18800EM832_22405EM840_18120EMN66_21115EMY79_13250EO190_15105EP115_15065EP446_07850EPB17_11595EPB30_16500EPH81_14945E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93_17965G1O94_17960G1O96_17965G1P02_17955G1P03_18755G1P06_16915G1P09_17845G1P10_17910G1P12_17975G1P14_15635G1P15_19150G1P17_17975G1P19_17965G1P23_17970G1P24_17165G1P25_15050G1P26_17165G1P29_18740G1P31_17955G1P35_17890G1P36_17890G1P37_18015G1P40_17240G1P44_17840G1P45_17970G1P47_17685G1P48_19430G1P51_17970G1P52_18685G1P53_19390G1P54_17980G1P55_17155G1P56_17945G1P57_17695G1P58_17960G1P59_17970G1P64_17660G1P67_17240G1P69_17880G1P72_14400G1P75_17215G1P76_17555G1P78_13820G1P83_13580G1P84_17905G1P87_17965G1P90_17045G1P91_17970G1Q03_17525G1Q08_17075G1Q67_17970G1Q78_16010G1Q81_17450G1Q83_18390G1Q84_14285G1Q85_17105G1Q86_17085G1Q88_16150G1Q90_16655G1Q91_16900G1Q93_15495G1Q96_16875G1Q98_18110G1Q99_12625G1R01_18815G1R02_17895G1R03_17250G1R04_17905G1R08_15675G1R13_16405G1R15_15300G1R20_17965G1R21_16685G1R22_17645G1R23_15440G1R27_17165G1R28_17410G1R29_17935G1R30_17680G1R31_17455G1R36_18900G1R38_16355G1R40_17505G1R42_17435G1R44_17875G1R45_15585G1R47_17190G1R48_15145G1R51_17600G1R53_18915G1R63_17250G1R69_15265G1R87_18105G1R93_17570G1S02_17685G2203_19045G2212_23015G2221_20715G2290_18240G2793_05005G2918_17360G2951_12730G3221_002539G3230_004711G3231_003399G3247_001153G3248_002318G3263_003677G3270_002665G3275_003000G3312_003677G3336_002551G3357_004077G3369_002193G3433_004016G3460_003578G3464_002237G3593_003287G3A35_12475G3V06_003047G3V14_004572G3V17_003219G3V21_002487G3V56_002951G3V57_002465G3X03_002888G4189_002987G4190_002834G4192_003070G4198_003184G4201_004064G4202_003684G4A01_001873G4A83_001144G4A85_003523G4A87_003005G4B68_001939G4B72_004037G4B74_003265G4C74_002568G4D32_003975G4D46_004522G4F88_17560G4F89_06480G4F91_06140G4F92_17885G4G47_003503G4G67_004065G4G76_004374G4G79_003639G4G97_002925G4H00_003595G4H04_001581G4H07_002134G4H18_002025G4H21_003081G4H24_003251G4H63_003364G4I66_004155G4J07_001295G4J08_002243G4J11_004388G4J12_003047G4J18_003345G4J20_003779G4J37_003529G4J39_002444G4J41_002216G4J45_002224G4J90_003426G4K02_002931G4K03_002599G4O54_003128G4O56_004528G4O59_003109G4O60_003053G4O67_002513G4O69_003565G4P29_000798G4P83_003070G4P85_003673G4P89_002793G4P91_002816G4P93_002597G4Q12_003014G4Q28_003001G4Q31_002849G4Q50_004508G4Q52_004513G4Q59_004218G4Q60_003511G4Q63_003524G4Q67_001888G4Q94_002311G4R01_003619G4R02_003357G4R15_002505G4R16_003357G4W68_002673G4W73_002483G4W86_002772G4W87_002949G4W88_002865G4W91_002511G4Y10_003876G9269_003467G9302_003673G9304_000307G9305_002340G9309_002355G9313_003565G9314_002114G9367_002807G9381_003315G9C24_003936G9C41_003034G9C46_002657G9C47_002824G9C49_003056G9C57_003121G9C64_003392G9G03_003115G9G04_004436G9G34_001299G9G36_002242G9G45_004187G9G50_003971G9G62_004015G9W19_003595G9W28_003278G9W45_001759G9W52_004053G9W63_001109G9W65_002860G9W79_002993G9W95_002500G9W96_002284G9X40_002807GB021_20110GB040_16750GB076_19145GB106_16720GB114_16180GB120_17000GB122_17625GB139_16595GB171_15860GB209_18280GB221_13340GB238_22725GB280_17250GB321_17045GB339_22590GB342_15250GB368_17555GB372_06965GB416_12485GB466_17340GB505_16710GB551_18050GB645_12160GBS58_16595GBV60_15725GBW03_10105GBW44_23190GBW52_16705GBW76_17665GBX20_22555GBX55_19675GBX64_15000GBY13_19075GBY23_22360GBY73_14720GBZ51_13310GBZ55_11915GCH31_16560GCQ81_13150GCZ80_19785GEZ01_16345GJE27_14165GJE28_16750GNA88_003122GNA97_003638GNA99_003153GNB28_001815GNB36_003103GNC11_002490GNC19_002264GNC45_002507GNC75_004447GNC95_003325GT380_11610GTH60_11150GTH62_08275GTH63_18120GTH66_18355GTH67_14680GTH68_20185GTH70_12185GTH72_06540GTH73_18325GTH75_18055GTH77_11480GTH78_18600GTH79_14125GTH81_13165GTH85_19560GTH87_17070GTH89_14100GTH90_17205GTH91_08565GTH93_13715GTH94_16375GTH99_13285GW08_19075GXC51_18910GXC56_18820GXG40_18645GYI58_12415GYI62_003216GYI77_17315GYJ04_22330GYJ24_11935GYJ27_22795GYJ28_003850GYJ30_17030GYJ32_19920GYJ53_17975GYJ59_14090GYJ60_17230JO10_19640KP44_18705LZ63_24355NG02_08255NG06_08915NG18_12260NU83_23750QA89_22595QD15_16490R035_16120RJ78_17460SAMEA4398682_01330SE14_02783Y934_16920YG50_22985YR17_11195Z700_14825ZB89_15590ZC54_12160ZT09_13285ZT28_16520ZT74_14230ZT89_14865ZU86_13885ZU92_14585ZV06_09880ZV33_13900ZV34_12770ZV38_18010ZV58_08705ZV70_14590ZV78_14095ZW74_12645ZX03_12360ZX26_16475ZY23_15400ZY27_16350ZY40_07130ZY51_04455ZZ18_14120ZZ43_10415ZZ77_11510ZZ79_09255

EC: 6.3.5.3
UniProt
Find proteins for P74881 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
Explore P74881 
Go to UniProtKB:  P74881
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP74881
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ADP

Query on ADP



Download:Ideal Coordinates CCD File
B [auth A]ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
SO4

Query on SO4



Download:Ideal Coordinates CCD File
AB [auth A]
BB [auth A]
CB [auth A]
DB [auth A]
EB [auth A]
AB [auth A],
BB [auth A],
CB [auth A],
DB [auth A],
EB [auth A],
FB [auth A],
GB [auth A],
HB [auth A],
IB [auth A],
QA [auth A],
RA [auth A],
SA [auth A],
TA [auth A],
UA [auth A],
VA [auth A],
WA [auth A],
XA [auth A],
YA [auth A],
ZA [auth A]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL

Query on GOL



Download:Ideal Coordinates CCD File
AA [auth A]
BA [auth A]
C [auth A]
CA [auth A]
D [auth A]
AA [auth A],
BA [auth A],
C [auth A],
CA [auth A],
D [auth A],
DA [auth A],
E [auth A],
EA [auth A],
F [auth A],
FA [auth A],
G [auth A],
GA [auth A],
H [auth A],
HA [auth A],
I [auth A],
IA [auth A],
J [auth A],
JA [auth A],
K [auth A],
KA [auth A],
L [auth A],
LA [auth A],
M [auth A],
MA [auth A],
N [auth A],
NA [auth A],
O [auth A],
OA [auth A],
P [auth A],
PA [auth A],
Q [auth A],
R [auth A],
S [auth A],
T [auth A],
U [auth A],
V [auth A],
W [auth A],
X [auth A],
Y [auth A],
Z [auth A]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG

Query on MG



Download:Ideal Coordinates CCD File
JB [auth A],
KB [auth A],
LB [auth A]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free:  0.163 (Depositor), 0.164 (DCC) 
  • R-Value Work:  0.133 (Depositor), 0.135 (DCC) 
  • R-Value Observed: 0.135 (Depositor) 
Space Group: P 65
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 146.626α = 90
b = 146.626β = 90
c = 141.022γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Science & Technology (DST, India)IndiaDST/INT/SOUTH AFRICA/P-04/2014

Revision History  (Full details and data files)

  • Version 1.0: 2022-01-19
    Type: Initial release
  • Version 1.1: 2022-03-02
    Changes: Database references
  • Version 1.2: 2023-11-29
    Changes: Data collection, Refinement description