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9tam

E. coli Complex I D79N NuoA mutant purified in LMNG

Method: ELECTRON MICROSCOPY D_max: 220.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9tam
deposition_date	2025-11-18
title	E. coli Complex I D79N NuoA mutant purified in LMNG
keywords	PROTON TRANSPORT, bioenergetics; PROTON TRANSPORT
method	ELECTRON MICROSCOPY

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	77.49 Å
rg_electron	78.89 Å
i0	3556610000.00
molecular_weight	538070.0 kDa
excluded_volume	685880 Å³
envelope_volume	966110 Å³
shell_volume	108240 Å³
envelope_diameter	277.8 Å
shell_rg	68.09 Å
envelope_rg	78.17 Å
shape_rg	78.93 Å
total_rg	78.61 Å
total_atoms	37748
n_residues	4717
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	220.9 Å
rg_real	75.51 Å
rg_real_error	1.50 Å
i0_real	3.4980e+09
i0_real_error	6.7940e+07
rg_reciprocal	74.03 Å
i0_reciprocal	3524000000.0000
total_estimate	0.7926
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	55.2 Å
skewness	0.435
kurtosis	-0.789
angular_range	— – 0.1000 Å⁻¹
current_alpha	0.0814
highest_alpha	85510000.0000
n_real_points	21
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.765; Stabil: 0.983; Sysdev: 1.000; Positv: 1.000; Valcen: 0.845; Smooth: 0.009

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4. Crystallography & Experiment

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5. Entities & Polymer Info (21)

Entity 1 polymer

description	NADH-quinone oxidoreductase subunit C/D
formula_weight	68780.5 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C
atom_count	38164

MVNNMTDLTAQEPAWQTRDHLDDPVIGELRNRFGPDAFTVQATRTGVPVVWIKREQLLEVGDFLKKLPKPYVMLFDLHGMDERLRTHREGLPAADFSVFYHLISIDRNRDIMLKVALAENDLHVPTFTKLFPNANWYERETWDLFGITFDGHPNLRRIMMPQTWKGHPLRKDYPARATEFSPFELTKAKQDLEMEALTFKPEEWGMKRGTENEDFMFLNLGPNHPSAHGAFRIVLQLDGEEIVDCVPDIGYHHRGAEKMGERQSWHSYIPYTDRIEYLGGCVNEMPYVLAVEKLAGITVPDRVNVIRVMLSELFRINSHLLYISTFIQDVGAMTPVFFAFTDRQKIYDLVEAITGFRMHPAWFRIGGVAHDLPRGWDRLLREFLDWMPKRLASYEKAALQNTILKGRSQGVAAYGAKEALEWGTTGAGLRATGIDFDVRKARPYSGYENFDFEIPVGGGVSDCYTRVMLKVEELRQSLRILEQCLNNMPEGPFKADHPLTTPPPKERTLQHIETLITHFLQVSWGPVMPANESFQMIEATKGINSYYLTSDGSTMSYRTRVRTPSFAHLQQIPAAIRGSLVSDLIVYLGSIDFVMSDVDR

Source

organism	Escherichia coli BL21(DE3)
ncbi_taxonomy_id	469008
host_organism	Escherichia coli BL21(DE3)

Entity 2 polymer

description	NADH-quinone oxidoreductase subunit E
formula_weight	18614.0 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

MHENQQPQTEAFELSAAEREAIEHEMHHYEDPRAASIEALKIVQKQRGWVPDGAIHAIADVLGIPASDVEGVATFYSQIFRQPVGRHVIRYCDSVVCHINGYQGIQAALEKKLNIKPGQTTFDGRFTLLPTCCLGNCDKGPNMMIDEDTHAHLTPEAIPELLERYK

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 3 polymer

description	NADH-quinone oxidoreductase subunit F
formula_weight	51208.4 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	F

MRGSHHHHHHTDPALRAKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 4 polymer

description	NADH-quinone oxidoreductase subunit G
formula_weight	100663.6 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	G

MLMATIHVDGKEYEVNGADNLLEACLSLGLDIPYFCWHPALGSVGACRQCAVKQYQNAEDTRGRLVMSCMTPASDGTFISIDDEEAKQFRESVVEWLMTNHPHDCPVCEEGGNCHLQDMTVMTGHSFRRYRFTKRTHRNQDLGPFISHEMNRCIACYRCVRYYKDYADGTDLGVYGAHDNVYFGRPEDGTLESEFSGNLVEICPTGVFTDKTHSERYNRKWDMQFAPSICQQCSIGCNISPGERYGELRRIENRYNGTVNHYFLCDRGRFGYGYVNLKDRPRQPVQRRGDDFITLNAEQAMQGAADILRQSKKVIGIGSPRASVESNFALRELVGEENFYTGIAHGEQERLQLALKVLREGGIYTPALREIESYDAVLVLGEDVTQTGARVALAVRQAVKGKAREMAAAQKVADWQIAAILNIGQRAKHPLFVTNVDDTRLDDIAAWTYRAPVEDQARLGFAIAHALDNSAPAVDGIEPELQSKIDVIVQALAGAKKPLIISGTNAGSLEVIQAAANVAKALKGRGADVGITMIARSVNSMGLGIMGGGSLEEALTELETGRADAVVVLENDLHRHASAIRVNAALAKAPLVMVVDHQRTAIMENAHLVLSAASFAESDGTVINNEGRAQRFFQVYDPAYYDSKTVMLESWRWLHSLHSTLLSREVDWTQLDHVIDAVVAKIPELAGIKDAAPDATFRIRGQKLAREPHRYSGRTAMRANISVHEPRQPQDIDTMFTFSMEGNNQPTAHRSQVPFAWAPGWNSPQAWNKFQDEVGGKLRFGDPGVRLFETSENGLDYFTSVPARFQPQDGKWRIAPYYHLFGSDELSQRAPVFQSRMPQPYIKLNPADAAKLGVNAGTRVSFSYDGNTVTLPVEIAEGLTAGQVGLPMGMSGIAPVLAGAHLEDLKEAQQ

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 5 polymer

description	NADH-quinone oxidoreductase subunit I
formula_weight	20562.8 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	I

MTLKELLVGFGTQVRSIWMIGLHAFAKRETRMYPEEPVYLPPRYRGRIVLTRDPDGEERCVACNLCAVACPVGCISLQKAETKDGRWYPEFFRINFSRCIFCGLCEEACPTTAIQLTPDFEMGEYKRQDLVYEKEDLLISGPGKYPEYNFYRMAGMAIDGKDKGEAENEAKPIDVKSLLP

Source

organism	Escherichia coli BL21(DE3)
ncbi_taxonomy_id	469008
host_organism	Escherichia coli BL21(DE3)

Entity 6 polymer

description	NADH-quinone oxidoreductase subunit J
formula_weight	19889.6 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	J

MEFAFYICGLIAILATLRVITHTNPVHALLYLIISLLAISGVFFSLGAYFAGALEIIVYAGAIMVLFVFVVMMLNLGGSEIEQERQWLKPQVWIGPAILSAIMLVVIVYAILGVNDQGIDGTPISAKAVGITLFGPYVLAVELASMLLLAGLVVAFHVGREERAGEVLSNRKDDSAKRKTEEHA

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 7 polymer

description	NADH-quinone oxidoreductase subunit K
formula_weight	10853.0 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	K

MIPLQHGLILAAILFVLGLTGLVIRRNLLFMLIGLEIMINASALAFVVAGSYWGQTDGQVMYILAISLAAAEASIGLALLLQLHRRRQNLNIDSVSEMRG

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 8 polymer

description	NADH-quinone oxidoreductase subunit L
formula_weight	66483.6 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

MNMLALTIILPLIGFVLLAFSRGRWSENVSAIVGVGSVGLAALVTAFIGVDFFANGEQTYSQPLWTWMSVGDFNIGFNLVLDGLSLTMLSVVTGVGFLIHMYASWYMRGEEGYSRFFAYTNLFIASMVVLVLADNLLLMYLGWEGVGLCSYLLIGFYYTDPKNGAAAMKAFVVTRVGDVFLAFALFILYNELGTLNFREMVELAPAHFADGNNMLMWATLMLLGGAVGKSAQLPLQTWLADAMAGPTPVSALIHAATMVTAGVYLIARTHGLFLMTPEVLHLVGIVGAVTLLLAGFAALVQTDIKRVLAYSTMSQIGYMFLALGVQAWDAAIFHLMTHAFFKALLFLASGSVILACHHEQNIFKMGGLRKSIPLVYLCFLVGGAALSALPLVTAGFFSKDEILAGAMANGHINLMVAGLVGAFMTSLYTFRMIFIVFHGKEQIHAHAVKGVTHSLPLIVLLILSTFVGALIVPPLQGVLPQTTELAHGSMLTLEITSGVVAVVGILLAAWLWLGKRTLVTSIANSAPGRLLGTWWYNAWGFDWLYDKVFVKPFLGIAWLLKRDPLNSMMNIPAVLSRFAGKGLLLSENGYLRWYVASMSIGAVVVLALLMVLR

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 9 polymer

description	NADH-quinone oxidoreductase subunit M
formula_weight	56560.1 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	M

MLLPWLILIPFIGGFLCWQTERFGVKVPRWIALITMGLTLALSLQLWLQGGYSLTQSAGIPQWQSEFDMPWIPRFGISIHLAIDGLSLLMVVLTGLLGVLAVLCSWKEIEKYQGFFHLNLMWILGGVIGVFLAIDMFLFFFFWEMMLVPMYFLIALWGHKASDGKTRITAATKFFIYTQASGLVMLIAILALVFVHYNATGVWTFNYEELLNTPMSSGVEYLLMLGFFIAFAVKMPVVPLHGWLPDAHSQAPTAGSVDLAGILLKTAAYGLLRFSLPLFPNASAEFAPIAMWLGVIGIFYGAWMAFAQTDIKRLIAYTSVSHMGFVLIAIYTGSQLAYQGAVIQMIAHGLSAAGLFILCGQLYERIHTRDMRMMGGLWSKMKWLPALSLFFAVATLGMPGTGNFVGEFMILFGSFQVVPVITVISTFGLVFASVYSLAMLHRAYFGKAKSQIASQELPGMSLRELFMILLLVVLLVLLGFYPQPILDTSHSAIGNIQQWFVNSVTTTRP

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 10 polymer

description	NADH-quinone oxidoreductase subunit N
formula_weight	52072.7 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	N

MTITPQNLIALLPLLIVGLTVVVVMLSIAWRRNHFLNATLSVIGLNAALVSLWFVGQAGAMDVTPLMRVDGFAMLYTGLVLLASLATCTFAYPWLEGYNDNKDEFYLLVLIAALGGILLANANHLASLFLGIELISLPLFGLVGYAFRQKRSLEASIKYTILSAAASSFLLFGMALVYAQSGDLSFVALGKNLGDGMLNEPLLLAGFGLMIVGLGFKLSLVPFHLWTPDVYQGAPAPVSTFLATASKIAIFGVVMRLFLYAPVGDSEAIRVVLAIIAFASIIFGNLMALSQTNIKRLLGYSSISHLGYLLVALIALQTGEMSMEAVGVYLAGYLFSSLGAFGVVSLMSSPYRGPDADSLFSYRGLFWHRPILAAVMTVMMLSLAGIPMTLGFIGKFYVLAVGVQAHLWWLVGAVVVGSAIGLYYYLRVAVSLYLHAPEQPGRDAPSNWQYSAGGIVVLISALLVLVLGVWPQPLISIVRLAMPLM

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 11 polymer

description	NADH-quinone oxidoreductase subunit B
formula_weight	25081.8 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

MDYTLTRIDPNGENDRYPLQKQEIVTDPLEQEVNKNVFMGKLNDMVNWGRKNSIWPYNFGLSCCYVEMVTSFTAVHDVARFGAEVLRASPRQADLMVVAGTCFTKMAPVIQRLYDQMLEPKWVISMGACANSGGMYDIYSVVQGVDKFIPVDVYIPGCPPRPEAYMQALMLLQESIGKERRPLSWVVGDQGVYRANMQSERERKRGERIAVTNLRTPDEI

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 12 polymer

description	NADH-quinone oxidoreductase subunit H
formula_weight	36240.9 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

MSWISPELIEILLTILKAVVILLVVVTCGAFMSFGERRLLGLFQNRYGPNRVGWGGSLQLVADMIKMFFKEDWIPKFSDRVIFTLAPMIAFTSLLLAFAIVPVSPGWVVADLNIGILFFLMMAGLAVYAVLFAGWSSNNKYSLLGAMRASAQTLSYEVFLGLSLMGVVAQAGSFNMTDIVNSQAHVWNVIPQFFGFITFAIAGVAVCHRHPFDQPEAEQELADGYHIEYSGMKFGLFFVGEYIGIVTISALMVTLFFGGWQGPLLPPFIWFALKTAFFMMMFILIRASLPRPRYDQVMSFGWKICLPLTLINLLVTAAVILWQAQ

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 13 polymer

description	NADH-quinone oxidoreductase subunit A
formula_weight	16473.3 kDa
ec_number	7.1.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

MSMSTSTEVIAHHWAFAIFLIVAIGLCCLMLVGGWFLGGRARARSKNVPFESGIDSVGSARLRLSAKFYLVAMFFVIFNVEALYLFAWSTSIRESGWVGFVEAAIFIFVLLAGLVYLVRIGALDWTPARSRRERMNPETNSIANRQR

Source

organism	Escherichia coli BW25113
ncbi_taxonomy_id	679895
host_organism	Escherichia coli BW25113

Entity 14 non-polymer

description	FE2/S2 (INORGANIC) CLUSTER
formula_weight	175.8 kDa
src_method	syn
entity_count	2

Entity 15 non-polymer

description	IRON/SULFUR CLUSTER
formula_weight	351.6 kDa
src_method	syn
entity_count	7

Entity 16 non-polymer

description	FLAVIN MONONUCLEOTIDE
formula_weight	456.3 kDa
src_method	syn
entity_count	1

Entity 17 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	3

Entity 18 non-polymer

description	1,2-Distearoyl-sn-glycerophosphoethanolamine
formula_weight	748.1 kDa
src_method	syn
entity_count	12

Entity 19 non-polymer

description	(1R)-2-(dodecanoyloxy)-1-[(phosphonooxy)methyl]ethyl tetradecanoate
formula_weight	564.7 kDa
src_method	syn
entity_count	5

Entity 20 non-polymer

description	Ubiquinone-8
formula_weight	727.1 kDa
src_method	syn
entity_count	2

Entity 21 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	416

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6. Citations (2)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	triclinic

resolution	2.96 Å
resolution_method	—
num_particles	86927

fit	/app/data/saxs_computation/ta/9tam/9tam.fit
pddf	/app/data/pr_computation/ta/9tam/9tam.pr.out
profile	/app/data/saxs_computation/ta/9tam/9tam.dat

E. coli Complex I D79N NuoA mutant purified in LMNG

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

EM 3D

5. Entities & Polymer Info (21)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

Entity 6 polymer

Polymer

Source

Entity 7 polymer

Polymer

Source

Entity 8 polymer

Polymer

Source

Entity 9 polymer

Polymer

Source

Entity 10 polymer

Polymer

Source

Entity 11 polymer

Polymer

Source

Entity 12 polymer

Polymer

Source

Entity 13 polymer

Polymer

Source

Entity 14 non-polymer

Entity 15 non-polymer

Entity 16 non-polymer

Entity 17 non-polymer

Entity 18 non-polymer

Entity 19 non-polymer

Entity 20 non-polymer

Entity 21 water

6. Citations (2)

7. Files & Curves (10)

Files (7)

Curves (3)