9nvp

Structure of Nanchung-Inactive-Calmodulin in complex with Nicotinamide, EDTA

Method: ELECTRON MICROSCOPY

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Inactive

Halyomorpha halys

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 6	Nanchung × 2 Calmodulin-1 × 2 （P0DP23） [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 14 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 6 NICOTINAMIDE × 2 (2~{S})-2-azanyl-3-[[(2~{R})-3-hexadecanoyloxy-2-[(~{Z})-octadec-9-enoyl]oxy-propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A9P0HI19_NEZVI
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain B； PDBConstruct 93–984； UniProt 11–902 Author chain D； PDBConstruct 93–984； UniProt 11–902

Inactive

Halyomorpha halys

UniProt A0A9P0MRC5

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 6	Nanchung × 2 Calmodulin-1 × 2 （P0DP23） [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 14 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 6 NICOTINAMIDE × 2 (2~{S})-2-azanyl-3-[[(2~{R})-3-hexadecanoyloxy-2-[(~{Z})-octadec-9-enoyl]oxy-propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A9P0MRC5_NEZVI
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain B； PDBConstruct 31–92； UniProt 78–139 Author chain D； PDBConstruct 31–92； UniProt 78–139

Calmodulin-1

Homo sapiens

UniProt P0DP23

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 6	Inactive × 2 （A0A9P0HI19,A0A9P0MRC5） Nanchung × 2 [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 14 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 6 NICOTINAMIDE × 2 (2~{S})-2-azanyl-3-[[(2~{R})-3-hexadecanoyloxy-2-[(~{Z})-octadec-9-enoyl]oxy-propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CALM1_HUMAN
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain E； PDBConstruct 1–149； UniProt 1–149 Author chain F； PDBConstruct 1–149； UniProt 1–149

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9nvp
Deposition date deposition_date	2025-03-21
Structure title title	Structure of Nanchung-Inactive-Calmodulin in complex with Nicotinamide, EDTA
Keywords keywords	Membrane protein, membrane channel, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9nvp__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9nvp__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9nvp__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	50.56 Å
Rg (electron density)	49.65 Å
Total Rg	49.81 Å
Atom count	48920
Residues	3052
Excluded volume	445780 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9nvp__assembly_1__model_1`	hexameric （6）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (7)

Entity 1 Entity 1 polymer

Description description	Inactive
Molecular weight formula_weight	109382.0 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,D
Atom count atom_count	48920

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCLLYKLANYKKGGELIDAYNAGGQSEVEKLIREQFGQLMYNEGKGALINRAEYLRWKFRDMQQVQIPIEASLSSQDPLSKWEDHQACWQMQYRGSLGETLLHVLIICDTKIHTRLARTLLKCFPNLAIDVVEGEEYLGASALHLAIAYFNNELVQDLVEAGANVEQRAIGSFFLPRDQQGQRPSKHTDYEGLAYLGEYPLAWAACCANESIYNLLLDNGANPDQRDTFGNMILHMVVVCDKLDMFGYALRHPKMPASNGIANVAGLTPLTLACKLGRAKVFREMLELSAREFWRYSNITCSAYPLNALDTLLPDGRTNWNSALFIILNGTKEEHLDMLDGGIIQRLLEEKWKTFARRQFLKRLVILMLHLICLSGAVYLRPTDRTKPLLGGDDWKSIARQGFEVATVLGVLSYVLVQQGGEIRNQGFISFIKQLDPAKAIFLVSNILILVCIPFRLIDDKRTEEAILVFAVPGSWFLLMFFAGAVRLTGPFVTMVYSMIVGDMFTFGIIYSIVLFGFSQSFYFLYKGFPGVKNTLYSSYHSTWMALFQITLGDYNYAELSHTSYPTLSKTVFAIFMVLVPILLLNMLIAMMGNTYAHVIEQSEKEWMKQWAKIVVSLERAVNQEDCKQYLQEYSIKLGPGDDPSTEQRGVMVIKSKSKTRAKQRKGAVANWKRVGKVTINELRKRGMNGEQLRRIMWDRASISTPVKVPQNPVVDVLMENTAEQQAQQTPGSFGGALTAALDVMAFTHDLDLSASGITSSGLNAKELIVSDPFRDLVLSSEIDVGEEELATLAEAAVLSVMSGQSDESEKLKIAKFNKQISFEQNAVLEVSDSDGFLDGQPLGQGSRARKVKSAQERQRAERTWGGTSISSIEEPPPYLPLPPPPPLHSHQRPRPKTAKPNRVVPEAVVAKRPQSSALGDRVKSPPELLEPWSTRGIATINTILAWQPSDQDSM

Source Source

Source organism organism	Halyomorpha halys
Common name common_name	brown marmorated stink bug
NCBI taxonomy ID ncbi_taxonomy_id	286706
Host organism host_organism	Homo sapiens

Entity 2 Entity 2 polymer

Description description	Nanchung
Molecular weight formula_weight	101194.9 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,C

MGNTESNVTSGVKKQADTSSIKIYKLVDLKGGGLLVELMKRAAQTKQYAELDHAIKTKVEPFLYNKGQGKMMPVSQLVLMRNKERPRHKMLPPLRNLENPDDYDIESYVVPEPTEEDLKDPNKYREVCWDLKERGAVGETILHLCLLNATSLHADLAKRLLRFYPKLINDVYMSDEYYGESVLHIAIVNEDPAMVKFLLDSGVNVNERCFGNFMCPEDQKASRTDSFDHEWVNLQSFTTYEGYVYWGEYPLSFAACLGQEECYRLMLARGANPDNQDTNGNTVLHMLVIYSKIQTFDMAYEVGGDLSIRNVQYLTPLTLAAKLARIELFFHILNIEREIYWQIGSITCAAYPLSQIDTIDIVTGNISKNSALNLVVFGEKDEHLELMDGVLIDLLNAKWNAFVKFRFYRQFFLFLFYFLISLICFTLRPGPPPVKPISSINSTKPNGNNITADLSPENLTTLPKWIYKTEIKKYDPEDNTSQNSRLNVILREVILTSLKVEDIDKVVSFSNAETPDNSREDAEGLVCNGNSIHSCIGNGSDVISVFGKGKSPKVPKPGASADDFDYDDTWWEEFGQCRLLQVTSYIEMTRLISEVMLDIGALLYILAALREARFLGWSMFVENLMTAPSRVMFLFSCCLMLTMPFLRFTCNEEIEDMMAVIIMLTTAPYFLFFCRGFKTVGPFVVMIYRMIMGDLLRFATIYLVFVMGFAQAYYIIFLSFDNPLTPEGVDDSVSNPIPNPMEAVMAMFFMSMTSFGDYYPALERTAHEFCAKLCFVIYMAIVAILLVNMLIAMMGNTYQKIAETRNEWQRQWARIVLVVERGVSPSERLTKLMWYSQPMSDGRRALVLRLNQSEEDKEEMKEILEMKRIHNRMVQKRKEREM

Source Source

Source organism organism	Halyomorpha halys
NCBI taxonomy ID ncbi_taxonomy_id	286706
Host organism host_organism	Homo sapiens

Entity 3 Entity 3 polymer

Description description	Calmodulin-1
Molecular weight formula_weight	16852.5 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,F

MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK

Source Source

Source organism organism	Homo sapiens
Common name common_name	human
NCBI taxonomy ID ncbi_taxonomy_id	9606
Host organism host_organism	Homo sapiens

Entity 4 Entity 4 non-polymer

Description description	[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate
Molecular weight formula_weight	718.0 kDa
Source method src_method	syn
Copy count entity_count	14

Entity 5 Entity 5 non-polymer

Description description	1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine
Molecular weight formula_weight	760.1 kDa
Source method src_method	syn
Copy count entity_count	6

Entity 6 Entity 6 non-polymer

Description description	NICOTINAMIDE
Molecular weight formula_weight	122.1 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 7 Entity 7 non-polymer

Description description	(2~{S})-2-azanyl-3-[[(2~{R})-3-hexadecanoyloxy-2-[(~{Z})-octadec-9-enoyl]oxy-propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid
Molecular weight formula_weight	762.0 kDa
Source method src_method	syn
Copy count entity_count	2

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	2.850 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	2.85 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	271938

Structure of Nanchung-Inactive-Calmodulin in complex with Nicotinamide, EDTA

1. Protein Identity and Related Structures Protein Identity & Related Structures

Inactive

State in the Current Structure

Other States of the Same Protein in the Database

Inactive

State in the Current Structure

Other States of the Same Protein in the Database

Calmodulin-1

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9nvp__assembly_1__model_1

9nvp__assembly_1__model_1 | I(q)

9nvp__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (7)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 non-polymer

Entity 7 Entity 7 non-polymer

7. Citations (1)

Structure of Nanchung-Inactive-Calmodulin in complex with Nicotinamide, EDTA

1. Protein Identity and Related Structures Protein Identity & Related Structures

Inactive

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Inactive

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Calmodulin-1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9nvp__assembly_1__model_1

9nvp__assembly_1__model_1 | I(q)

9nvp__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (7)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 non-polymer

Entity 7 Entity 7 non-polymer

7. Citations (1)