3M8A | pdb_00003m8a

Crystal Structure of Swine Flu Virus NS1 N-Terminal RNA Binding Domain from H1N1 Influenza A/California/07/2009

PDB DOI: https://doi.org/10.2210/pdb3M8A/pdb

Classification: VIRAL PROTEIN
Organism(s): Influenza A virus (A/California/07/2009(H1N1))
Mutation(s): No

Deposited: 2010-03-17 Released: 2010-04-28
Deposition Author(s): Brunzelle, J.S., Wawrzak, Z., Skarina, T., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free:
0.204 (Depositor), 0.207 (DCC)
R-Value Work:
0.170 (Depositor), 0.174 (DCC)
R-Value Observed:
0.172 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal Structure of Swine Flu Virus NS1 N-Terminal RNA Binding Domain from H1N1 Influenza A/California/07/2009

Brunzelle, J.S., Wawrzak, Z., Skarina, T., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecule Content

Total Structure Weight: 104.79 kDa
Atom Count: 8,240
Modeled Residue Count: 862
Deposited Residue Count: 912
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nonstructural protein 1	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	76	Influenza A virus (A/California/07/2009(H1N1))	Mutation(s): 0
UniProt
Find proteins for C3W611 (Influenza A virus) Explore C3W611 Go to UniProtKB: C3W611
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C3W611
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MLI Query on MLI Download:Ideal Coordinates CCD File SDF format, chain Z [auth L] SDF format, chain X [auth J] SDF format, chain T [auth G] SDF format, chain Q [auth D] SDF format, chain O [auth C] SDF format, chain N [auth B] MOL2 format, chain Z [auth L] MOL2 format, chain X [auth J] MOL2 format, chain T [auth G] MOL2 format, chain Q [auth D] MOL2 format, chain O [auth C] MOL2 format, chain N [auth B] mmCIF format, chain Z [auth L] mmCIF format, chain X [auth J] mmCIF format, chain T [auth G] mmCIF format, chain Q [auth D] mmCIF format, chain O [auth C] mmCIF format, chain N [auth B]	N [auth B] O [auth C] Q [auth D] T [auth G] X [auth J] N [auth B], O [auth C], Q [auth D], T [auth G], X [auth J], Z [auth L]	MALONATE ION C₃ H₂ O₄ OFOBLEOULBTSOW-UHFFFAOYSA-L		Interactions Focus chain N [auth B] Focus chain O [auth C] Focus chain Q [auth D] Focus chain T [auth G] Focus chain X [auth J] Focus chain Z [auth L] Interactions & Density Focus chain N [auth B] Focus chain O [auth C] Focus chain Q [auth D] Focus chain T [auth G] Focus chain X [auth J] Focus chain Z [auth L]
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain U [auth H] SDF format, chain S [auth F] SDF format, chain R [auth E] SDF format, chain M [auth A] MOL2 format, chain U [auth H] MOL2 format, chain S [auth F] MOL2 format, chain R [auth E] MOL2 format, chain M [auth A] mmCIF format, chain U [auth H] mmCIF format, chain S [auth F] mmCIF format, chain R [auth E] mmCIF format, chain M [auth A]	M [auth A], R [auth E], S [auth F], U [auth H]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain M [auth A] Focus chain R [auth E] Focus chain S [auth F] Focus chain U [auth H] Interactions & Density Focus chain M [auth A] Focus chain R [auth E] Focus chain S [auth F] Focus chain U [auth H]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain Y [auth L] SDF format, chain W [auth J] SDF format, chain V [auth I] SDF format, chain P [auth C] MOL2 format, chain Y [auth L] MOL2 format, chain W [auth J] MOL2 format, chain V [auth I] MOL2 format, chain P [auth C] mmCIF format, chain Y [auth L] mmCIF format, chain W [auth J] mmCIF format, chain V [auth I] mmCIF format, chain P [auth C]	P [auth C], V [auth I], W [auth J], Y [auth L]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain P [auth C] Focus chain V [auth I] Focus chain W [auth J] Focus chain Y [auth L] Interactions & Density Focus chain P [auth C] Focus chain V [auth I] Focus chain W [auth J] Focus chain Y [auth L]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.204 (Depositor), 0.207 (DCC)
R-Value Work: 0.170 (Depositor), 0.174 (DCC)
R-Value Observed: 0.172 (Depositor)

Diffraction Data:

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.847	α = 90
b = 156.795	β = 109.21
c = 73.523	γ = 90

Software Package:

Software Name	Purpose
BLU-MAX	data collection
MrBUMP	phasing
BUSTER	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2010-04-28

Deposition Author(s):

Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History (Full details and data files)

Version 1.0: 2010-04-28
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description