5SWD - JenaLib

Title :   STRUCTURE OF THE ADENINE RIBOSWITCH APTAMER DOMAIN IN AN INTERMEDIATE-BOUND STATE

Authors :   J. R. Stagno, Y. -X. Wang, Y. Liu, Y. R. Bhandari, C. E. Conrad, G. Nelson, D. R. Wendel, T. A. White, A. Barty, R. A. Tuckey, N. A. Zatsepin, T. D. Gr P. Fromme, K. Tan, X. Ji, J. C. H. Spence

Date :   08 Aug 16 (Deposition) - 23 Nov 16 (Release) - 25 Jan 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Adenine Riboswitch, Purine Riboswitch, Ligand Mixing, Intermediate State, Rna, Gene Regulation, X-Ray Free Electron Laser (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. R. Stagno, Y. Liu, Y. R. Bhandari, C. E. Conrad, S. Panja, M. Swain, L. Fan, G. Nelson, C. Li, D. R. Wendel, T. A. White, J. D. Coe, M. O. Wiedorn, J. Knoska, D. Oberthuer, R. A. Tuckey, P. Yu, M. Dyba, S. G. Tarasov, U. Weierstall, T. D. Grant, C. D. Schwieters, J. Zhang, A. R. Ferre-D'Amare, P. Fromme, D. E. Draper, M. Liang, M. S. Hunter, S. Boutet, K. Tan, X. Zuo, X. Ji, A. Barty, N. A. Zatsepin, H. N. Chapman, J. C. Spence, S. A. Woodson, Y. X. Wang
Structures Of Riboswitch Rna Reaction States By Mix-And-Inject Xfel Serial Crystallography.
Nature V. 541 242 2017
PubMed-ID: 27841871 | Reference-DOI: 10.1038/NATURE20599

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	ADE	1	Ligand/Ion	ADENINE
2	MG	3	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	ADE	1	Ligand/Ion	ADENINE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	ADE	-1	Ligand/Ion	ADENINE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	A A:21 , U A:22 , U A:48 , U A:49 , A A:73 , U A:74 , HOH A:204	binding site for residue ADE A 101
2	AC2	SOFTWARE	G A:37 , HOH A:205 , HOH A:206 , U B:68 , HOH B:204 , HOH B:207	binding site for residue MG A 102
3	AC3	SOFTWARE	U A:51 , A A:52 , HOH A:201 , HOH A:207 , HOH B:205 , HOH B:206 , HOH B:208	binding site for residue MG A 103
4	AC4	SOFTWARE	A B:24 , HOH B:201 , HOH B:202 , HOH B:203	binding site for residue MG B 101

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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Asymmetric Unit

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Chain A from PDB  Type:RNA  Length:65
                                                                                                
                  5swd A 13 GGGAAGAUAUAAUCCUAAUGAUAUGGUUUGGGAGUUUCUACCAAGAGCCUUAAACUCUUGAUUAU 77
                                    22        32        42        52        62        72

Chain B from PDB  Type:RNA  Length:68
                                                                                                   
                  5swd B 13 GGGAAGAUAUAAUCCUAAUGAUAUGGUUUGGGAGUUUCUACCAAGAGCCUUAAACUCUUGAUUAUCUU 80
                                    22        32        42        52        62        72

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Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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