1J8G | UR0014 - JenaLib

Title :   X-RAY ANALYSIS OF A RNA TETRAPLEX R(UGGGGU)4 AT ULTRA-HIGH RESOLUTION

Authors :   J. Deng, Y. Xiong, M. Sundaralingam

Date :   21 May 01 (Deposition) - 23 Nov 01 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   0.61

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (4x)
Biol. Unit 2: B  (4x)
Biol. Unit 3: C  (4x)
Biol. Unit 4: D  (4x)

Keywords :   Rna Tetraplex, Sr Ions, U Tetrad, Octaplex, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Deng, Y. Xiong, M. Sundaralingam
X-Ray Analysis Of An Rna Tetraplex (Uggggu)(4) With Divalen Sr(2+) Ions At Subatomic Resolution (0. 61 A).
Proc. Natl. Acad. Sci. Usa V. 98 13665 2001
PubMed-ID: 11707581 | Reference-DOI: 10.1073/PNAS.241374798

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 14)

Asymmetric Unit (4, 14)

No.	Name	Count	Type	Full Name
1	CA	3	Ligand/Ion	CALCIUM ION
2	NA	2	Ligand/Ion	SODIUM ION
3	SPM	1	Ligand/Ion	SPERMINE
4	SR	8	Ligand/Ion	STRONTIUM ION

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	NA	-1	Ligand/Ion	SODIUM ION
3	SPM	4	Ligand/Ion	SPERMINE
4	SR	-1	Ligand/Ion	STRONTIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	NA	-1	Ligand/Ion	SODIUM ION
3	SPM	-1	Ligand/Ion	SPERMINE
4	SR	-1	Ligand/Ion	STRONTIUM ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	NA	-1	Ligand/Ion	SODIUM ION
3	SPM	-1	Ligand/Ion	SPERMINE
4	SR	-1	Ligand/Ion	STRONTIUM ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	NA	-1	Ligand/Ion	SODIUM ION
3	SPM	-1	Ligand/Ion	SPERMINE
4	SR	-1	Ligand/Ion	STRONTIUM ION

Sites (14, 14)

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	G A:2 , G A:3 , HOH A:67 , HOH A:137 , HOH A:151 , HOH A:164 , G B:14 , G B:15 , HOH B:109 , HOH B:177 , U C:21 , G C:22 , HOH C:184	BINDING SITE FOR RESIDUE SPM A 62
02	AC2	SOFTWARE	G D:34 , G D:35	BINDING SITE FOR RESIDUE SR D 501
03	AC3	SOFTWARE	G B:12 , G B:13	BINDING SITE FOR RESIDUE SR B 502
04	AC4	SOFTWARE	G C:22 , G C:23	BINDING SITE FOR RESIDUE SR C 503
05	AC5	SOFTWARE	G C:24 , G C:25 , HOH C:102	BINDING SITE FOR RESIDUE SR C 504
06	AC6	SOFTWARE	G A:4 , G A:5 , NA A:512	BINDING SITE FOR RESIDUE SR A 505
07	AC7	SOFTWARE	G A:2 , G A:3	BINDING SITE FOR RESIDUE SR A 506
08	AC8	SOFTWARE	G B:14 , G B:15	BINDING SITE FOR RESIDUE SR B 507
09	AC9	SOFTWARE	G D:32 , G D:33	BINDING SITE FOR RESIDUE SR D 508
10	BC1	SOFTWARE	U C:26 , HOH C:121 , HOH C:125 , HOH C:127 , HOH C:198 , HOH C:199 , HOH C:200	BINDING SITE FOR RESIDUE CA C 509
11	BC2	SOFTWARE	U A:1 , HOH A:118 , HOH A:146 , HOH A:149 , HOH A:156 , G B:13 , HOH C:122 , HOH C:205	BINDING SITE FOR RESIDUE CA B 510
12	BC3	SOFTWARE	U A:6 , HOH A:157 , HOH A:185 , HOH A:187 , HOH A:191 , HOH A:201 , HOH A:206	BINDING SITE FOR RESIDUE CA A 511
13	BC4	SOFTWARE	G A:5 , U A:6 , SR A:505	BINDING SITE FOR RESIDUE NA A 512
14	BC5	SOFTWARE	G B:15 , U B:16 , HOH B:101	BINDING SITE FOR RESIDUE NA B 513

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

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Chain A from PDB  Type:RNA  Length:6
                                     
                  1j8g A  1 UGGGGU  6

Chain B from PDB  Type:RNA  Length:6
                                     
                  1j8g B 11 UGGGGU 16

Chain C from PDB  Type:RNA  Length:6
                                     
                  1j8g C 21 UGGGGU 26

Chain D from PDB  Type:RNA  Length:6
                                     
                  1j8g D 31 UGGGGU 36

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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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