1J6S | UR0023 - JenaLib

Title :   CRYSTAL STRUCTURE OF AN RNA TETRAPLEX (UGAGGU)4 WITH A-TETRADS, G-TETRADS, U-TETRADS AND G-U OCTADS

Authors :   B. Pan, Y. Xiong, K. Shi, J. Deng, M. Sundaralingam

Date :   10 Jul 02 (Deposition) - 05 Aug 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.40

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, G-U Octads, A-Tetrads, U-Tetrads, G-Tetrads (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Pan, Y. Xiong, K. Shi, J. Deng, M. Sundaralingam
Crystal Structure Of An Rna Purine-Rich Tetraplex Containing Adenine Tetrads: Implications For Specific Binding In Rna Tetraplexes
Structure V. 11 815 2003
PubMed-ID: 12842044 | Reference-DOI: 10.1016/S0969-2126(03)00107-2
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 20)

Asymmetric Unit (3, 20)

No.	Name	Count	Type	Full Name
1	BA	8	Ligand/Ion	BARIUM ION
2	BRU	4	Mod. Nucleotide	5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
3	NA	8	Ligand/Ion	SODIUM ION

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	BA	-1	Ligand/Ion	BARIUM ION
2	BRU	4	Mod. Nucleotide	5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
3	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (1, 4)

No.	Name	Count	Type	Full Name
1	BA	-1	Ligand/Ion	BARIUM ION
2	BRU	4	Mod. Nucleotide	5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
3	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 3 (1, 4)

No.	Name	Count	Type	Full Name
1	BA	-1	Ligand/Ion	BARIUM ION
2	BRU	4	Mod. Nucleotide	5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
3	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 4 (1, 4)

No.	Name	Count	Type	Full Name
1	BA	-1	Ligand/Ion	BARIUM ION
2	BRU	4	Mod. Nucleotide	5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
3	NA	-1	Ligand/Ion	SODIUM ION

Sites (16, 16)

Asymmetric Unit (16, 16)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	G C:16 , G C:17 , NA C:201	BINDING SITE FOR RESIDUE BA C 101
02	AC2	SOFTWARE	G D:22 , G D:23	BINDING SITE FOR RESIDUE BA D 102
03	AC3	SOFTWARE	G B:10 , G B:11 , NA B:207	BINDING SITE FOR RESIDUE BA B 103
04	AC4	SOFTWARE	BRU B:7 , G B:8 , NA C:209	BINDING SITE FOR RESIDUE BA B 104
05	AC5	SOFTWARE	G A:4 , G A:5	BINDING SITE FOR RESIDUE BA A 105
06	AC6	SOFTWARE	U C:18 , HOH C:214 , HOH C:313 , HOH C:371 , HOH C:372 , HOH C:406	BINDING SITE FOR RESIDUE BA C 106
07	AC7	SOFTWARE	NA A:205 , BRU D:19 , G D:20	BINDING SITE FOR RESIDUE BA D 107
08	AC8	SOFTWARE	G A:5 , U A:6 , HOH A:387	BINDING SITE FOR RESIDUE BA A 108
09	AC9	SOFTWARE	G C:17 , U C:18 , BA C:101	BINDING SITE FOR RESIDUE NA C 201
10	BC1	SOFTWARE	G B:8 , A B:9	BINDING SITE FOR RESIDUE NA B 202
11	BC2	SOFTWARE	G C:14 , A C:15	BINDING SITE FOR RESIDUE NA C 203
12	BC3	SOFTWARE	G A:2 , NA A:206 , BRU D:19 , BA D:107	BINDING SITE FOR RESIDUE NA A 205
13	BC4	SOFTWARE	G A:2 , A A:3 , NA A:205	BINDING SITE FOR RESIDUE NA A 206
14	BC5	SOFTWARE	G B:11 , U B:12 , BA B:103	BINDING SITE FOR RESIDUE NA B 207
15	BC6	SOFTWARE	G D:20 , A D:21	BINDING SITE FOR RESIDUE NA D 208
16	BC7	SOFTWARE	BRU B:7 , BA B:104 , G C:14	BINDING SITE FOR RESIDUE NA C 209

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:DNA/RNA  Length:6
                                     
                  1j6s A  1 uGAGGU  6
                            |     
                            |     
                            1-BRU

Chain B from PDB  Type:DNA/RNA  Length:6
                                     
                  1j6s B  7 uGAGGU 12
                            |     
                            7-BRU

Chain C from PDB  Type:DNA/RNA  Length:6
                                     
                  1j6s C 13 uGAGGU 18
                            |     
                            |     
                           13-BRU

Chain D from PDB  Type:DNA/RNA  Length:6
                                     
                  1j6s D 19 uGAGGU 24
                            |     
                            |     
                           19-BRU

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SCOP Domains (0, 0)

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Gene Ontology (0, 0)

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