1ET4 | DR0004 - JenaLib

Title :   CRYSTAL STRUCTURE OF A VITAMIN B12 BINDING RNA APTAMER WITH LIGAND AT 2.3 A

Authors :   D. Sussman, C. Wilson

Date :   12 Apr 00 (Deposition) - 13 Nov 00 (Release) - 28 Dec 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym. Unit : A,B,C,D,E
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: E  (1x)

Keywords :   B12 Binding Rna, Vitamin B12, Cobalamin, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Sussman, C. Wilson
A Water Channel In The Core Of The Vitamin B(12) Rna Aptamer.
Structure Fold. Des. V. 8 719 2000
PubMed-ID: 10903943 | Reference-DOI: 10.1016/S0969-2126(00)00159-3

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 5)

Asymmetric Unit (1, 5)

No.	Name	Count	Type	Full Name
1	CNC	5	Ligand/Ion	CO-CYANOCOBALAMIN

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CNC	1	Ligand/Ion	CO-CYANOCOBALAMIN

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CNC	1	Ligand/Ion	CO-CYANOCOBALAMIN

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	CNC	1	Ligand/Ion	CO-CYANOCOBALAMIN

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	CNC	1	Ligand/Ion	CO-CYANOCOBALAMIN

Biological Unit 5 (1, 1)

No.	Name	Count	Type	Full Name
1	CNC	1	Ligand/Ion	CO-CYANOCOBALAMIN

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	C A:211 , A A:214 , A A:216 , C A:229 , G A:230 , A A:231 , HOH A:1151 , HOH A:1180 , HOH A:1246 , HOH A:1253 , HOH A:1272 , HOH A:1387 , HOH A:1459 , HOH A:1503 , HOH A:1508 , HOH A:1673 , HOH A:1764 , HOH B:1490 , HOH B:1612 , A D:516 , HOH D:1189 , HOH D:1443	BINDING SITE FOR RESIDUE CNC A 701
2	AC2	SOFTWARE	HOH A:1290 , C B:311 , A B:314 , A B:316 , C B:329 , G B:330 , HOH B:1121 , HOH B:1137 , HOH B:1266 , HOH B:1293 , HOH B:1364 , HOH B:1420 , HOH B:1468 , HOH B:1612 , HOH B:1707 , HOH B:1709 , HOH B:1725 , HOH B:1777 , HOH B:1802 , CNC D:1001 , HOH D:1256 , HOH D:1328	BINDING SITE FOR RESIDUE CNC B 801
3	AC3	SOFTWARE	C C:411 , A C:414 , A C:416 , C C:429 , G C:430 , HOH C:1109 , HOH C:1139 , HOH C:1178 , HOH C:1211 , HOH C:1236 , HOH C:1258 , HOH C:1271 , HOH C:1454 , A E:117 , HOH E:1314	BINDING SITE FOR RESIDUE CNC C 901
4	AC4	SOFTWARE	A A:216 , A A:217 , HOH A:1246 , CNC B:801 , HOH B:1725 , C D:511 , A D:514 , A D:516 , C D:529 , G D:530 , HOH D:1107 , HOH D:1143 , HOH D:1168 , HOH D:1232 , HOH D:1255 , HOH D:1256 , HOH D:1288 , HOH D:1328 , HOH D:1332 , HOH D:1409 , HOH D:1591	BINDING SITE FOR RESIDUE CNC D 1001
5	AC5	SOFTWARE	A C:417 , HOH C:1211 , C E:111 , A E:114 , A E:116 , C E:129 , G E:130 , HOH E:1281 , HOH E:1321 , HOH E:1585 , HOH E:1754 , HOH E:1759 , HOH E:1778	BINDING SITE FOR RESIDUE CNC E 601

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

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

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Chain A from PDB  Type:RNA  Length:35
                                                                   
                 1et4 A 201 GGAACCGGUGCGCAUAACCACCUCAGUGCGAGCAA 235
                                   210       220       230

Chain B from PDB  Type:RNA  Length:35
                                                                   
                 1et4 B 301 GGAACCGGUGCGCAUAACCACCUCAGUGCGAGCAA 335
                                   310       320       330

Chain C from PDB  Type:RNA  Length:35
                                                                   
                 1et4 C 401 GGAACCGGUGCGCAUAACCACCUCAGUGCGAGCAA 435
                                   410       420       430

Chain D from PDB  Type:RNA  Length:35
                                                                   
                 1et4 D 501 GGAACCGGUGCGCAUAACCACCUCAGUGCGAGCAA 535
                                   510       520       530

Chain E from PDB  Type:RNA  Length:35
                                                                   
                 1et4 E 101 GGAACCGGUGCGCAUAACCACCUCAGUGCGAGCAA 135
                                   110       120       130

Legend:		→ Mismatch	(orange background)
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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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	RNA: ribbon, plates, transparent surface; vitamin B12: spacefillng; white background [ mono GIF format \| stereo GIF format ]

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