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Reference RNA structures collected by CompaRNA since February 18, 2009

The following list contains RNA chains automatically extracted from the Protein Data Bank database.

In total 4177 RNA chains from 1935 PDB records have been extracted by CompaRNA. Out of them, 342 RNA chains are valid. RNA chain is considered valid if:

it has a secondary structure
no defects were detected after manual inspection of the PDB structure
it is at least 20 nucleotides long
no RNAs having similar sequence were earlier released from the PDB database

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PDB id

Date

RNA chain id	RNA chain length	Ref 2D		Ref 3D	VValidity of RNA chains. More on that in FAQ (answer 3.2).

5CD4

2015-08-26

L	60	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 4TVX_L More on that in FAQ (answer 3.2).
X	60	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 4TVX_L More on that in FAQ (answer 3.2).

5C4X

2015-08-26

R	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C4J

2015-08-26

R	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C4A

2015-08-26

R	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C44

2015-08-26

R	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C3E

2015-08-26

R	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4ZNP

2015-08-26

A	73	std	ext	pdb	Valid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
B	66	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4ZC7

2015-08-26

A	21	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 2FQN_A More on that in FAQ (answer 3.2).
B	20	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 4ZC7_D More on that in FAQ (answer 3.2).
C	21	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 2FQN_A More on that in FAQ (answer 3.2).
D	20	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4U78

2015-08-26

A	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
B	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5A0V

2015-08-19

E	5	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
F	4	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5A0T

2015-08-19

E	5	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
F	5	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4ZLD

2015-08-19

B	17	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4U6M

2015-08-19

A	9	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4U6L

2015-08-19

A	9	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4U6K

2015-08-19

A	9	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
B	7	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? no * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
C	9	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
D	7	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? no * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C7W

2015-08-12

C	65	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 1U8D_A More on that in FAQ (answer 3.2).

5C7U

2015-08-12

B	67	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 1U8D_A More on that in FAQ (answer 3.2).

5BTP

2015-08-12

A	62	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
B	62	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 5BTP_A More on that in FAQ (answer 3.2).

3JAM

2015-08-12

2	1766	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 3O30_1 More on that in FAQ (answer 3.2).

2N2P

2015-08-05

A	23	std	ext	pdb	Valid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

2N2O

2015-08-05

A	23	std	ext	pdb	Valid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C0Y

2015-08-05

D	6	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? no * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

5C0X

2015-08-05

R	20	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4U67

2015-08-05

X	2667	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? no * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 4IOC_X More on that in FAQ (answer 3.2).
Y	122	std	ext	pdb	Invalid RNA chain. * single stranded? no * structure is continous? yes * sequence longer than 20 nt? yes * similar RNA structures deposited earlier in the PDB: 2ZJR_Y More on that in FAQ (answer 3.2).

4U47

2015-08-05

A	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).
B	8	std	ext	pdb	Invalid RNA chain. * single stranded? yes * structure is continous? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

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