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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).

4QJH

2014-09-03

A	25	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).
B	47	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).
C	25	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).
D	47	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).
E	25	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).
F	47	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).

4W24

2014-09-03

5	3660	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).
7	120	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).
8	156	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).

4U7U

2014-08-27

L	61	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: 4U7U_X More on that in FAQ (answer 3.2).
X	61	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).

4PEI

2014-08-27

X	3	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).

4PEH

2014-08-27

V	3	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).
W	3	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).
X	4	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).
Y	4	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).
Z	3	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).

4QD1

2014-08-20

A	2800	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: 3V25_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QD0

2014-08-20

A	1503	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: 1PNX_A More on that in FAQ (answer 3.2).
V	6	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).
X	75	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: 3I9D_C More on that in FAQ (answer 3.2).
Y	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).

4QCZ

2014-08-20

A	2819	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: 4EJC_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCY

2014-08-20

A	1498	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: 1PNX_A More on that in FAQ (answer 3.2).
V	13	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).
X	75	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: 3I9D_C More on that in FAQ (answer 3.2).
Y	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).

4QCX

2014-08-20

A	2800	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: 3V25_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCW

2014-08-20

A	1503	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: 1PNX_A More on that in FAQ (answer 3.2).
V	12	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).
X	75	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: 3I9D_C More on that in FAQ (answer 3.2).

4QCV

2014-08-20

A	2819	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: 4EJC_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCU

2014-08-20

A	1498	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: 1PNX_A More on that in FAQ (answer 3.2).
V	13	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).
X	75	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: 3I9D_C More on that in FAQ (answer 3.2).

4QCT

2014-08-20

A	2800	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: 3V25_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCS

2014-08-20

A	1503	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: 1PNX_A More on that in FAQ (answer 3.2).
V	12	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).
W	71	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: 2HGP_B More on that in FAQ (answer 3.2).
X	76	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: 3I9D_C More on that in FAQ (answer 3.2).
Y	73	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: 2HGP_B More on that in FAQ (answer 3.2).

4QCR

2014-08-20

A	2819	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: 4EJC_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCQ

2014-08-20

A	1498	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: 1PNX_A More on that in FAQ (answer 3.2).
V	13	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).
W	73	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: 2HGP_B More on that in FAQ (answer 3.2).
X	76	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: 3I9D_C More on that in FAQ (answer 3.2).
Y	74	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: 2HGP_B More on that in FAQ (answer 3.2).

4QCP

2014-08-20

A	2800	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: 3V25_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCO

2014-08-20

A	1503	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: 1PNX_A More on that in FAQ (answer 3.2).
V	12	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).
W	71	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: 2HGP_B More on that in FAQ (answer 3.2).
X	75	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: 3I9D_C More on that in FAQ (answer 3.2).
Y	73	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: 2HGP_B More on that in FAQ (answer 3.2).

4QCN

2014-08-20

A	2819	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: 4EJC_A More on that in FAQ (answer 3.2).
B	120	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: 3F1F_B More on that in FAQ (answer 3.2).

4QCM

2014-08-20

A	1497	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: 1PNX_A More on that in FAQ (answer 3.2).
V	13	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).
W	73	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: 2HGP_B More on that in FAQ (answer 3.2).
X	75	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: 3I9D_C More on that in FAQ (answer 3.2).
Y	74	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: 2HGP_B More on that in FAQ (answer 3.2).

1VY9

2014-08-20

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).

1VY8

2014-08-20

X	58	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: 4TVX_L More on that in FAQ (answer 3.2).

4U37

2014-08-13

A	7	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? yes * sequence longer than 20 nt? no * similar RNA structures deposited earlier in the PDB: None More on that in FAQ (answer 3.2).

4QLN

2014-08-13

A	116	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).

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