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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).

4FXD

2013-02-27

E	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).
F	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).

4FEL

2013-02-27

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).

4DV3

2013-02-27

A	1512	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).

4DV0

2013-02-27

A	1512	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).

4ANG

2013-02-27

R	12	std	ext	pdb	Invalid RNA chain. * single stranded? no * 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).
S	12	std	ext	pdb	Invalid RNA chain. * single stranded? no * 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).

4HKQ

2013-02-20

E	16	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).

4G5W

2013-02-20

A	2906	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: 1ML5_a More on that in FAQ (answer 3.2).
B	122	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: 3F1F_B More on that in FAQ (answer 3.2).

4G5V

2013-02-20

1	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).
A	1506	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).
C	77	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).
D	77	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).

4G5U

2013-02-20

A	2912	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: 1ML5_a More on that in FAQ (answer 3.2).
B	122	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: 3F1F_B More on that in FAQ (answer 3.2).

4G5T

2013-02-20

1	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).
A	1506	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).
C	77	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).
D	77	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).

4G5N

2013-02-20

A	2909	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: 1ML5_a More on that in FAQ (answer 3.2).
B	122	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: 3F1F_B More on that in FAQ (answer 3.2).

4G5M

2013-02-20

1	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).
A	1506	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).
C	77	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).

4G5L

2013-02-20

A	2912	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: 1ML5_a More on that in FAQ (answer 3.2).
B	122	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: 3F1F_B More on that in FAQ (answer 3.2).

4G5K

2013-02-20

1	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).
A	1506	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).
C	77	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).

3ZEX

2013-02-13

A	1846	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	1465	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	169	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).
D	119	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	210	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).
F	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).
G	182	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).
H	135	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).

3W3S

2013-02-13

B	98	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).

4GZZ

2013-02-13

R	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).

4GZY

2013-02-13

R	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).

3ZEQ

2013-02-13

A	2227	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	73	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: 2HGP_B More on that in FAQ (answer 3.2).

3VYY

2013-02-13

C	10	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	10	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).
E	10	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	10	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).
G	10	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).

3VYX

2013-02-13

B	10	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).
C	10	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).

2RSK

2013-02-13

A	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).
B	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).

2M1O

2013-02-13

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).

4IQX

2013-02-06

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).
C	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).

4IFD

2013-02-06

R	20	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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