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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).

4K4Z

2013-05-22

B	17	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	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).
F	18	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	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).
H	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).
J	18	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).
K	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).
L	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).
N	17	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).
O	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).
P	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).

4K4T

2013-05-22

B	17	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	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).
D	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).
F	17	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	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).
H	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).

4JVY

2013-05-08

D	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).
F	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).

4JVH

2013-05-08

D	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).

3J3F

2013-05-01

5	3762	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	121	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	157	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).

3J3E

2013-05-01

5	3570	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	123	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).
9	30	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: None More on that in FAQ (answer 3.2).

4JXZ

2013-05-01

B	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: 1GSG_T More on that in FAQ (answer 3.2).

4JXX

2013-05-01

B	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: 1GSG_T More on that in FAQ (answer 3.2).

4GV9

2013-05-01

E	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).
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).

4GV6

2013-05-01

B	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).
C	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).

4GV3

2013-05-01

B	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).
C	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).

3ZLA

2013-05-01

I	44	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: 2GIC_R More on that in FAQ (answer 3.2).
J	44	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: 2GIC_R More on that in FAQ (answer 3.2).

3J3D

2013-05-01

2	1761	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).
C	75	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).

3J3C

2013-05-01

2	1795	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).
C	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: 3J3D_C More on that in FAQ (answer 3.2).

4JRC

2013-04-24

A	56	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	56	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: 4JRC_A More on that in FAQ (answer 3.2).

4IJS

2013-04-24

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	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).
G	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).
H	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).

4I67

2013-04-24

B	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).

4EJC

2013-04-24

A	2824	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	119	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).

4EJB

2013-04-24

A	2810	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	119	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).

4EJA

2013-04-24

A	1504	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: 1PNX_A More on that in FAQ (answer 3.2).
V	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).
W	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: 2HGP_B More on that in FAQ (answer 3.2).
X	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).
Y	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).

4BHH

2013-04-24

R	44	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: 2GIC_R More on that in FAQ (answer 3.2).

3V6X

2013-04-24

A	2803	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: 2WDL_A More on that in FAQ (answer 3.2).
B	119	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).

3V6W

2013-04-24

A	2803	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: 2WDL_A More on that in FAQ (answer 3.2).
B	119	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).

3V6V

2013-04-24

A	1503	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: 1PNX_A More on that in FAQ (answer 3.2).
V	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).
W	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: 2HGP_B More on that in FAQ (answer 3.2).
X	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).
Y	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).

3V6U

2013-04-24

A	1504	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: 1PNX_A More on that in FAQ (answer 3.2).
V	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).
W	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: 2HGP_B More on that in FAQ (answer 3.2).
X	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).
Y	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).

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