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Table 4 Tripod instances. The tripods identified on protein interfaces within the three ribosomes are here reported.

From: Analysis of interactions between ribosomal proteins and RNA structural motifs

Tripods

  
 

NT No.

Base

AA 1

AA 2

AA 3

Protein

P-R-B

1S72

700H

A

Gln-113

Arg-115

Glu-71

L15

2-4-11

 

2368

A

Arg-13

Asp-19

Leu-106

L18

2-2-10

 

2815H

G

Arg-102

Lys-80

Tyr-104

L13

2-4-11

 

746H

A

Glu-42

Asn-44

Leu-65

L18e

0-2-7

 

96H

A

His-4

Glu-7

Gln-6

L29

0-2-7

 

659H

A

Lys-63

Leu-65

Glu-42

L18e

3-6-12

 

1315H

G

Arg-212

Ala-211

Glu-215

L32e

1-5-9

 

1359

U

Ala-68

Gly-66

His-69 (Ser-63)

L4

1-4-8

 

452H

G

Gln-178

Arg-182

Ala-181

L4

0-2-5

 

327H

A

Lys-149

Gln-151

Asn-206

L4

3-6-10

 

1356H

A

Arg-130

Arg-138

Lys-136

L32e

2-5-8

 

308

U

Arg-97

Arg-52

Ser-94

L24

2-7-9

 

1150

A

Thr-65

Lys-16

Arg-69

L10

0-7-7

2AWB

144

A

Met-1

Arg-3

Glu-4

L23

0-11-12

 

2286 H

G

Thr-23

Asn-25

Lys-36

L33

1-4-16

 

1820

U

Arg-176

Ala-197

Met-200

L2

2-5-10

 

2305 H

U

Met-37

Arg-132

Arg-149

L5

0-3-11

 

636 H

G

Thr-74

Glu-76

Arg-126

L15

2-2-8

 

2250

G

Val-80

Arg-81

Met-82

L16

0-3-12

 

1156

A

Arg-47

Gln-51

Arg-54

L20

1-2-8

 

1252 H

G

Tyr-31

Arg-32

Gln-36

L20

1-3-10

1FJF

7 H

G

Lys-92

Lys-121

Thr-120

S5

0-2-8

 

1347 H

G

Arg-10

Lys-11

Arg-107

S9

1-4-16

 

691 H

G

Asn-26

Gly-52

Lys-55

S11

2-3-6

 

562 H

C

Arg-15

Glu-16

Val-18

S12

1-10-5

 

1317

C

Phe-16

Arg-19

Val-18

S14

2-4-9

 

958 H

A

Lys-55

Thr-77

Gly-54

S19

1-2-10

    

18

   
  1. Each instance is defined by the binding nucleotide (NT), its triplet of amino acids, the protein such triplet belongs to, and P-R-B ratio. Nucleotides making H-bonds are denoted by the H apex. The three knobs interacting with U1359 include atoms from a forth residue reported in brackets.
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BMC Bioinformatics

ISSN: 1471-2105

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