Table 2

Fourteen of the most often positively selected residues of the Rubisco large subunit

Residue no1

Fitmode2

PAML3

Location of residues

Residues within 9 Å4

Coevolving residue

no

Interactions


449

26

5

Helix G

374, 375, 376, 396, 399, 400, 401, 402, 407, 410, 411, 445, 446, 447, 448, 449,451, 452, 453, 454

128, 147

ID, SSU, DD

225

20

7

Helix 2

154, 155, 184, 187, 189, 219, 220, 221, 223, 224, 226, 227

None

DD, SSU, ID

251

20

4

Helix 3

209, 210, 213, 217,247, 248, 249, 250, 252, 253

258, 261*

DD, ID, SSU

145

16

7

Helix D

    142**
, 143, 144, 146, 147, 148, 149, 150, 281, 282, 314, 315, 316, 364, 365, 366

142**, 240

DD

142

14

4

Helix D

140,141, 143, 144, 145, 272, 276, 311, 312, 313, 314, 315, 364, 365

255**, 240

DD

95

13

4

    23
, 25, 26, 27, 54, 70, 71, 72, 73, 74, 93, 94, 96. 97. 98. 99

23, 86**, 326*, 332

SSU, ID

439

12

2

Helix G

413, 414, 417, 435, 436, 437, 438,

    440
, 441, 442, 443, 444, 446, 447

33*, 152, 151, 153, 135*, 281*, 310*, 440*, 470*

ID

219

11

4

Helix 2

180, 181, 182, 184, 185, 186, 215, 216, 217, 218, 220, 221, 222, 223, 224, 225,227

121, 388, 423

DD, SSU, ID

279

11

1

Helix 4

143, 144, 152, 249, 253, 254, 274, 285, 286, 277, 278, 280, 281

301, 346

DD

328

11

3

Loop 6

319, 320, 321, 322, 323, 324, 326, 327, 329, 330, 332, 333, 462, 464

228*, 281*

AS, ID

375

11

9

Strand 7

373, 374, 376, 377, 378, 379, 393, 396, 410, 411, 414, 436, 446, 449, 450, 453

395, 419*

AS, ID, SSU

255

9

6

Helix 3

190, 228, 229, 230, 231, 248, 253, 254,

    256
, 257, 280, 281, 282, 283, 315, 316

101, 86**, 167, 149*, 169*, 256*, 320*, 371*, 398

SSU

28

8

9

N-terminus

26, 27, 29, 30, 76, 91, 94, 128, 129, 130, 131, 132

19, 355*, 93*

SSU, ID

86

8

9

Strand C

33, 34, 35, 36, 37, 39, 41, 81, 84, 85, 87, 88

149*, 256*, 167, 169*, 222*, 317*, 320*, 371*, 398, 23, 30*

DD


1 The residue number is according to the spinach Rubisco sequence (8RUC)

2 Number of groups with detected positively selected residues in Fitmodel

3 Number of groups with detected positively selected residues in PAML

4 *positively selected site; ** most often positively selected site; underlined residues are both within 9 Å and coevolve

Wang et al. BMC Evolutionary Biology 2011 11:266   doi:10.1186/1471-2148-11-266

Open Data