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Table 1 Functional analysis of the GO molecular functions of the six pocket groups. ‘Group’ is the pocket group ID. ‘Term’ refers to the GO molecular functions with their descriptions. Some pockets in the group are listed as ‘Representative pockets’. ‘P-value’ is the enrichment significance. Note that the functions of the parent proteins are used to implement the calculations because there are no GO annotations of these pockets thus far. For each term, ‘Count’ refers to the number of proteins containing the GO term in the ‘Population total’ background RBPs. ‘List total’ refers to the number of proteins in one group. ‘Population hits’ is the number of proteins annotated with the term. (In DAVID, there are slightly different numbers in ‘List total’ and ‘Population total’ for one group when calculating a specific GO term). For conciseness, we list only the top 5 terms in each group; the complete tables are available from our website

From: Structure alignment-based classification of RNA-binding pockets reveals regional RNA recognition motifs on protein surfaces

Group

Term

Count

List total

Population hits

Population total

P-value

Representative pockets

Group 1

GO:0046914 ~ transition metal ion binding

10

32

17

123

0.032977

1U0B:40:B, 1UVL:183:A, 2BH2:32:A, 2IPY:137:A, 3EPH:130:A

GO:0043167 ~ ion binding

11

30

27

119

0.071152

1U0B:40:B, 1UVL:183:A, 2BH2:32:A, 3EPH:130:A

GO:0046872 ~ metal ion binding

11

30

27

119

0.071152

1U0B:40:B, 1UVL:183:A, 2BH2:32:A, 3EPH:130:A

GO:0043169 ~ cation binding

11

30

27

119

0.071152

1U0B:40:B, 1UVL:183:A, 2BH2:32:A, 3EPH:130:A

GO:0016779 ~ nucleotidyltransferase activity

5

30

24

123

0.097784

1H38:166:A, 1UVL:183:A

Group 2

GO:0000166 ~ nucleotide binding

27

52

44

119

0.005401

1A9N:58:B, 1ASY:38:A, 1B23:24:P, 1C0A:13:A, 1CVJ:57:A, 1QTQ:16:A, 1UVL:129:A, 2AKE:13:A, 2F8K:8:A, 3EPH:97:A, 3MOJ:8:B, 3RW6:56:A

GO:0032559 ~ adenyl ribonucleotide binding

20

52

30

119

0.008157

1ASY:38:A, 1C0A:13:A, 1QTQ:16:A, 2AKE:13:A, 3EPH:97:A, 3MOJ:8:B

GO:0005524 ~ ATP binding

20

52

30

119

0.008157

1ASY:38:A, 1C0A:13:A, 1QTQ:16:A, 2AKE:13:A, 3EPH:97:A, 3MOJ:8:B

GO:0004812 ~ aminoacyl-tRNA ligase activity

11

52

15

119

0.043756

1ASY:38:A, 1C0A:13:A, 1QTQ:16:A, 2AKE:13:A

GO:0046914 ~ transition metal ion binding

14

52

21

119

0.045022

1UVL:129:A, 1ZBL:22:A, 2B3J:46:A, 3EPH:97:A

Group 3

GO:0030554 ~ adenyl nucleotide binding

18

51

30

119

0.04838

1F7U:34:A, 1QTQ:25:A, 3EPH:112:A

GO:0001882 ~ nucleoside binding

18

51

30

119

0.04838

1F7U:34:A, 1QTQ:25:A,2A8V:16:B3EPH:112:A

GO:0001883 ~ purine nucleoside binding

18

51

30

119

0.04838

1F7U:34:A, 1QTQ:25:A,2A8V:16:B3EPH:112:A

GO:0032553 ~ ribonucleotide binding

20

51

35

119

0.061405

1F7U:34:A, 2A8V:16:B, 3EPH:112:A

GO:0032555 ~ purine ribonucleotide binding

20

51

35

119

0.061405

1F7U:34:A, 2A8V:16:B, 3EPH:112:A

Group 4

GO:0046914 ~ transition metal ion binding

6

14

21

119

0.052374

1U0B:78:B, 1UVL:73:A, 2BH2:89:A, 3EPH:50:A

GO:0043167 ~ ion binding

6

14

27

119

0.13911

1UVL:73:A, 2BH2:89:A

GO:0043169 ~ cation binding

6

14

27

119

0.13911

1UVL:73:A, 2BH2:89:A

GO:0046872 ~ metal ion binding

6

14

27

119

0.13911

1UVL:73:A, 2BH2:89:A

GO:0000166 ~ nucleotide binding

8

14

44

119

0.151441

1CVJ:135:A, 1 N78:58:A, 2A8V:9:B

Group 5

GO:0016876 ~ ligase activity, forming aminoacyl-tRNA and related compounds

9

42

15

119

0.08969

1C0A:17:A, 1EIY:142:B, 1J1U:24:A,2AKE:32:A

GO:0004812 ~ aminoacyl-tRNA ligase activity

9

42

15

119

0.08969

1C0A:17:A, 1EIY:142:B, 1J1U:24:A, 2AKE:32:A

GO:0046872 ~ metal ion binding

12

42

27

119

0.287759

1EIY:142:B, 1YTU:82:A

GO:0032553 ~ ribonucleotide binding

14

42

35

119

0.422562

1C0A:17:A, 1EIY:142:B, 1J1U:24:A

GO:0030554 ~ adenyl nucleotide binding

12

42

30

119

0.46644

1C0A:17:A, 1EIY:142:B, 1J1U:24:A

Group 6

GO:0046914 ~ transition metal ion binding

10

41

21

119

0.229275

1U0B:49:B, 1UVL:243:A, 2BH2:56:A, 2IPY:165:A, 3EPH:116:A

GO:0000166 ~ nucleotide binding

18

41

44

119

0.245078

1A9N:73:B, 1CVJ:120:A

GO:0008173 ~ RNA methyltransferase activity

4

41

6

119

0.32238

2BH2:56:A, 3BT7:93:A

GO:0046872 ~ metal ion binding

11

41

27

119

0.416938

1YTU:76:A

GO:0043167 ~ ion binding

11

41

27

119

0.416938

1YTU:76:A