ADGRA1 (Q86SQ6) — computed evidence for the GO review
Regenerate with uv run python analyze_adgra1.py. Every number below is
read from UniProt, IntAct or QuickGO at run time; none is hardcoded.
Q1. A cytoplasmic C-terminal class I PDZ-binding motif
AGRA1_HUMAN (Swiss-Prot), 560 aa, 7 TM helices.- N-terminal extracellular domain: residues 1–19 (19 residues) — there is no ectodomain to hold a GAIN/GPS module.
- C-terminal cytoplasmic tail: residues 306–560 (255 residues).
- Last four residues:
ETTV; matches the class I PDZ-binding consensus X-[ST]-X-[VIL]: True.
- UniProt has an annotated
MOTIF feature for it: False.
Q2. Every GOA GO:0005515 partner is a PDZ-domain protein
21/21 partners carry at least one annotated PDZ domain; 21 reviewed (Swiss-Prot), 0 unreviewed (TrEMBL).
| partner |
accession |
entry |
status |
length |
PDZ domains |
| APBA1 |
Q02410 |
APBA1_HUMAN |
Swiss-Prot |
837 |
2 |
| APBA2 |
Q99767 |
APBA2_HUMAN |
Swiss-Prot |
749 |
2 |
| DLG1 |
Q12959 |
DLG1_HUMAN |
Swiss-Prot |
904 |
3 |
| DLG2 |
Q15700 |
DLG2_HUMAN |
Swiss-Prot |
870 |
3 |
| DLG3 |
Q92796 |
DLG3_HUMAN |
Swiss-Prot |
817 |
3 |
| DLG4 |
P78352 |
DLG4_HUMAN |
Swiss-Prot |
724 |
3 |
| FRMPD2 |
Q68DX3 |
FRPD2_HUMAN |
Swiss-Prot |
1309 |
3 |
| GRID2IP |
A4D2P6 |
GRD2I_HUMAN |
Swiss-Prot |
1211 |
2 |
| GRIP1 |
Q9Y3R0 |
GRIP1_HUMAN |
Swiss-Prot |
1128 |
7 |
| GRIP2 |
Q9C0E4 |
GRIP2_HUMAN |
Swiss-Prot |
1043 |
7 |
| IL16 |
Q14005 |
IL16_HUMAN |
Swiss-Prot |
1332 |
4 |
| LNX1 |
Q8TBB1 |
LNX1_HUMAN |
Swiss-Prot |
728 |
4 |
| LNX2 |
Q8N448 |
LNX2_HUMAN |
Swiss-Prot |
690 |
4 |
| MAGI1 |
Q96QZ7 |
MAGI1_HUMAN |
Swiss-Prot |
1491 |
6 |
| MAGI2 |
Q86UL8 |
MAGI2_HUMAN |
Swiss-Prot |
1455 |
6 |
| MPDZ |
O75970 |
MPDZ_HUMAN |
Swiss-Prot |
2070 |
13 |
| PATJ |
Q8NI35 |
INADL_HUMAN |
Swiss-Prot |
1801 |
10 |
| PDZK1 |
Q5T2W1 |
NHRF3_HUMAN |
Swiss-Prot |
519 |
4 |
| SCRIB |
Q14160 |
SCRIB_HUMAN |
Swiss-Prot |
1655 |
4 |
| TJP1 |
Q07157 |
ZO1_HUMAN |
Swiss-Prot |
1748 |
3 |
| WHRN |
Q9P202 |
WHRN_HUMAN |
Swiss-Prot |
907 |
3 |
Q3. IntAct: one quantitative affinity dataset, not a Y2H screen
- 124 interaction records over 80 distinct partners.
- detection methods:
holdup assay ×122, bead aggregation ×1, phage display ×1.
- curated-negative flag: False=124.
- Of the GOA partner set, 8 have a quantified Kd and 13 do not (IntAct carries
kd:1(molar), a placeholder, for the latter).
| GOA partner |
best quantified Kd (µM) |
| DLG1 |
4.6 |
| DLG2 |
7.9 |
| DLG3 |
9.8 |
| DLG4 |
8.3 |
| LNX2 |
11.7 |
| MAGI1 |
21.2 |
| MAGI2 |
6.7 |
| SCRIB |
20.6 |
| APBA1 |
not quantified |
| APBA2 |
not quantified |
| FRMPD2 |
not quantified |
| GRID2IP |
not quantified |
| GRIP1 |
not quantified |
| GRIP2 |
not quantified |
| IL16 |
not quantified |
| LNX1 |
not quantified |
| MPDZ |
not quantified |
| PATJ |
not quantified |
| PDZK1 |
not quantified |
| TJP1 |
not quantified |
| WHRN |
not quantified |
Q4. The GOA partner set is selected by domain count, not by affinity
- UniProt's
NbExp equals the IntAct record count for 21/21 partners.
- IntAct partners with ≥2 records: 22; with exactly 1: 58.
- Multi-record partners absent from the UniProt/GOA set: ['NHERF4'].
- UniProt/GOA partners that are single-record: none.
So NbExp here counts how many PDZ domains of the same partner protein were assayed
within one holdup dataset, not independent experiments, and the GOA cut is NbExp ≥ 2.
The cost: 23 partners with a genuinely measured Kd
are excluded, including the tightest binders measured:
| excluded partner |
Kd (µM) |
| SNX27 |
3.7 |
| MAST2 |
4.9 |
| MAGI3 |
5.1 |
| SYNJ2BP |
7.4 |
| PDZD7 |
12.5 |
| PTPN3 |
17.3 |
| MAST1 |
19.7 |
| SNTB1 |
21.2 |
| SNTA1 |
25.6 |
| RHPN1 |
28.3 |
| TAX1BP3 |
33.8 |
| PDZRN4 |
49.3 |
| LIN7C |
53.7 |
| SNTG2 |
54.7 |
| HTRA1 |
55.0 |
| GIPC2 |
56.9 |
| SNTG1 |
64.7 |
| ARHGEF11 |
80.4 |
| PDZRN3 |
84.9 |
| ARHGEF12 |
90.0 |
| RADIL |
91.7 |
| PDZD2 |
94.9 |
| HTRA4 |
120.7 |
Q5. PAINT node reach across the human ADGRA family
| node |
human reach |
terms given |
PANTHER:PTN001738137 |
ADGRA1, ADGRA2, ADGRA3 |
GO:0005886, GO:0007166 |
PANTHER:PTN002914494 |
ADGRA3 |
GO:0009897 |
PANTHER:PTN002914505 |
ADGRA1 |
GO:0014069, GO:0098978 |
PANTHER:PTN002914520 |
ADGRA2 |
GO:0002040, GO:0007417, GO:0090263, GO:1990909 |
| IBA donor token |
resolves to |
organism |
status |
ADGRA1 ortholog? |
own experimental annotations |
MGI:MGI:1277167 |
Adgra1 (Q8C4G9, AGRA1_MOUSE) |
Mus musculus |
Swiss-Prot |
yes |
GO:0014069 EXP (PMID:28935861); GO:0014069 IDA (PMID:28935861); GO:0098978 EXP (PMID:28935861); GO:0098978 IDA (PMID:28935861) |
MGI:MGI:1917943 |
Adgra3 (Q7TT36, AGRA3_MOUSE) |
Mus musculus |
Swiss-Prot |
no — paralog |
GO:0009897 IDA (PMID:17882221) |
MGI:MGI:1925810 |
Adgra2 (Q91ZV8, AGRA2_MOUSE) |
Mus musculus |
Swiss-Prot |
no — paralog |
GO:0001525 IMP (PMID:21421844); GO:0002040 IMP (PMID:21071672); GO:0002040 IMP (PMID:23918385); GO:0005886 EXP (PMID:25558062); GO:0005886 IDA (PMID:28803732); GO:0007417 IMP (PMID:21071672); GO:0009986 IDA (PMID:21421844); GO:0010595 IDA (PMID:21421844); GO:0043542 IMP (PMID:21071672); GO:0045765 IMP (PMID:21071672); GO:0050920 IMP (PMID:21071672); GO:0090210 IMP (PMID:21421844); GO:0090210 IMP (PMID:28288111); GO:0090263 IDA (PMID:28803732); GO:1900747 IMP (PMID:21421844) |
UniProtKB:Q96PE1 |
ADGRA2 (Q96PE1, AGRA2_HUMAN) |
Homo sapiens |
Swiss-Prot |
no — paralog |
GO:0005515 IPI (PMID:15021905); GO:0005515 IPI (PMID:24550280); GO:0005515 IPI (PMID:36115835); GO:0005886 EXP (PMID:16982628); GO:0005886 EXP (PMID:21421844); GO:0005886 EXP (PMID:22013897); GO:0005886 IDA (GO_REF:0000052); GO:0060070 IDA (PMID:30026314); GO:1990909 IDA (PMID:30026314) |
ZFIN:ZDB-GENE-081104-363 (1 of 2 candidates — ambiguous xref) |
adgra2 (A0A0U2ULT4, A0A0U2ULT4_DANRE) |
Danio rerio |
TrEMBL |
no — paralog |
GO:0001944 IMP (PMID:26051822); GO:0001944 IMP (PMID:27979884); GO:0002040 IMP (PMID:26051822); GO:0005515 IPI (PMID:30026314); GO:0016055 IMP (PMID:26051822); GO:0022009 IMP (PMID:28365243); GO:1904701 IMP (PMID:35649360); GO:1990791 IMP (PMID:24004948); GO:1990791 IMP (PMID:26051822); GO:1990791 IMP (PMID:27979884) |
ZFIN:ZDB-GENE-081104-363 (1 of 2 candidates — ambiguous xref) |
adgra2 (A0A8M1P7B9, A0A8M1P7B9_DANRE) |
Danio rerio |
TrEMBL |
no — paralog |
none |
ZFIN:ZDB-GENE-131003-2 |
adgra3 (S4X0Q8, AGRA3_DANRE) |
Danio rerio |
Swiss-Prot |
no — paralog |
GO:0005886 IDA (PMID:23821037); GO:0060027 IGI (PMID:23821037); GO:0060071 IDA (PMID:23821037); GO:0097475 IGI (PMID:23821037); GO:2000095 IMP (PMID:23821037); GO:2000095 IPI (PMID:23821037) |
1 of 6 IBA donor tokens are ADGRA1 orthologs; the rest are ADGRA2/ADGRA3 paralogs.
Q6. What each legacy reference annotates
| reference |
annotations |
distinct entities |
terms (entities each) |
| PMID:12565841 |
2 |
1 |
GO:0004930 NAS (1), GO:0016020 NAS (1) |
| PMID:15203201 |
78 |
27 |
GO:0004930 TAS (25), GO:0007186 TAS (26), GO:0016020 TAS (27) |
| PMID:17212699 |
3 |
1 |
GO:0004930 NAS (1), GO:0007165 NAS (1), GO:0016020 NAS (1) |
PMID:15203201 annotates 27 distinct entities with identical evidence:
ADGRA1, ADGRA2, ADGRA3, ADGRB1, ADGRB2, ADGRB3, ADGRD1, ADGRD2, ADGRE2, ADGRE3, ADGRE4P, ADGRF1, ADGRF2P, ADGRF3, ADGRF4, ADGRF5, ADGRG3, ADGRG4, ADGRG5, ADGRG6, ADGRG7, ADGRL1, ADGRL2, ADGRL3, ADGRL4, ADGRV1, CELSR3.