Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr2 232597706 . C A CCDS33398.1:NM_002601.2:c.409Gat>Tat_NP_002592.1:p.137D>Y Homo sapiens phosphodiesterase 6D, cGMP-specific, rod, delta (PDE6D), mRNA.
pdb_id: 
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label_seq_id: 
label_comp_id: 
auth_asym_id: 
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alphafold_id: 
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PDB

Entity Residue Monomer BioUnit Ligand View
PDB Entity Uniprot Identity Evalue ExpMethod Date Name Label Auth ASA rASA SS φ ψ ASA rASA ΔASA Interaction Name Distance Atom(p) Atom(l)
7qjk 1 O43924 100.0 2e-110 X-RAY
 2022-01-26 ASP A:138 BBB:137 125.0 0.833 T -133.3 46.8 125.0 0.833 0.0
ASP B:138 AAA:137 137.0 0.913 T -128.3 30.4 NA NA NA
ASP C:138 CCC:137 118.0 0.787 T -134.1 32.0 NA NA NA
ASP D:138 DDD:137 128.0 0.853 T 69.7 34.2 NA NA NA
1ksg 2 O43924 100.0 2e-110 X-RAY
 2002-05-08 ASP B:139 B:137 129.0 0.86 T -126.6 21.7 129.0 0.86 0.0 HOH
 8.142
 OD1
 O
1ksh 2 O43924 100.0 2e-110 X-RAY
 2002-05-08 ASP B:139 B:137 129.0 0.86 T -120.1 13.8 129.0 0.86 0.0 HOH
 3.442
 O
 O
1ksj 2 O43924 100.0 2e-110 X-RAY
 2002-05-08 ASP B:139 B:137 119.0 0.793 T -132.7 2.2 119.0 0.793 0.0 HOH
 3.891
 O
 O
3t5g 2 O43924 100.0 2e-110 X-RAY
 2011-10-26 ASP B:139 B:137 123.0 0.82 T -96.2 -1.2 123.0 0.82 0.0 HOH
 3.138
 OD1
 O
3t5i 1 O43924 100.0 2e-110 X-RAY
 2011-11-02 ASP A:139 B:137 133.0 0.887 T -81.5 -26.7 NA NA NA
ASP B:139 A:137 131.0 0.873 T -99.2 6.6 131.0 0.873 0.0 HOH
 3.659
 O
 O
ASP C:139 C:137 137.0 0.913 T -89.6 -9.0 NA NA NA
ASP D:139 D:137 130.0 0.867 T -86.0 -10.9 NA NA NA
4jhp 1 O43924 100.0 2e-110 X-RAY
 2013-04-17 ASP A:139 B:137 132.0 0.88 T -107.7 -5.3 132.0 0.88 0.0 HOH
 3.221
 N
 O
4jv6 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ASP A:139 B:137 96.0 0.64 T -89.4 -9.6 96.0 0.64 0.0 HOH
 2.660
 CB
 O
4jv8 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ASP A:139 B:137 132.0 0.88 T -99.8 5.2 132.0 0.88 0.0 HOH
 2.487
 OD1
 O
4jvb 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ASP A:139 B:137 130.0 0.867 T -102.6 7.6 130.0 0.867 0.0 HOH
 2.286
 OD2
 O
4jvf 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ASP A:139 B:137 107.0 0.713 T -81.3 -10.0 107.0 0.713 0.0 HOH
 9.030
 N
 O
5nal 1 O43924 100.0 3e-110 X-RAY
 2017-05-10 ASP A:137 B:137 133.0 0.887 T -109.2 10.0 133.0 0.887 0.0 HOH
 6.145
 O
 O
5tb5 2 O43924 100.0 3e-110 X-RAY
 2016-11-02 ASP B:137 B:137 100.0 0.667 T -94.3 7.3 100.0 0.667 0.0 HOH
 3.428
 O
 O
ASP D:137 D:137 135.0 0.9 T -96.9 22.7 NA NA NA
5x72 1 O43924 100.0 3e-110 X-RAY
 2017-10-04 ASP A:137 A:137 124.0 0.827 T -103.0 9.8 124.0 0.827 0.0 HOH
 2.904
 N
 O
5x73 1 O43924 100.0 3e-110 X-RAY
 2017-10-04 ASP A:137 A:137 89.0 0.593 T -94.9 -1.9 89.0 0.593 0.0 HOH
 2.798
 CB
 O
5yav 1 O43924 100.0 3e-110 X-RAY
 2018-09-05 ASP A:137 B:137 92.0 0.613 T -106.0 -8.0 92.0 0.613 0.0 HOH
 3.409
 O
 O
5yaw 1 O43924 100.0 3e-110 X-RAY
 2018-09-05 ASP A:137 B:137 125.0 0.833 T -103.8 4.7 125.0 0.833 0.0 HOH
 2.663
 N
 O
7q9r 1 O43924 100.0 3e-110 X-RAY
 2022-01-19 ASP A:137 BBB:137 127.0 0.847 T -108.5 7.0 127.0 0.847 0.0 HOH
 2.563
 OD1
 O
7q9s 1 O43924 100.0 3e-110 X-RAY
 2022-01-19 ASP A:137 BBB:137 106.0 0.707 T -85.2 -15.3 106.0 0.707 0.0 HOH
 3.791
 OD1
 O
ASP B:137 AAA:137 122.0 0.813 T -91.2 -12.7 NA NA NA
7q9u 2 O43924 100.0 3e-110 X-RAY
 2022-01-26 ASP C:137 DDD:137 131.0 0.873 T -109.6 -3.9 NA NA NA
ASP D:137 CCC:137 104.0 0.693 T -108.7 -4.9 NA NA NA
5x74 1 O43924 99.33 9e-110 X-RAY
 2017-10-04 ASP A:137 A:137 134.0 0.893 T -103.2 6.0 134.0 0.893 0.0 HOH
 6.100
 O
 O
5e8f 1 O43924 100.0 2e-109 X-RAY
 2015-11-18 ASP A:136 A:137 132.0 0.88 T -109.8 4.4 132.0 0.88 0.0 HOH
 5.417
 N
 O
ASP B:136 C:137 127.0 0.847 T -101.1 -6.3 NA NA NA
5f2u 1 O43924 100.0 2e-109 X-RAY
 2016-04-13 ASP A:136 A:137 108.0 0.72 T -104.2 -0.7 108.0 0.72 0.0 HOH
 4.525
 OD1
 O
ASP B:136 B:137 102.0 0.68 T -97.6 -2.4 NA NA NA
5ml2 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ASP A:136 B:137 129.0 0.86 T -104.4 10.4 129.0 0.86 0.0 HOH
 2.897
 N
 O
5ml3 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ASP A:136 B:137 106.0 0.707 T -98.2 4.8 106.0 0.707 0.0 HOH
 2.600
 OD1
 O
5ml4 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ASP A:136 B:137 96.0 0.64 T -95.9 -7.6 96.0 0.64 0.0 HOH
 8.772
 O
 O
5ml6 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ASP A:136 B:137 131.0 0.873 T -101.1 2.0 131.0 0.873 0.0 HOH
 3.589
 O
 O
5ml8 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ASP A:136 B:137 132.0 0.88 T -100.3 0.0 132.0 0.88 0.0 HOH
 8.890
 OD1
 O
7q9q 1 O43924 100.0 2e-109 X-RAY
 2022-01-19 ASP A:140 BBB:137 119.0 0.793 T -105.0 0.7 119.0 0.793 0.0 HOH
 2.571
 O
 O
5t4x 1 O55057 98.0 3e-109 X-RAY
 2018-01-10 ASP A:157 A:137 95.0 0.633 T -74.3 -23.2 95.0 0.633 0.0 HOH
 3.035
 O
 O
5tar 2 O43924 100.0 7e-109 X-RAY
 2016-11-02 ASP B:135 B:137 136.0 0.907 T -101.5 8.2 136.0 0.907 0.0 HOH
 9.000
 N
 O
5e80 1 O43924 99.33 1e-108 X-RAY
 2016-05-04 ASP A:136 B:137 118.0 0.787 T -86.4 8.0 118.0 0.787 0.0 HOH
 4.920
 OD1
 O
ASP B:136 A:137 88.0 0.587 T -98.7 -17.3 NA NA NA

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-o43924-f1 1 O43924 100.0 1e-110 ASP A:137 A:137 128.0 0.853 T -89.4 -5.5