Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr2 232602807 . G A CCDS33398.1:NM_002601.2:c.181Cga>Tga_NP_002592.1:p.61R>* Homo sapiens phosphodiesterase 6D, cGMP-specific, rod, delta (PDE6D), mRNA.
pdb_id: 
label_asym_id: 
label_seq_id: 
label_comp_id: 
auth_asym_id: 
auth_seq_id: 
alphafold_id: 
label_asym_id: 
label_seq_id: 
label_comp_id: 
auth_asym_id: 
auth_seq_id: 

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 ARG A:62 BBB:61 23.0 0.102 E -108.6 112.3 23.0 0.102 0.0 9VO
HOH
 3.746
3.009
 NH1
NH2
 C8
O
ARG B:62 AAA:61 13.0 0.058 E -114.2 112.1 NA NA NA
ARG C:62 CCC:61 19.0 0.084 E -116.8 112.7 NA NA NA
ARG D:62 DDD:61 22.0 0.098 E -118.2 109.9 NA NA NA
1ksg 2 O43924 100.0 2e-110 X-RAY
 2002-05-08 ARG B:63 B:61 16.0 0.071 E -85.1 133.3 16.0 0.071 0.0 HOH
 4.258
 C
 O
1ksh 2 O43924 100.0 2e-110 X-RAY
 2002-05-08 ARG B:63 B:61 9.0 0.04 E -126.6 127.0 9.0 0.04 0.0 HOH
 3.726
 C
 O
1ksj 2 O43924 100.0 2e-110 X-RAY
 2002-05-08 ARG B:63 B:61 9.0 0.04 E -117.5 127.0 9.0 0.04 0.0 HOH
 2.666
 NH1
 O
3t5g 2 O43924 100.0 2e-110 X-RAY
 2011-10-26 ARG B:63 B:61 8.0 0.036 E -106.8 130.0 8.0 0.036 0.0 FAR
HOH
 4.074
2.881
 NH1
NH2
 C7
O
3t5i 1 O43924 100.0 2e-110 X-RAY
 2011-11-02 ARG A:63 B:61 9.0 0.04 E -106.0 124.7 NA NA NA
ARG B:63 A:61 35.0 0.156 E -102.4 114.6 20.0 0.089 0.067 F:None:0.067
 FAR
HOH
 4.391
3.085
 NH2
O
 C2
O
ARG C:63 C:61 10.0 0.044 E -103.1 128.4 NA NA NA
ARG D:63 D:61 35.0 0.156 E -107.9 119.4 NA NA NA
4jhp 1 O43924 100.0 2e-110 X-RAY
 2013-04-17 ARG A:63 B:61 10.0 0.044 E -104.1 133.5 10.0 0.044 0.0 HOH
 2.768
 NH2
 O
4jv6 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ARG A:63 B:61 8.0 0.036 E -111.0 136.9 8.0 0.036 0.0 18F
18F
HOH
 2.900
8.742
2.901
 NH1
CB
NE
 NAB
CAN
O
4jv8 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ARG A:63 B:61 9.0 0.04 E -111.4 137.2 9.0 0.04 0.0 1M1
1M1
HOH
 2.897
8.366
2.859
 NH1
CB
NE
 NAB
CAH
O
4jvb 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ARG A:63 B:61 8.0 0.036 E -103.8 129.6 8.0 0.036 0.0 1M0
HOH
 2.923
2.835
 NH1
NE
 NAZ
O
4jvf 1 O43924 100.0 2e-110 X-RAY
 2013-05-22 ARG A:63 B:61 13.0 0.058 E -116.8 132.1 13.0 0.058 0.0 17X
HOH
 2.937
3.033
 NH1
O
 NAY
O
5nal 1 O43924 100.0 3e-110 X-RAY
 2017-05-10 ARG A:61 B:61 11.0 0.049 E -105.8 130.7 11.0 0.049 0.0 8RQ
HOH
 2.968
2.845
 NH1
NH2
 OAK
O
5tb5 2 O43924 100.0 3e-110 X-RAY
 2016-11-02 ARG B:61 B:61 29.0 0.129 E -97.6 126.1 15.0 0.067 0.062 A:P01116:0.062
 FAR
EDO
HOH
 3.729
2.698
5.723
 CZ
NH2
N
 C10
O2
O
ARG D:61 D:61 29.0 0.129 E -104.1 123.7 NA NA NA
5x72 1 O43924 100.0 3e-110 X-RAY
 2017-10-04 ARG A:61 A:61 8.0 0.036 E -117.7 139.5 8.0 0.036 0.0 P59
P69
HOH
 2.538
7.502
2.780
 NH1
NH1
NE
 OAM
CAD
O
5x73 1 O43924 100.0 3e-110 X-RAY
 2017-10-04 ARG A:61 A:61 11.0 0.049 E -114.9 126.6 11.0 0.049 0.0 P59
P59
HOH
 2.491
7.680
8.270
 NH1
NH1
NH1
 OAM
CAO
O
5yav 1 O43924 100.0 3e-110 X-RAY
 2018-09-05 ARG A:61 B:61 7.0 0.031 E -107.8 136.5 7.0 0.031 0.0 8SF
HOH
 2.769
2.907
 NH1
NE
 N10
O
5yaw 1 O43924 100.0 3e-110 X-RAY
 2018-09-05 ARG A:61 B:61 10.0 0.044 E -105.4 142.5 10.0 0.044 0.0 8SL
HOH
 2.879
2.859
 NH1
NE
 N02
O
7q9r 1 O43924 100.0 3e-110 X-RAY
 2022-01-19 ARG A:61 BBB:61 8.0 0.036 E -105.9 135.7 8.0 0.036 0.0 FAR
EDO
SO4
HOH
 3.606
6.811
6.007
2.648
 CD
NH2
NH2
NH2
 C10
O2
O4
O
7q9s 1 O43924 100.0 3e-110 X-RAY
 2022-01-19 ARG A:61 BBB:61 73.0 0.324 E -98.0 133.2 51.0 0.227 0.097 D:None:0.098
 EDO
FAR
HOH
 7.469
3.065
2.509
 O
NH2
NH2
 O2
C4
O
ARG B:61 AAA:61 65.0 0.289 E -91.7 127.4 NA NA NA
7q9u 2 O43924 100.0 3e-110 X-RAY
 2022-01-26 ARG C:61 DDD:61 26.0 0.116 E -102.1 122.1 NA NA NA
ARG D:61 CCC:61 29.0 0.129 E -104.6 121.3 NA NA NA
5x74 1 O43924 99.33 9e-110 X-RAY
 2017-10-04 ARG A:61 A:61 6.0 0.027 E -109.1 134.9 6.0 0.027 0.0 JAY
HOH
 2.516
2.848
 NH1
NE
 OAK
O
5e8f 1 O43924 100.0 2e-109 X-RAY
 2015-11-18 ARG A:60 A:61 19.0 0.084 E -90.2 125.4 19.0 0.084 0.0 GER
HOH
 4.035
2.574
 NH1
NH2
 C14
O
ARG B:60 C:61 22.0 0.098 E -93.3 126.5 NA NA NA
5f2u 1 O43924 100.0 2e-109 X-RAY
 2016-04-13 ARG A:60 A:61 11.0 0.049 E -99.9 121.8 11.0 0.049 0.0 HOH
 3.092
 NE
 O
ARG B:60 B:61 12.0 0.053 E -100.3 123.9 NA NA NA
5ml2 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ARG A:60 B:61 12.0 0.053 E -112.4 136.6 12.0 0.053 0.0 NH6
HOH
 3.024
2.930
 NH1
NH2
 OAS
O
5ml3 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ARG A:60 B:61 12.0 0.053 E -115.8 136.7 12.0 0.053 0.0 DL3
HOH
 2.962
2.799
 NH1
NH2
 OAZ
O
5ml4 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ARG A:60 B:61 12.0 0.053 E -110.3 128.3 12.0 0.053 0.0 RRQ
HOH
 2.840
2.983
 NH1
O
 OAL
O
5ml6 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ARG A:60 B:61 11.0 0.049 E -112.1 134.6 11.0 0.049 0.0 9GD
HOH
 3.032
2.803
 NH1
NH2
 OAZ
O
5ml8 1 O43924 100.0 2e-109 X-RAY
 2017-02-01 ARG A:60 B:61 12.0 0.053 E -110.5 131.2 12.0 0.053 0.0 V98
HOH
 2.938
7.086
 NH1
NH2
 OBA
O
7q9q 1 O43924 100.0 2e-109 X-RAY
 2022-01-19 ARG A:64 BBB:61 18.0 0.08 E -120.0 127.8 18.0 0.08 0.0 CMT
EDO
GER
HOH
 8.374
2.720
3.577
5.051
 NH1
NH2
NH1
C
 SG
O2
C7
O
5t4x 1 O55057 98.0 3e-109 X-RAY
 2018-01-10 ARG A:81 A:61 8.0 0.036 E -104.3 140.3 8.0 0.036 0.0 HOH
 2.942
 NE
 O
5tar 2 O43924 100.0 7e-109 X-RAY
 2016-11-02 ARG B:59 B:61 22.0 0.098 E -107.0 128.1 22.0 0.098 0.0 FAR
EDO
HOH
 4.028
2.840
3.986
 NH1
NH2
C
 C11
O1
O
5e80 1 O43924 99.33 1e-108 X-RAY
 2016-05-04 ARG A:60 B:61 12.0 0.053 E -123.2 138.6 12.0 0.053 0.0 5KP
HOH
 2.871
4.288
 NH1
C
 OAJ
O
ARG B:60 A:61 10.0 0.044 E -124.5 132.7 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 ARG A:61 A:61 7.0 0.031 E -101.8 135.0