Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr7 107559543 . C A CCDS5749.1:NM_000108.3:c.1463cCg>cAg_NP_000099.2:p.488P>Q Homo sapiens dihydrolipoamide dehydrogenase (DLD), 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)
3rnm 1 P09622 99.37 0.0 X-RAY
 2011-05-04 PRO A:474 A:453 68.0 0.469 S -87.5 123.4 2.0 0.014 0.455 B:P09622:0.455
 FAD
HOH
 3.693
5.535
 CD
CA
 O4
O
PRO B:474 B:453 65.0 0.448 S -89.3 121.8 2.0 0.014 0.434 A:P09622:0.434
 FAD
HOH
 3.743
4.225
 CD
N
 O4
O
PRO C:474 C:453 61.0 0.421 T -95.9 126.6 NA NA NA
PRO D:474 D:453 63.0 0.434 T -91.9 122.6 NA NA NA
1zy8 1 P09622 100.0 0.0 X-RAY
 2005-11-15 PRO A:453 A:453 53.0 0.366 S -91.7 131.4 1.0 0.007 0.359 B:P09622:0.359
 FAD
HOH
 4.426
3.749
 CD
CA
 O4
O
PRO B:453 B:453 57.0 0.393 S -91.0 129.3 0.0 0.0 0.393 A:P09622:0.393
 FAD
HOH
 4.083
6.380
 CD
CB
 O4
O
PRO C:453 C:453 56.0 0.386 T -100.5 130.6 NA NA NA
PRO D:453 D:453 62.0 0.428 T -99.4 122.5 NA NA NA
PRO E:453 E:453 59.0 0.407 S -109.4 130.6 NA NA NA
PRO F:453 F:453 57.0 0.393 S -106.4 142.3 NA NA NA
PRO G:453 G:453 54.0 0.372 T -101.4 129.7 NA NA NA
PRO H:453 H:453 55.0 0.379 S -91.4 142.2 NA NA NA
PRO I:453 I:453 65.0 0.448 S -99.6 147.5 NA NA NA
PRO J:453 J:453 54.0 0.372 S -96.1 141.7 NA NA NA
6i4q 1 P09622 100.0 0.0 X-RAY
 2019-11-20 PRO A:475 A:453 61.0 0.421 S -92.3 126.7 1.0 0.007 0.414 B:P09622:0.414
 FAD
HOH
 3.227
3.796
 HD3
HD2
 HN3
O
PRO B:475 B:453 62.0 0.428 S -91.7 126.5 2.0 0.014 0.414 A:P09622:0.414
 FAD
HOH
 3.487
4.019
 HD2
HD2
 O4
O
6i4t 1 P09622 99.79 0.0 X-RAY
 2019-11-20 PRO A:475 A:453 59.0 0.407 S -90.8 128.3 0.0 0.0 0.407 B:P09622:0.407
 FAD
HOH
 3.226
3.740
 HD2
HD2
 O4
O
PRO B:475 B:453 62.0 0.428 S -91.3 125.5 1.0 0.007 0.421 A:P09622:0.421
 FAD
HOH
 3.312
3.938
 HD2
HD2
 O4
O
1zmc 1 P09622 99.79 0.0 X-RAY
 2005-06-28 PRO A:453 A:453 61.0 0.421 T -97.5 125.2 1.0 0.007 0.414 B:P09622:0.414
 FAD
HOH
 4.048
3.997
 CD
N
 O4
O
PRO B:453 B:453 63.0 0.434 S -101.7 132.5 1.0 0.007 0.427 A:P09622:0.428
 FAD
HOH
 4.120
4.054
 CD
N
 O4
O
PRO C:453 C:453 60.0 0.414 S -102.1 132.3 NA NA NA
PRO D:453 D:453 60.0 0.414 S -99.0 134.7 NA NA NA
PRO E:453 E:453 58.0 0.4 S -99.5 131.4 NA NA NA
PRO F:453 F:453 59.0 0.407 S -98.1 135.8 NA NA NA
PRO G:453 G:453 63.0 0.434 S -102.3 127.7 NA NA NA
PRO H:453 H:453 60.0 0.414 S -101.5 135.4 NA NA NA
1zmd 1 P09622 99.79 0.0 X-RAY
 2005-06-28 PRO A:453 A:453 63.0 0.434 T -100.4 119.6 2.0 0.014 0.42 B:P09622:0.421
 FAD
NAI
HOH
 3.504
6.134
4.072
 CD
CD
N
 O4
N7N
O
PRO B:453 B:453 61.0 0.421 T -102.3 128.1 1.0 0.007 0.414 A:P09622:0.414
 FAD
NAI
HOH
 3.702
6.388
4.004
 CD
CD
N
 O4
O7N
O
PRO C:453 C:453 60.0 0.414 S -99.3 126.6 NA NA NA
PRO D:453 D:453 63.0 0.434 S -98.8 122.8 NA NA NA
PRO E:453 E:453 59.0 0.407 S -99.9 127.4 NA NA NA
PRO F:453 F:453 61.0 0.421 S -99.2 125.8 NA NA NA
PRO G:453 G:453 61.0 0.421 S -100.3 128.6 NA NA NA
PRO H:453 H:453 59.0 0.407 S -101.1 129.8 NA NA NA
2f5z 1 P09622 99.79 0.0 X-RAY
 2006-01-17 PRO A:453 A:453 62.0 0.428 S -98.2 136.9 1.0 0.007 0.421 B:P09622:0.421
 FAD
HOH
 4.155
3.799
 CD
N
 O4
O
PRO B:453 B:453 58.0 0.4 S -98.5 130.6 1.0 0.007 0.393 A:P09622:0.393
 FAD
HOH
 4.145
4.082
 CD
N
 O4
O
PRO C:453 C:453 66.0 0.455 S -92.6 131.0 NA NA NA
PRO D:453 D:453 60.0 0.414 S -97.0 130.5 NA NA NA
PRO E:453 E:453 62.0 0.428 S -95.5 133.5 NA NA NA
PRO F:453 F:453 59.0 0.407 S -97.6 134.3 NA NA NA
PRO G:453 G:453 64.0 0.441 S -97.8 129.7 NA NA NA
PRO H:453 H:453 63.0 0.434 S -95.2 126.7 NA NA NA
PRO I:453 I:453 65.0 0.448 S -97.4 127.8 NA NA NA
PRO J:453 J:453 65.0 0.448 T -99.1 122.7 NA NA NA
5nhg 1 P09622 100.0 0.0 X-RAY
 2018-05-16 PRO A:474 A:453 59.0 0.407 S -93.8 127.8 1.0 0.007 0.4 B:P09622:0.4
 FAD
HOH
 3.298
5.794
 HD3
HD2
 O4
O
PRO B:474 B:453 60.0 0.414 S -94.2 129.2 1.0 0.007 0.407 A:P09622:0.407
 FAD
HOH
 3.197
4.013
 HD3
HD2
 O4
O
PRO C:474 C:453 58.0 0.4 S -94.6 127.5 NA NA NA
PRO D:474 D:453 63.0 0.434 S -95.6 127.4 NA NA NA
PRO E:474 E:453 59.0 0.407 T -96.0 127.0 NA NA NA
PRO F:474 F:453 59.0 0.407 S -95.4 130.2 NA NA NA
PRO G:474 G:453 62.0 0.428 S -95.5 127.8 NA NA NA
PRO H:474 H:453 57.0 0.393 S -95.6 130.8 NA NA NA
6i4u 1 P09622 99.79 0.0 X-RAY
 2019-11-20 PRO A:475 A:453 54.0 0.372 S -92.4 128.1 1.0 0.007 0.365 B:P09622:0.366
 FAD
HOH
 3.347
3.843
 HD2
HD2
 O4
O
PRO B:475 B:453 60.0 0.414 S -91.9 126.9 1.0 0.007 0.407 A:P09622:0.407
 FAD
HOH
 3.325
4.021
 HD2
HD2
 O4
O
5j5z 1 P09622 99.79 0.0 X-RAY
 2017-11-15 PRO A:475 A:453 61.0 0.421 S -97.6 129.0 1.0 0.007 0.414 B:P09622:0.414
 FAD
HOH
 3.940
3.453
 CD
CA
 O4
O
PRO B:475 B:453 63.0 0.434 S -93.4 131.7 1.0 0.007 0.427 A:P09622:0.428
 FAD
HOH
 3.851
3.668
 CD
CA
 O4
O
6hg8 1 P09622 99.79 0.0 X-RAY
 2019-09-04 PRO A:475 A:453 60.0 0.414 S -101.0 122.5 1.0 0.007 0.407 B:P09622:0.407
 FAD
HOH
 3.942
4.149
 CD
N
 O4
O
PRO B:475 B:453 63.0 0.434 S -95.9 120.2 1.0 0.007 0.427 A:P09622:0.428
 FAD
SO4
HOH
 3.919
7.090
4.128
 CD
O
N
 O4
O2
O
6i4r 1 P09622 99.79 0.0 X-RAY
 2019-11-20 PRO A:475 A:453 61.0 0.421 S -93.9 125.3 1.0 0.007 0.414 B:P09622:0.414
 FAD
HOH
 3.364
3.939
 HD3
HD2
 O4
O
PRO B:475 B:453 64.0 0.441 S -93.8 123.9 1.0 0.007 0.434 A:P09622:0.434
 FAD
HOH
 3.396
3.939
 HD3
HD2
 HN3
O
6i4p 1 P09622 99.79 0.0 X-RAY
 2019-11-20 PRO A:475 A:453 61.0 0.421 S -91.5 127.6 1.0 0.007 0.414 B:P09622:0.414
 FAD
HOH
 3.324
3.853
 HD3
HD2
 O4
O
PRO B:475 B:453 63.0 0.434 S -93.0 125.9 2.0 0.014 0.42 A:P09622:0.421
 FAD
HOH
 3.448
3.941
 HD2
HD2
 O4
O
6i4s 1 P09622 99.79 0.0 X-RAY
 2019-11-20 PRO A:475 A:453 59.0 0.407 S -93.3 126.4 0.0 0.0 0.407 B:P09622:0.407
 FAD
HOH
 3.338
3.060
 HD2
HA
 O4
O
PRO B:475 B:453 64.0 0.441 S -93.7 125.4 1.0 0.007 0.434 A:P09622:0.434
 FAD
HOH
 3.264
3.889
 HD2
HD2
 O4
O
6i4z 1 P09622 99.79 0.0 X-RAY
 2019-11-20 LEU A:475 A:453 61.0 0.359 T 72.8 27.0 3.0 0.018 0.341 B:P09622:0.341
 FAD
HOH
 4.081
2.759
 HG
HA
 O4
O
LEU B:475 B:453 62.0 0.365 T 70.2 28.5 2.0 0.012 0.353 A:P09622:0.353
 FAD
HOH
 3.562
2.430
 HD12
HA
 O4
O
LEU C:475 C:453 54.0 0.318 T 73.1 28.9 NA NA NA
LEU D:475 D:453 57.0 0.335 T 70.3 28.5 NA NA NA
LEU E:475 E:453 51.0 0.3 T 72.8 29.0 NA NA NA
LEU F:475 F:453 52.0 0.306 T 71.4 29.3 NA NA NA
LEU G:475 G:453 51.0 0.3 T 71.2 31.5 NA NA NA
LEU H:475 H:453 69.0 0.406 T 74.0 27.6 NA NA NA

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-p09622-f1 1 P09622 100.0 0.0 PRO A:488 A:488 62.0 0.428 S -84.6 130.8