Variant

Genome Chromosome Position VCF ID Ref Alt mRNA Change mRNA Info
GRCh37 chr1 23403725 . A C CCDS30627.1:NM_015013.3:c.1667gAt>gCt_NP_055828.2:p.556D>A Homo sapiens lysine demethylase 1A (KDM1A), transcript variant 1, 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)
3zmu 1 O60341 99.54 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 80.0 0.533 G -68.4 -41.9 55.0 0.367 0.166 C:None:0.167
3zmv 1 O60341 99.54 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 87.0 0.58 G -76.4 -38.5 57.0 0.38 0.2 C:None:0.2
3zms 1 O60341 99.43 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 77.0 0.513 G -57.0 -40.9 36.0 0.24 0.273 C:Q01101:0.273
3zmt 1 O60341 99.43 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 77.0 0.513 G -57.2 -52.7 44.0 0.293 0.22 C:None:0.22
3zmz 1 O60341 99.43 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 74.0 0.493 G -65.8 -41.0 42.0 0.28 0.213 C:None:0.213
3zn0 1 O60341 99.43 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 79.0 0.527 G -62.5 -39.0 36.0 0.24 0.287 C:None:0.287
3zn1 1 O60341 99.43 0.0 X-RAY
 2013-06-12 ASP A:576 A:556 83.0 0.553 G -59.5 -42.7 44.0 0.293 0.26 C:None:0.26
4czz 1 O60341 99.43 0.0 X-RAY
 2014-06-11 ASP A:576 A:556 67.0 0.447 G -79.6 -40.3 67.0 0.447 0.0
4uv8 1 O60341 99.43 0.0 X-RAY
 2014-09-10 ASP A:576 A:556 87.0 0.58 G -70.8 -32.8 87.0 0.58 0.0 D69
 6.030
 OD1
 CAG
4uv9 1 O60341 99.43 0.0 X-RAY
 2014-09-10 ASP A:576 A:556 82.0 0.547 G -64.3 -35.6 82.0 0.547 0.0 D70
 8.651
 OD1
 CAQ
4uva 1 O60341 99.43 0.0 X-RAY
 2014-09-10 ASP A:576 A:556 83.0 0.553 G -68.3 -37.6 83.0 0.553 0.0 D73
 9.368
 OD1
 CAN
4uvb 1 O60341 99.43 0.0 X-RAY
 2014-09-10 ASP A:576 A:556 83.0 0.553 G -66.6 -37.7 83.0 0.553 0.0 D51
 9.611
 OD1
 CAB
4uvc 1 O60341 99.43 0.0 X-RAY
 2014-09-10 ASP A:576 A:556 79.0 0.527 G -61.6 -41.1 79.0 0.527 0.0
6tuy 1 O60341 94.98 0.0 X-RAY
 2021-07-21 ASP A:556 A:556 76.0 0.507 G -73.0 -30.7 76.0 0.507 0.0 NY8
NY8
NY8
HOH
 2.687
3.618
4.641
7.458
 OD2
OD1
O
O
 N3
CAS
CAP
O
2xaf 1 O60341 94.98 0.0 X-RAY
 2010-05-05 ASP A:556 A:556 83.0 0.553 G -64.2 -6.2 83.0 0.553 0.0 TCF
 7.451
 OD1
 BR
2xag 1 O60341 94.98 0.0 X-RAY
 2010-05-05 ASP A:556 A:556 69.0 0.46 G -71.5 -46.0 69.0 0.46 0.0 TCF
 8.904
 OD1
 BR
2xah 1 O60341 94.98 0.0 X-RAY
 2010-05-05 ASP A:556 A:556 71.0 0.473 G -70.5 -39.2 71.0 0.473 0.0
2xaj 1 O60341 94.98 0.0 X-RAY
 2010-05-05 ASP A:556 A:556 81.0 0.54 G -65.3 -31.0 81.0 0.54 0.0 TCA
 9.689
 OD1
 C33
2xaq 1 O60341 94.98 0.0 X-RAY
 2010-05-05 ASP A:556 A:556 84.0 0.56 S -86.8 10.5 84.0 0.56 0.0 M84
 3.506
 OD1
 CW5
2xas 1 O60341 94.98 0.0 X-RAY
 2010-05-05 ASP A:556 A:556 90.0 0.6 T -81.6 5.4 90.0 0.6 0.0 M80
 3.560
 OD1
 CW4
4uxn 1 O60341 94.98 0.0 X-RAY
 2015-02-25 ASP A:556 A:556 73.0 0.487 G -68.4 -31.5 73.0 0.487 0.0 M8A
 4.985
 CA
 CG
5lhg 1 O60341 94.98 0.0 X-RAY
 2017-02-22 ASP A:556 A:556 83.0 0.553 G -71.9 -32.7 83.0 0.553 0.0 6X3
HOH
 4.735
7.217
 OD2
OD2
 C34
O
5lhh 1 O60341 94.98 0.0 X-RAY
 2017-02-22 ASP A:556 A:556 88.0 0.587 G -72.6 -31.9 88.0 0.587 0.0 GOL
6X0
HOH
 5.353
6.838
6.102
 CA
N
N
 C1
N33
O
5lhi 1 O60341 94.98 0.0 X-RAY
 2017-02-22 ASP A:556 A:556 106.0 0.707 G -69.7 -26.7 106.0 0.707 0.0 6X5
HOH
 6.798
9.084
 N
OD1
 C25
O
6te1 1 O60341 94.98 0.0 X-RAY
 2020-06-03 ASP A:556 A:556 86.0 0.573 G -72.6 -26.6 86.0 0.573 0.0 N4K
N4K
 2.945
6.201
 OD1
OD1
 N24
C26
5l3c 1 O60341 94.86 0.0 X-RAY
 2016-05-04 ASP A:556 A:556 87.0 0.58 G -77.1 -22.5 87.0 0.58 0.0
5l3d 1 O60341 94.86 0.0 X-RAY
 2016-05-04 ASP A:556 A:556 81.0 0.54 G -62.0 -40.8 81.0 0.54 0.0 HOH
 6.492
 OD2
 O
5l3b 1 O60341 94.86 0.0 X-RAY
 2016-05-04 GLY A:556 A:556 18.0 0.24 G -77.5 -17.2 18.0 0.24 0.0
2x0l 1 O60341 100.0 0.0 X-RAY
 2010-03-02 ASP A:438 A:556 81.0 0.54 G -57.8 -40.7 13.0 0.087 0.453 C:Q5TEC6:0.453
4bay 1 O60341 99.85 0.0 X-RAY
 2013-11-27 ASP A:390 A:556 70.0 0.467 G -68.2 -33.4 70.0 0.467 0.0
2v1d 1 O60341 99.42 0.0 X-RAY
 2007-05-29 ASP A:434 A:556 85.0 0.567 G -62.0 -26.4 16.0 0.107 0.46 C:Q16695:0.46
2y48 1 O60341 99.42 0.0 X-RAY
 2011-02-16 ASP A:434 A:556 81.0 0.54 G -62.5 -43.9 43.0 0.287 0.253 C:O95863:0.253
5l3e 1 O60341 99.42 0.0 X-RAY
 2016-09-21 ASP A:434 A:556 96.0 0.64 G -67.8 -42.5 96.0 0.64 0.0 E11
E11
E11
E11
E11
 3.885
2.948
3.464
5.132
9.381
 OD1
OD1
OD2
O
O
 CAC
N3
CBI
CAW
CBI
5l3f 1 O60341 99.42 0.0 X-RAY
 2016-09-21 ASP A:434 A:556 72.0 0.48 G -58.9 -25.6 27.0 0.18 0.3 C:None:0.3
5l3g 1 O60341 99.42 0.0 X-RAY
 2016-09-21 ASP A:434 A:556 106.0 0.707 G -68.1 -25.7 53.0 0.353 0.354 C:None:0.353
5lbq 1 O60341 99.42 0.0 X-RAY
 2016-09-21 ASP A:434 A:556 73.0 0.487 G -64.9 -21.6 73.0 0.487 0.0 767
767
767
 2.892
3.531
4.604
 OD2
OD1
O
 N6
C27
C26
5lgt 1 O60341 99.42 0.0 X-RAY
 2017-02-22 ASP A:434 A:556 87.0 0.58 G -75.2 -17.3 87.0 0.58 0.0 6W3
 7.884
 N
 NBG
5lgu 1 O60341 99.42 0.0 X-RAY
 2017-02-22 ASP A:434 A:556 87.0 0.58 G -71.0 -20.6 87.0 0.58 0.0 6W1
 6.820
 N
 N2
6vyp 7 O60341 98.69 0.0 X-RAY
 2020-05-27 ASP S:388 M:556 72.0 0.48 G -66.4 -18.5 10.0 0.067 0.413 E:A0A310TTQ1:0.413
ASP U:388 m:556 67.0 0.447 G -67.1 -19.0 NA NA NA
ASP W:388 K:556 75.0 0.5 T -76.0 -6.7 13.0 0.087 0.413 A:A0A310TTQ1:0.413
 DT
 9.803
 O
 OP1
ASP Y:388 k:556 68.0 0.453 G -74.2 -19.9 NA NA NA
5lgn 1 O60341 99.85 0.0 X-RAY
 2017-02-22 ASP A:390 A:560 68.0 0.453 G -76.5 -18.1 68.0 0.453 0.0
2iw5 1 O60341 99.4 0.0 X-RAY
 2006-08-09 ASP A:386 A:556 69.0 0.46 G -58.1 -35.9 69.0 0.46 0.0 HOH
 3.278
 N
 O
2uxn 1 O60341 99.4 0.0 X-RAY
 2007-05-29 ASP A:386 A:556 65.0 0.433 G -50.5 -50.0 21.0 0.14 0.293 C:P68431:0.293
 HOH
 6.298
 OD1
 O
2uxx 1 O60341 99.4 0.0 X-RAY
 2007-08-21 ASP A:386 A:556 64.0 0.427 G -64.7 -31.5 64.0 0.427 0.0
4kum 1 O60341 99.4 0.0 X-RAY
 2014-05-07 ASP A:386 A:556 100.0 0.667 G -58.5 -35.3 100.0 0.667 0.0 THG
HOH
 6.858
7.539
 OD1
OD2
 N2
O
4xbf 1 O60341 99.4 0.0 X-RAY
 2016-04-27 ASP A:386 A:556 71.0 0.473 G -70.2 -36.9 71.0 0.473 0.0 HOH
 9.637
 H
 O
6wc6 1 O60341 99.4 0.0 X-RAY
 2021-06-30 ASP A:386 A:556 71.0 0.473 G -56.1 -28.0 71.0 0.473 0.0
2h94 1 O60341 99.4 0.0 X-RAY
 2006-07-04 ASP A:385 A:556 75.0 0.5 G -48.4 -33.4 75.0 0.5 0.0 HOH
 7.418
 O
 O
2hko 1 O60341 99.25 0.0 X-RAY
 2006-08-29 ASP A:385 A:556 60.0 0.4 G -83.4 -25.9 60.0 0.4 0.0 HOH
 2.949
 OD1
 O
7e0g 1 O60341 99.1 0.0 X-RAY
 2021-03-24 ASP A:388 A:556 70.0 0.467 G -49.6 -37.1 70.0 0.467 0.0 HOH
 2.667
 OD1
 O
6s35 1 O60341 99.4 0.0 X-RAY
 2020-02-26 ASP A:389 A:556 92.0 0.613 G -68.5 -17.5 76.0 0.507 0.106 C:None:0.107
5h6q 1 O60341 99.4 0.0 X-RAY
 2017-04-12 ASP A:392 A:556 82.0 0.547 G -50.4 -41.3 14.0 0.093 0.454 C:None:0.453
 HOH
 2.660
 OD2
 O
5h6r 1 O60341 99.4 0.0 X-RAY
 2017-04-12 ASP A:392 A:556 85.0 0.567 G -63.9 -40.7 9.0 0.06 0.507 C:None:0.507
 HOH
 5.509
 N
 O
5x60 1 O60341 99.4 0.0 X-RAY
 2017-04-12 ASP A:392 A:556 82.0 0.547 G -56.5 -40.7 14.0 0.093 0.454 C:None:0.453
 HOH
 5.459
 N
 O
5yjb 1 O60341 99.4 0.0 X-RAY
 2018-07-04 ASP A:392 A:556 80.0 0.533 G -71.3 -26.6 80.0 0.533 0.0 8WC
 6.272
 OD1
 C22
6kgk 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 87.0 0.58 G -70.2 -37.7 87.0 0.58 0.0 DJ0
HOH
 9.022
6.429
 OD1
N
 C41
O
6kgl 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 87.0 0.58 G -65.5 -38.3 87.0 0.58 0.0 DJ0
HOH
 9.131
6.426
 OD1
N
 C41
O
6kgm 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 101.0 0.673 G -63.3 -43.2 101.0 0.673 0.0 DJ0
HOH
 9.110
6.394
 OD1
OD1
 C41
O
6kgn 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 101.0 0.673 G -62.8 -43.4 101.0 0.673 0.0 DJ0
HOH
 9.137
6.385
 OD1
OD1
 C41
O
6kgo 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 76.0 0.507 G -55.4 -40.3 76.0 0.507 0.0 DJ0
HOH
 8.823
5.214
 OD1
N
 C41
O
6kgp 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 75.0 0.5 G -56.0 -40.2 75.0 0.5 0.0 DJ0
HOH
 8.815
5.233
 OD1
N
 C41
O
6kgq 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 77.0 0.513 G -70.8 -20.3 77.0 0.513 0.0 DJC
HOH
 6.379
5.231
 CA
N
 F
O
6kgr 1 O60341 99.4 0.0 X-RAY
 2020-03-25 ASP A:392 A:556 78.0 0.52 G -71.1 -20.0 78.0 0.52 0.0 DJC
HOH
 6.220
5.230
 CA
N
 F
O
7cdc 1 O60341 99.4 0.0 X-RAY
 2021-06-23 ASP A:392 A:556 84.0 0.56 G -61.8 -39.2 44.0 0.293 0.267 C:None:0.267
 HOH
 6.969
 O
 O
7cdd 1 O60341 99.4 0.0 X-RAY
 2021-06-23 ASP A:392 A:556 85.0 0.567 G -57.9 -43.4 46.0 0.307 0.26 C:None:0.26
 HOH
 7.058
 O
 O
7cde 1 O60341 99.4 0.0 X-RAY
 2021-06-23 ASP A:392 A:556 84.0 0.56 G -66.7 -36.4 47.0 0.313 0.247 C:None:0.247
 HOH
 7.412
 N
 O
7cdf 1 O60341 99.4 0.0 X-RAY
 2021-06-23 ASP A:392 A:556 80.0 0.533 G -58.1 -41.2 40.0 0.267 0.266 C:None:0.267
 HOH
 7.047
 O
 O
7cdg 1 O60341 99.4 0.0 X-RAY
 2021-06-23 ASP A:392 A:556 81.0 0.54 G -58.4 -38.5 39.0 0.26 0.28 C:None:0.28
 HOH
 8.681
 O
 O
2ejr 1 O60341 99.4 0.0 X-RAY
 2008-01-01 ASP A:385 A:556 89.0 0.593 G -40.8 -38.5 89.0 0.593 0.0 F2N
HOH
 9.375
4.158
 OD1
C
 CCI
O
2z3y 1 O60341 99.4 0.0 X-RAY
 2008-01-01 ASP A:385 A:556 85.0 0.567 G -49.2 -35.8 85.0 0.567 0.0 F2N
HOH
 9.358
5.170
 OD1
N
 CCI
O
2z5u 1 O60341 99.4 0.0 X-RAY
 2008-04-01 ASP A:385 A:556 85.0 0.567 G -47.7 -35.3 85.0 0.567 0.0 FAJ
HOH
 9.840
5.121
 OD1
N
 C9
O
3abt 1 O60341 99.4 0.0 X-RAY
 2010-07-07 ASP A:385 A:556 76.0 0.507 G -51.6 -39.6 76.0 0.507 0.0 2PF
 9.639
 CA
 FAE
3abu 1 O60341 99.4 0.0 X-RAY
 2010-07-07 ASP A:385 A:556 91.0 0.607 G -40.7 -44.2 91.0 0.607 0.0 12F
 9.690
 OD1
 C04
6k3e 1 O60341 99.4 0.0 X-RAY
 2020-05-20 ASP A:385 A:556 86.0 0.573 G -69.8 -27.3 86.0 0.573 0.0 CW0
EDO
EDO
PEG
CVO
HOH
 6.659
4.179
9.578
3.115
6.796
3.847
 OD2
CB
OD1
OD2
OD2
OD1
 C3
O1
O1
O4
C7
O
2dw4 1 O60341 99.4 0.0 X-RAY
 2007-09-04 ASP A:385 A:556 75.0 0.5 G -49.1 -42.3 75.0 0.5 0.0 HOH
 2.610
 OD2
 O
6w4k 1 O60341 99.4 0.0 X-RAY
 2020-10-21 ASP A:383 A:556 94.0 0.627 G -78.9 -40.3 94.0 0.627 0.0 V0Y
 6.316
 OD1
 C26
6nqm 1 O60341 99.4 0.0 X-RAY
 2019-02-13 ASP A:384 A:556 90.0 0.6 G -66.0 -26.9 90.0 0.6 0.0
6nqu 1 O60341 99.4 0.0 X-RAY
 2019-02-13 ASP A:384 A:556 66.0 0.44 G -65.2 -31.7 66.0 0.44 0.0 KWM
 8.955
 OD1
 C9
6nr5 1 O60341 99.4 0.0 X-RAY
 2019-07-17 ASP A:384 A:556 82.0 0.547 G -55.6 -32.2 82.0 0.547 0.0

AlphaFold DB

Entity Residue Monomer View
ID Entity Uniprot Identity Evalue Name Label Auth ASA rASA SS φ ψ
af-o60341-f1 1 O60341 94.98 0.0 ASP A:556 A:556 17.0 0.113 G -61.2 -33.2