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5YJ0

Mouse Cereblon thalidomide binding domain complexed with S-form thalidomide

Functional Information from PDB Data
site_idAC1
Number of Residues9
Detailsbinding site for residue EF2 A 501
ChainResidue
AHIS381
ASER382
ATRP383
ATRP389
ATRP403
APHE405
AHOH609
eTRP383
eEF2501

site_idAC2
Number of Residues4
Detailsbinding site for residue ZN A 502
ChainResidue
ACYS326
ACYS329
ACYS394
ACYS397

site_idAC3
Number of Residues6
Detailsbinding site for residue SO4 A 503
ChainResidue
ALYS367
ALYS416
DLYS367
DLYS416
GLYS367
GLYS416

site_idAC4
Number of Residues7
Detailsbinding site for residue SO4 A 504
ChainResidue
ALYS367
ALYS404
ALYS416
AHOH612
AHOH621
GPRO414
GGLN415

site_idAC5
Number of Residues9
Detailsbinding site for residue EF2 D 501
ChainResidue
DHIS381
DSER382
DTRP383
DTRP389
DTRP403
DPHE405
DHOH624
MTRP383
MEF2501

site_idAC6
Number of Residues4
Detailsbinding site for residue ZN D 502
ChainResidue
DCYS326
DCYS329
DCYS394
DCYS397

site_idAC7
Number of Residues8
Detailsbinding site for residue SO4 D 503
ChainResidue
DPRO414
DGLN415
DHOH611
DHOH618
DHOH638
GLYS367
GLYS404
GLYS416

site_idAC8
Number of Residues8
Detailsbinding site for residue SO4 D 504
ChainResidue
APRO414
AGLN415
AHOH631
DLYS367
DLYS404
DLYS416
DHOH612
DHOH617

site_idAC9
Number of Residues10
Detailsbinding site for residue EF2 G 501
ChainResidue
GHIS381
GSER382
GTRP383
GTRP389
GTRP403
GPHE405
GHOH612
YTHR362
YTRP383
YEF2501

site_idAD1
Number of Residues4
Detailsbinding site for residue ZN G 502
ChainResidue
GCYS326
GCYS329
GCYS394
GCYS397

site_idAD2
Number of Residues3
Detailsbinding site for residue SO4 G 503
ChainResidue
GHIS381
GHOH602
YHIS381

site_idAD3
Number of Residues11
Detailsbinding site for residue EF2 J 501
ChainResidue
JHIS381
JSER382
JTRP383
JTRP389
JTRP403
JPHE405
JHOH610
bGLU361
bTHR362
bTRP383
bEF2501

site_idAD4
Number of Residues4
Detailsbinding site for residue ZN J 502
ChainResidue
JCYS326
JCYS329
JCYS394
JCYS397

site_idAD5
Number of Residues6
Detailsbinding site for residue SO4 J 503
ChainResidue
JLYS367
JLYS416
MLYS367
MLYS416
PLYS367
PLYS416

site_idAD6
Number of Residues9
Detailsbinding site for residue SO4 J 504
ChainResidue
PLYS416
PTRP418
PHOH633
JPRO414
JGLN415
JHOH623
JHOH634
PLYS367
PLYS404

site_idAD7
Number of Residues3
Detailsbinding site for residue SO4 J 505
ChainResidue
JHIS381
JHOH603
bHIS381

site_idAD8
Number of Residues10
Detailsbinding site for residue EF2 M 501
ChainResidue
DTHR362
DTRP383
DEF2501
MHIS381
MSER382
MTRP383
MTRP389
MTRP403
MPHE405
MHOH639

site_idAD9
Number of Residues4
Detailsbinding site for residue ZN M 502
ChainResidue
MCYS326
MCYS329
MCYS394
MCYS397

site_idAE1
Number of Residues7
Detailsbinding site for residue SO4 M 503
ChainResidue
JLYS367
JLYS416
JHOH614
MPRO414
MGLN415
MLYS416
MHOH635

site_idAE2
Number of Residues3
Detailsbinding site for residue SO4 M 504
ChainResidue
DHIS381
MHIS381
MHOH602

site_idAE3
Number of Residues10
Detailsbinding site for residue EF2 P 501
ChainResidue
PHIS381
PSER382
PTRP383
PTRP389
PTRP403
PPHE405
PHOH625
VTHR362
VTRP383
VEF2501

site_idAE4
Number of Residues4
Detailsbinding site for residue ZN P 502
ChainResidue
PCYS326
PCYS329
PCYS394
PCYS397

site_idAE5
Number of Residues10
Detailsbinding site for residue SO4 P 503
ChainResidue
MLYS367
MLYS404
MLYS416
MTRP418
MHOH607
MHOH626
PPRO414
PGLN415
PHOH635
PHOH638

site_idAE6
Number of Residues10
Detailsbinding site for residue EF2 S 501
ChainResidue
SHIS381
SSER382
STRP383
STRP389
STRP403
SPHE405
SHOH614
hTHR362
hTRP383
hEF2501

site_idAE7
Number of Residues4
Detailsbinding site for residue ZN S 502
ChainResidue
SCYS326
SCYS329
SCYS394
SCYS397

site_idAE8
Number of Residues9
Detailsbinding site for residue SO4 S 503
ChainResidue
SPRO414
SGLN415
SHOH642
YLYS367
YLYS404
YLYS416
YTRP418
YHOH605
YHOH627

site_idAE9
Number of Residues3
Detailsbinding site for residue SO4 S 504
ChainResidue
SHIS381
SHOH633
hHIS381

site_idAF1
Number of Residues10
Detailsbinding site for residue EF2 V 501
ChainResidue
PTHR362
PTRP383
PEF2501
VHIS381
VSER382
VTRP383
VTRP389
VTRP403
VPHE405
VHOH609

site_idAF2
Number of Residues4
Detailsbinding site for residue ZN V 502
ChainResidue
VCYS326
VCYS329
VCYS394
VCYS397

site_idAF3
Number of Residues9
Detailsbinding site for residue SO4 V 503
ChainResidue
SLYS367
SLYS404
SLYS416
STRP418
SHOH621
VPRO414
VGLN415
VHOH618
VHOH638

site_idAF4
Number of Residues6
Detailsbinding site for residue SO4 V 504
ChainResidue
SLYS367
SLYS416
VLYS367
VLYS416
YLYS367
YLYS416

site_idAF5
Number of Residues3
Detailsbinding site for residue SO4 V 505
ChainResidue
PHIS381
VHIS381
VHOH631

site_idAF6
Number of Residues10
Detailsbinding site for residue EF2 Y 501
ChainResidue
GTHR362
GTRP383
GEF2501
YHIS381
YSER382
YTRP383
YTRP389
YTRP403
YPHE405
YHOH645

site_idAF7
Number of Residues4
Detailsbinding site for residue ZN Y 502
ChainResidue
YCYS326
YCYS329
YCYS394
YCYS397

site_idAF8
Number of Residues7
Detailsbinding site for residue SO4 Y 503
ChainResidue
VLYS367
VLYS416
VHOH617
YPRO414
YGLN415
YLYS416
YHOH635

site_idAF9
Number of Residues10
Detailsbinding site for residue EF2 b 501
ChainResidue
JTHR362
JTRP383
JEF2501
bHIS381
bSER382
bTRP383
bTRP389
bTRP403
bPHE405
bHOH626

site_idAG1
Number of Residues4
Detailsbinding site for residue ZN b 502
ChainResidue
bCYS326
bCYS329
bCYS394
bCYS397

site_idAG2
Number of Residues10
Detailsbinding site for residue SO4 b 503
ChainResidue
bPRO414
bGLN415
bHOH605
bHOH635
eLYS367
eLYS404
eLYS416
eTRP418
eHOH606
eHOH623

site_idAG3
Number of Residues10
Detailsbinding site for residue EF2 e 501
ChainResidue
ATHR362
ATRP383
AEF2501
eHIS381
eSER382
eTRP383
eTRP389
eTRP403
ePHE405
eHOH632

site_idAG4
Number of Residues4
Detailsbinding site for residue ZN e 502
ChainResidue
eCYS326
eCYS329
eCYS394
eCYS397

site_idAG5
Number of Residues6
Detailsbinding site for residue SO4 e 503
ChainResidue
bLYS367
bLYS416
eLYS367
eLYS416
hLYS367
hLYS416

site_idAG6
Number of Residues7
Detailsbinding site for residue SO4 e 504
ChainResidue
ePRO414
eGLN415
eLYS416
eHOH636
hLYS367
hLYS416
hHOH613

site_idAG7
Number of Residues3
Detailsbinding site for residue SO4 e 505
ChainResidue
AHIS381
eHIS381
eHOH602

site_idAG8
Number of Residues10
Detailsbinding site for residue EF2 h 501
ChainResidue
STHR362
STRP383
SEF2501
hHIS381
hSER382
hTRP383
hTRP389
hTRP403
hPHE405
hHOH610

site_idAG9
Number of Residues4
Detailsbinding site for residue ZN h 502
ChainResidue
hCYS326
hCYS329
hCYS394
hCYS397

site_idAH1
Number of Residues9
Detailsbinding site for residue SO4 h 503
ChainResidue
bLYS367
bLYS404
bLYS416
bTRP418
hPRO414
hGLN415
hHOH607
hHOH624
hHOH640

site_idAH2
Number of Residues10
Detailsbinding site for residue EF2 k 501
ChainResidue
kHIS381
kSER382
kTRP383
kTRP389
kTRP403
kPHE405
kHOH641
tTHR362
tTRP383
tEF2501

site_idAH3
Number of Residues4
Detailsbinding site for residue ZN k 502
ChainResidue
kCYS326
kCYS329
kCYS394
kCYS397

site_idAH4
Number of Residues3
Detailsbinding site for residue SO4 k 503
ChainResidue
kHIS381
kHOH602
tHIS381

site_idAH5
Number of Residues6
Detailsbinding site for residue SO4 k 504
ChainResidue
kPRO414
kGLN415
kLYS416
kHOH634
nLYS367
nLYS416

site_idAH6
Number of Residues10
Detailsbinding site for residue EF2 n 501
ChainResidue
nHIS381
nSER382
nTRP383
nTRP389
nTRP403
nPHE405
nHOH623
qTHR362
qTRP383
qEF2501

site_idAH7
Number of Residues4
Detailsbinding site for residue ZN n 502
ChainResidue
nCYS326
nCYS329
nCYS394
nCYS397

site_idAH8
Number of Residues9
Detailsbinding site for residue SO4 n 503
ChainResidue
nPRO414
nGLN415
nHOH613
nHOH638
nHOH651
qLYS367
qLYS404
qLYS416
qTRP418

site_idAH9
Number of Residues6
Detailsbinding site for residue SO4 n 504
ChainResidue
kLYS367
kLYS416
nLYS367
nLYS416
qLYS367
qLYS416

site_idAI1
Number of Residues3
Detailsbinding site for residue SO4 n 505
ChainResidue
nHIS381
nHOH603
qHIS381

site_idAI2
Number of Residues10
Detailsbinding site for residue EF2 q 501
ChainResidue
nTHR362
nTRP383
nEF2501
qHIS381
qSER382
qTRP383
qTRP389
qTRP403
qPHE405
qHOH612

site_idAI3
Number of Residues4
Detailsbinding site for residue ZN q 502
ChainResidue
qCYS326
qCYS329
qCYS394
qCYS397

site_idAI4
Number of Residues9
Detailsbinding site for residue SO4 q 503
ChainResidue
kLYS367
kLYS404
kLYS416
kTRP418
kHOH607
kHOH629
qPRO414
qGLN415
qHOH635

site_idAI5
Number of Residues10
Detailsbinding site for residue EF2 t 501
ChainResidue
kTHR362
kTRP383
kEF2501
tHIS381
tSER382
tTRP383
tTRP389
tTRP403
tPHE405
tHOH611

site_idAI6
Number of Residues4
Detailsbinding site for residue ZN t 502
ChainResidue
tCYS326
tCYS329
tCYS394
tCYS397

site_idAI7
Number of Residues9
Detailsbinding site for residue SO4 t 503
ChainResidue
tLYS367
tLYS404
tPRO414
tGLN415
tLYS416
tHOH609
tHOH613
tHOH622
tHOH623

site_idAI8
Number of Residues6
Detailsbinding site for residue SO4 t 504
ChainResidue
tLYS367
tLYS367
tLYS367
tLYS416
tLYS416
tLYS416

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues112
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"25108355","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

246031

PDB entries from 2025-12-10

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