6EJD: Human Xylosyltransferase 1

Human Xylosyltransferase 1 in complex with peptide QEEEGSGGPQGG. Determined by X-ray diffraction at 2.68 Å resolution. Released 2 May 2018.

Method
X-ray diffraction
Resolution
2.68 Å
Organism
Homo sapiens
Chains
2
Atoms
5,533
Mol. weight
87.35 kDa
Ligands
PO4
Released
2 May 2018

Explore 6EJD in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6EJD contains 35 α-helices and 37 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 35 helices, 36 β-strands

ElementResiduesLengthSheet
α-helix262-2709
α-helix274-28815
β-strand29611
β-strand328-33472
α-helix339-34911
β-strand355-36062
α-helix365-37511
β-strand381-38332
α-helix396-41015
β-strand418-42252
β-strand426-42833
α-helix432-44110
β-strand446-44832
β-strand45014
α-helix455-4628
β-strand466-47055
β-strand475-48065
α-helix482-4843
β-strand48511
β-strand49214
β-strand497-49932
α-helix500-5089
α-helix512-5209
α-helix521-5233
α-helix527-5293
α-helix531-5388
α-helix542-5443
β-strand545-54732
β-strand551-55333
α-helix557-5604
β-strand56915
β-strand57316
α-helix576-5794
α-helix581-5888
β-strand596-59833
α-helix607-61711
α-helix619-6213
β-strand629-63687
α-helix637-6393
α-helix641-6433
α-helix646-66621
β-strand677-691157
β-strand694-706137
β-strand711-721117
α-helix722-7232
β-strand72618
β-strand737-74379
β-strand746-747210
β-strand752-753210
β-strand767-77269
β-strand778-78588
β-strand791-79998
β-strand805-80849
α-helix816-8183
β-strand819-82798
β-strand830-839108
α-helix840-8423
β-strand844-845211
β-strand848-849211
α-helix850-8512
α-helix852-8587
α-helix873-8753
α-helix882-8843
α-helix885-89511
α-helix899-91315
β-strand914-92187
α-helix930-9312
β-strand93217
α-helix933-9353
α-helix945-9473
α-helix951-9533
Chain B: 0 helices, 1 β-strand
ElementResiduesLengthSheet
β-strand21616

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Xylosyltransferase 1Aprotein751Homo sapiensQ86Y38 (AlphaFold model)
Protein AMBPBprotein12Homo sapiensP02760 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>6EJD_1 Xylosyltransferase 1 (chains A)
APLVHHHHHHALDENLYFQGALADVSRPPHARKTGGSSPETKYDQPPKCDISGKEAISAL
SRAKSKHCRQEIGETYCRHKLGLLMPEKVTRFCPLEGKANKNVQWDEDSVEYMPANPVRI
AFVLVVHGRASRQLQRMFKAIYHKDHFYYIHVDKRSNYLHRQVLQVSRQYSNVRVTPWRM
ATIWGGASLLSTYLQSMRDLLEMTDWPWDFFINLSAADYPIRTNDQLVAFLSRYRDMNFL
KSHGRDNARFIRKQGLDRLFLECDAHMWRLGDRRIPEGIAVDGGSDWFLLNRRFVEYVTF
STDDLVTKMKQFYSYTLLPAESFFHTVLENSPHCDTMVDNNLRITNWNRKLGCKCQYKHI
VDWCGCSPNDFKPQDFHRFQQTARPTFFARKFEAVVNQEIIGQLDYYLYGNYPAGTPGLR
SYWENVYDEPDGIHSLSDVTLTLYHSFARLGLRRAETSLHTDGENSCRYYPMGHPASVHL
YFLADRFQGFLIKHHATNLAVSKLETLETWVMPKKVFKIASPPSDFGRLQFSEVGTDWDA
KERLFRNFGGLLGPMDEPVGMQKWGKGPNVTVTVIWVDPVNVIAATYDILIESTAEFTHY
KPPLNLPLRPGVWTVKILHHWVPVAETKFLVAPLTFSNRQPIKPEEALKLHNGPLRNAYM
EQSFQSLNPVLSLPINPAQVEQARRNAASTGTALEGWLDSLVGGMWTAMDICATGPTACP
VMQTCSQTAWSSFSPDPKSELGAVKPDGRLR
Sequence of entity 2 (B), FASTA
>6EJD_2 Protein AMBP (chains B)
QEEEGSGGPQGG

Ligands and cofactors

IDNameFormulaCopies
PO4Phosphate ionO4 P1

Primary citation

Structural Basis for the Initiation of Glycosaminoglycan Biosynthesis by Human Xylosyltransferase 1. Briggs, D.C., Hohenester, E. Structure (2018) 26:801-809.e3. DOI 10.1016/j.str.2018.03.014 · PubMed

Other PDB entries of the same protein (UniProt Q86Y38 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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