PDB entry 6iyc

View 6iyc on RCSB PDB site
Description: recognition of the amyloid precursor protein by human gamma-secretase
Deposited on 2018-12-14, released 2019-01-23
The last revision was dated 2020-07-29, with a file datestamp of 2020-07-02.
Experiment type: EM
Resolution: 2.6 Å
R-factor: N/A
AEROSPACI score: 0.28 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: nicastrin
    Species: Homo sapiens [TaxId:9606]
    Gene: NCSTN, KIAA0253, UNQ1874/PRO4317
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Presenilin-1
    Species: Homo sapiens [TaxId:9606]
    Gene: PSEN1, AD3, PS1, PSNL1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P49768 (Start-466)
      • engineered mutation (111)
  • Chain 'C':
    Compound: gamma-secretase subunit aph-1a
    Species: Homo sapiens [TaxId:9606]
    Gene: APH1A, PSF, CGI-78, UNQ579/PRO1141
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: gamma-secretase subunit pen-2
    Species: Homo sapiens [TaxId:9606]
    Gene: PSENEN, PEN2, MDS033
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Amyloid-beta A4 protein
    Species: Homo sapiens [TaxId:9606]
    Gene: APP, A4, AD1
    Database cross-references and differences (RAF-indexed):
  • Heterogens: NAG, PC1, CLR

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6iycA (A:)
matagggsgadpgsrgllrllsfcvllaglcrgnsverkiyiplnktapcvrllnathqi
gcqssisgdtgvihvvekeedlqwvltdgpnppymvlleskhftrdlmeklkgrtsriag
lavsltkpspasgfspsvqcpndgfgvysnsygpefahcreiqwnslgnglayedfsfpi
flledenetkvikqcyqdhnlsqngsaptfplcamqlfshmhavistatcmrrssiqstf
sinpeivcdplsdynvwsmlkpinttgtlkpddrvvvaatrldsrsffwnvapgaesava
sfvtqlaaaealqkapdvttlprnvmfvffqgetfdyigssrmvydmekgkfpvqlenvd
sfvelgqvalrtslelwmhtdpvsqknesvrnqvedllatleksgagvpavilrrpnqsq
plppsslqrflrarnisgvvladhsgafhnkyyqsiydtaeninvsypewlspeedlnfv
tdtakaladvatvlgralyelaggtnfsdtvqadpqtvtrllygflikannswfqsilrq
dlrsylgdgplqhyiavssptnttyvvqyalanltgtvvnltreqcqdpskvpsenkdly
eyswvqgplhsnetdrlprcvrstarlaralspafelsqwssteystwtesrwkdirari
fliaskelelitltvgfgilifslivtycinakadvlfiaprepgavsy

    Sequence, based on observed residues (ATOM records):
    >6iycA (A:)
nsverkiyiplnktapcvrllnathqigcqssisgdtgvihvvekeedlqwvltdgpnpp
ymvlleskhftrdlmeklkgrtsriaglavsltkpspasgfspsvqcpndgfgvysnsyg
pefahcreiqwnslgnglayedfsfpiflledenetkvikqcyqdhnlsqngsaptfplc
amqlfshmhavistatcmrrssiqstfsinpeivcdplsdynvwsmlkpinttgtlkpdd
rvvvaatrldsrsffwnvapgaesavasfvtqlaaaealqkapdvttlprnvmfvffqge
tfdyigssrmvydmekgkfpvqlenvdsfvelgqvalrtslelwmhtdpvsqknesvrnq
vedllatleksgagvpavilrrpnqsqplppsslqrflrarnisgvvladhsgafhnkyy
qsiydtaeninvsypewlspeedlnfvtdtakaladvatvlgralyelaggtnfsdtvqa
dpqtvtrllygflikannswfqsilrqdlrsylgdgplqhyiavssptnttyvvqyalan
ltgtvvnltreqcqdpskvpsenkdlyeyswvqgplhsnetdrlprcvrstarlaralsp
afelsqwssteystwtesrwkdirarifliaskelelitltvgfgilifslivtycinak
advlfia

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6iycB (B:)
mtelpaplsyfqnaqmsednhlsntvrsqndnrerqehndrrslghpeplsngrpqgnsr
qvveqdeeedeeltlkygakhvimlfvpvtlcmvvvvatiksvsfytrkdgcliytpfte
dtetvgqralhsilnaaimisvivvmtillvvlykyrcykvihawliissllllfffsfi
ylgevfktynvavdyitvalliwnfgvvgmisihwkgplrlqqaylimisalmalvfiky
lpewtawlilavisvydlvavlcpkgplrmlvetaqernetlfpaliysstmvwlvnmae
gdpeaqrrvsknskynaesteresqdtvaenddggfseeweaqrdshlgphrstpesraa
vqelsssilagedpeergvklglgdfifysvlvgkasatasgdwnttiacfvailiglcl
tllllaifkkalpalpisitfglvfyfatdylvqpfmdqlafhqfyi

    Sequence, based on observed residues (ATOM records):
    >6iycB (B:)
ltlkygakhvimlfvpvtlcmvvvvatiksvsfytrkdgcliytpftedtetvgqralhs
ilnaaimisvivvmtillvvlykyrcykvihawliissllllfffsfiylgevfktynva
vdyitvalliwnfgvvgmisihwkgplrlqqaylimisalmalvfikylpewtawlilav
isvydlvavlcpkgplrmlvetaqernetlfpaliysstergvklglgdfifysvlvgka
satasgdwnttiacfvailiglcltllllaifkkalpalpisitfglvfyfatdylvqpf
mdqlafhqfyi

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6iycC (C:)
mgaavffgctfvafgpafalflitvagdplrviilvagaffwlvslllasvvwfilvhvt
drsdarlqygllifgaavsvllqevfrfayykllkkadeglaslsedgrspisirqmayv
sglsfgiisgvfsviniladalgpgvvgihgdspyyfltsafltaaiillhtfwgvvffd
acerrrywalglvvgshlltsgltflnpwyeasllpiyavtvsmglwafitaggslrsiq
rsllcrrqedsrvmvysalripped

    Sequence, based on observed residues (ATOM records):
    >6iycC (C:)
gaavffgctfvafgpafalflitvagdplrviilvagaffwlvslllasvvwfilvhvtd
rsdarlqygllifgaavsvllqevfrfayykllkkadeglaslsedgrspisirqmayvs
glsfgiisgvfsviniladalgpgvvgihgdspyyfltsafltaaiillhtfwgvvffda
cerrrywalglvvgshlltsgltflnpwyeasllpiyavtvsmglwafitaggslrsiqr
sll

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6iycD (D:)
mnlervsneeklnlcrkyylggfaflpflwlvnifwffreaflvpayteqsqikgyvwrs
avgflfwvivltswitifqiyrprwgalgdylsftiplgtp

    Sequence, based on observed residues (ATOM records):
    >6iycD (D:)
nlervsneeklnlcrkyylggfaflpflwlvnifwffreaflvpayteqsqikgyvwrsa
vgflfwvivltswitifqiyrprwgalgdylsftiplgtp

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6iycE (E:)
mlvffaedcgsnkgaiiglmvggvviatvivitlvmlkkkqytsihhgvvevdaavtpee
rhlskmqqngyenptykffeqmqneqkliseedllehhhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6iycE (E:)
lvffaekgaiiglmvggvviatvivitlvmlkkk