PDB entry 2ypt

View 2ypt on RCSB PDB site
Description: crystal structure of the human nuclear membrane zinc metalloprotease zmpste24 mutant (e336a) in complex with a synthetic csim tetrapeptide from the c-terminus of prelamin a
Deposited on 2012-11-01, released 2012-12-05
The last revision was dated 2018-01-24, with a file datestamp of 2018-01-19.
Experiment type: XRAY
Resolution: 3.8 Å
R-factor: N/A
AEROSPACI score: 0.07 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: caax prenyl protease 1 homolog
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot O75844
      • variant (136)
      • engineered mutation (335)
  • Chain 'B':
    Compound: caax prenyl protease 1 homolog
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot O75844
      • variant (136)
      • engineered mutation (335)
  • Chain 'D':
    Compound: caax prenyl protease 1 homolog
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot O75844
      • variant (136)
      • engineered mutation (335)
  • Chain 'E':
    Compound: caax prenyl protease 1 homolog
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot O75844
      • variant (136)
      • engineered mutation (335)
  • Chain 'F':
    Compound: Prelamin-A/C
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Prelamin-A/C
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: Prelamin-A/C
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: Prelamin-A/C
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: ZN

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:
    >2yptA (A:)
mgmwasldalwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimd
setfeksrlyqldkstfsfwsglysetegtlillfggipylwrlsgrfcgyagfgpeyei
tqslvflllatlfsalaglpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillp
vsslllyiikiggdyffiyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeiev
maksidfpltkvyvvegskrsshsnayfygffknkrivlfdtlleeysvlnkdiqedsgm
eprneeegnseeikakvknkkqgckneevlavlghalghwklghtvkniiisqmnsflcf
flfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfefqada
fakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalktmkqhaenly
fq

    Sequence, based on observed residues (ATOM records):
    >2yptA (A:)
gmwasldalwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimds
etfeksrlyqldkstfsfwsglysetegtlillfggipylwrlsgrpeyeitqslvflll
atlfsalaglpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillpvsslllyii
kiggdyffiyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeievmaksidfpl
tkvyvvegskrsshsnayfygfkrivlfdtlleqgckneevlavlghalghwklghtvkn
iiisqmnsflcfflfavligrkelfaafgfydsqptliglliifqfifspynevlsfclt
vlsrrfefqadafakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqa
lktm

  • Chain 'B':
    Sequence, based on SEQRES records:
    >2yptB (B:)
mgmwasldalwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimd
setfeksrlyqldkstfsfwsglysetegtlillfggipylwrlsgrfcgyagfgpeyei
tqslvflllatlfsalaglpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillp
vsslllyiikiggdyffiyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeiev
maksidfpltkvyvvegskrsshsnayfygffknkrivlfdtlleeysvlnkdiqedsgm
eprneeegnseeikakvknkkqgckneevlavlghalghwklghtvkniiisqmnsflcf
flfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfefqada
fakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalktmkqhaenly
fq

    Sequence, based on observed residues (ATOM records):
    >2yptB (B:)
lwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimdsetfeksrl
yqldkstfsfwsglysetegtlillfggipylwrlsgrpeyeitqslvflllatlfsala
glpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillpvsslllyiikiggdyff
iyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeievmaksidfpltkvyvveg
skrsshsnayfygfkrivlfdtlleqgckneevlavlghalghwklghtvkniiisqmns
flcfflfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfef
qadafakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalktm

  • Chain 'D':
    Sequence, based on SEQRES records:
    >2yptD (D:)
mgmwasldalwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimd
setfeksrlyqldkstfsfwsglysetegtlillfggipylwrlsgrfcgyagfgpeyei
tqslvflllatlfsalaglpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillp
vsslllyiikiggdyffiyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeiev
maksidfpltkvyvvegskrsshsnayfygffknkrivlfdtlleeysvlnkdiqedsgm
eprneeegnseeikakvknkkqgckneevlavlghalghwklghtvkniiisqmnsflcf
flfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfefqada
fakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalktmkqhaenly
fq

    Sequence, based on observed residues (ATOM records):
    >2yptD (D:)
lwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimdsetfeksrl
yqldkstfsfwsglysetegtlillfggipylwrlsgrpeyeitqslvflllatlfsala
glpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillpvsslllyiikiggdyff
iyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeievmaksidfpltkvyvveg
skrsshsnayfygfkrivlfdtlleqgckneevlavlghalghwklghtvkniiisqmns
flcfflfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfef
qadafakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalkt

  • Chain 'E':
    Sequence, based on SEQRES records:
    >2yptE (E:)
mgmwasldalwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimd
setfeksrlyqldkstfsfwsglysetegtlillfggipylwrlsgrfcgyagfgpeyei
tqslvflllatlfsalaglpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillp
vsslllyiikiggdyffiyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeiev
maksidfpltkvyvvegskrsshsnayfygffknkrivlfdtlleeysvlnkdiqedsgm
eprneeegnseeikakvknkkqgckneevlavlghalghwklghtvkniiisqmnsflcf
flfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfefqada
fakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalktmkqhaenly
fq

    Sequence, based on observed residues (ATOM records):
    >2yptE (E:)
lwempaekrifgavllfswtvylwetflaqrqrriykttthvppelgqimdsetfeksrl
yqldkstfsfwsglysetegtlillfggipylwrlsgrpeyeitqslvflllatlfsala
glpwslyntfvieekhgfnqqtlgffmkdaikkfvvtqcillpvsslllyiikiggdyff
iyawlftlvvslvlvtiyadyiaplfdkftplpegklkeeievmaksidfpltkvyvveg
skrsshsnayfygfkrivlfdtllegckneevlavlghalghwklghtvkniiisqmnsf
lcfflfavligrkelfaafgfydsqptliglliifqfifspynevlsfcltvlsrrfefq
adafakklgkakdlysaliklnkdnlgfpvsdwlfsmwhyshppllerlqalkt

  • Chain 'F':
    Sequence, based on SEQRES records:
    >2yptF (F:)
csim

    Sequence, based on observed residues (ATOM records):
    >2yptF (F:)
csi

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records:
    >2yptG (G:)
csim

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records:
    >2yptH (H:)
csim

  • Chain 'I':
    Sequence, based on SEQRES records:
    >2yptI (I:)
csim

    Sequence, based on observed residues (ATOM records):
    >2yptI (I:)
csi