PDB entry 5y9e

View 5y9e on RCSB PDB site
Description: Crystal structure of HPV58 pentamer
Class: structural protein
Keywords: capsid protein, pentamer, STRUCTURAL PROTEIN
Deposited on 2017-08-24, released 2017-10-25
The last revision prior to the SCOPe 2.07 freeze date was dated 2017-10-25, with a file datestamp of 2017-10-20.
Experiment type: XRAY
Resolution: 2.04 Å
R-factor: N/A
AEROSPACI score: 0.3 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Major capsid protein L1
    Species: Human papillomavirus type 58 [TaxId:10598]
    Gene: L1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P26535
      • engineered mutation (167)
    Domains in SCOPe 2.07: d5y9ea_
  • Chain 'B':
    Compound: Major capsid protein L1
    Species: Human papillomavirus type 58 [TaxId:10598]
    Gene: L1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5y9eb_
  • Chain 'C':
    Compound: Major capsid protein L1
    Species: Human papillomavirus type 58 [TaxId:10598]
    Gene: L1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P26535
      • engineered mutation (167)
    Domains in SCOPe 2.07: d5y9ec_
  • Chain 'D':
    Compound: Major capsid protein L1
    Species: Human papillomavirus type 58 [TaxId:10598]
    Gene: L1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P26535
      • engineered mutation (167)
    Domains in SCOPe 2.07: d5y9ed_
  • Chain 'E':
    Compound: Major capsid protein L1
    Species: Human papillomavirus type 58 [TaxId:10598]
    Gene: L1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P26535
      • engineered mutation (167)
    Domains in SCOPe 2.07: d5y9ee_
  • Heterogens: GOL, MG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5y9eA (A:)
mtvylppvpvskvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsg
lqyrvfrvrlpdpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfd
dtetsnrypaqpgsdnreclsmdykqtqlcligckpptgehwgkgvasnnnaaatdcppl
elfnsiiedgdmvdtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslff
flrreqmfvrhffnragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfn
kpywlqraqghnngicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhvee
ydlqfvfqlckitltaeimtyihtmdsniledwqfgltpppsaslqdtyrfvtsqaitcq
ktappkekedplnkytfwevnlkekfsadldqfplgrkfllqsglkakprlkrsapttra
pstkrkkvkk

    Sequence, based on observed residues (ATOM records): (download) 
    >5y9eA (A:)
kvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsglqyrvfrvrlp
dpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfddtetsnrypaq
pgsdnreclsmdykqtqlcligckpptgehwgkgvasatdcpplelfnsiiedgdmvdtg
fgcmdfgtlqanksdvpidicnstckypdylkmasepygdslffflrreqmfvrhffnra
gklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfnkpywlqraqghnngic
wgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhveeydlqfvfqlckitlta
eimtyihtmdsniledwqfedplnkytfwevnlkekfsadldqfplgrkfllqsgl

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5y9eB (B:)
mtvylppvpvskvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsg
lqyrvfrvrlpdpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfd
dtetsnrypaqpgsdnreclsmdykqtqlcligckpptgehwgkgvasnnnaaatdcppl
elfnsiiedgdmvdtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslff
flrreqmfvrhffnragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfn
kpywlqraqghnngicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhvee
ydlqfvfqlckitltaeimtyihtmdsniledwqfgltpppsaslqdtyrfvtsqaitcq
ktappkekedplnkytfwevnlkekfsadldqfplgrkfllqsglkakprlkrsapttra
pstkrkkvkk

    Sequence, based on observed residues (ATOM records): (download) 
    >5y9eB (B:)
kvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsglqyrvfrvrlp
dpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfddtetsnrypaq
pgsdnreclsmdykqtqlcligckpptgehwgkgvatdcpplelfnsiiedgdmvdtgfg
cmdfgtlqanksdvpidicnstckypdylkmasepygdslffflrreqmfvrhffnragk
lgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfnkpywlqraqghnngicwg
nqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhveeydlqfvfqlckitltaei
mtyihtmdsniledwqfedplnkytfwevnlkekfsadldqfplgrkfllqsgl

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5y9eC (C:)
mtvylppvpvskvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsg
lqyrvfrvrlpdpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfd
dtetsnrypaqpgsdnreclsmdykqtqlcligckpptgehwgkgvasnnnaaatdcppl
elfnsiiedgdmvdtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslff
flrreqmfvrhffnragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfn
kpywlqraqghnngicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhvee
ydlqfvfqlckitltaeimtyihtmdsniledwqfgltpppsaslqdtyrfvtsqaitcq
ktappkekedplnkytfwevnlkekfsadldqfplgrkfllqsglkakprlkrsapttra
pstkrkkvkk

    Sequence, based on observed residues (ATOM records): (download) 
    >5y9eC (C:)
kvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsglqyrvfrvrlp
dpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfddtetsnrypaq
pgsdnreclsmdykqtqlcligckpptgehwgkgvastdcpplelfnsiiedgdmvdtgf
gcmdfgtlqanksdvpidicnstckypdylkmasepygdslffflrreqmfvrhffnrag
klgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfnkpywlqraqghnngicw
gnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhveeydlqfvfqlckitltae
imtyihtmdsniledwqfedplnkytfwevnlkekfsadldqfplgrkfllqsgl

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5y9eD (D:)
mtvylppvpvskvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsg
lqyrvfrvrlpdpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfd
dtetsnrypaqpgsdnreclsmdykqtqlcligckpptgehwgkgvasnnnaaatdcppl
elfnsiiedgdmvdtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslff
flrreqmfvrhffnragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfn
kpywlqraqghnngicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhvee
ydlqfvfqlckitltaeimtyihtmdsniledwqfgltpppsaslqdtyrfvtsqaitcq
ktappkekedplnkytfwevnlkekfsadldqfplgrkfllqsglkakprlkrsapttra
pstkrkkvkk

    Sequence, based on observed residues (ATOM records): (download) 
    >5y9eD (D:)
kvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsglqyrvfrvrlp
dpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfddtetsnrypaq
pgsdnreclsmdykqtqlcligckpptgehwgkgvasnaaatdcpplelfnsiiedgdmv
dtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslffflrreqmfvrhff
nragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfnkpywlqraqghnn
gicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhveeydlqfvfqlckit
ltaeimtyihtmdsniledwqfdplnkytfwevnlkekfsadldqfplgrkfllqsgl

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5y9eE (E:)
mtvylppvpvskvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsg
lqyrvfrvrlpdpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfd
dtetsnrypaqpgsdnreclsmdykqtqlcligckpptgehwgkgvasnnnaaatdcppl
elfnsiiedgdmvdtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslff
flrreqmfvrhffnragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfn
kpywlqraqghnngicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhvee
ydlqfvfqlckitltaeimtyihtmdsniledwqfgltpppsaslqdtyrfvtsqaitcq
ktappkekedplnkytfwevnlkekfsadldqfplgrkfllqsglkakprlkrsapttra
pstkrkkvkk

    Sequence, based on observed residues (ATOM records): (download) 
    >5y9eE (E:)
kvvstdeyvsrtsiyyyagssrllavgnpyfsikspnnnkkvlvpkvsglqyrvfrvrlp
dpnkfgfpdtsfynpdtqrlvwacvgleigrgqplgvgvsghpylnkfddtetsnrypaq
pgsdnreclsmdykqtqlcligckpptgehwgkgvasnnnaaatdcpplelfnsiiedgd
mvdtgfgcmdfgtlqanksdvpidicnstckypdylkmasepygdslffflrreqmfvrh
ffnragklgeavpddlyikgsgntaviqssaffptpsgsivtsesqlfnkpywlqraqgh
nngicwgnqlfvtvvdttrstnmtlctevtkegtykndnfkeyvrhveeydlqfvfqlck
itltaeimtyihtmdsniledwqfdplnkytfwevnlkekfsadldqfplgrkfllqsgl