PDB entry 1d3e

View 1d3e on RCSB PDB site
Description: cryo-em structure of human rhinovirus 16 (hrv16) complexed with a two-domain fragment of its cellular receptor, intercellular adhesion molecule-1 (d1d2-icam-1). implications for virus-receptor interactions. alpha carbons only
Class: Virus/Receptor
Keywords: HUMAN RHINOVIRUS, HRV16, ICAM-1, FITTING OF X-RAY STRUCTURES INTO CRYO-EM RECONSTRUCTIONS, COMMON COLD, VIRUS UNCOATING, VIRUS/ VIRAL PROTEIN, RHINOVIRUS-RECEPTOR COMPLEX, Icosahedral virus, Virus-Receptor COMPLEX
Deposited on 1999-09-29, released 2000-01-19
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-12-18, with a file datestamp of 2019-12-13.
Experiment type: EM
Resolution: N/A
R-factor: N/A
AEROSPACI score: -0.3 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '1':
    Compound: protein (rhinovirus 16 coat protein vp1)
    Species: Human rhinovirus sp. [TaxId:169066]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1d3e1_
  • Chain '2':
    Compound: protein (rhinovirus 16 coat protein vp2)
    Species: Human rhinovirus sp. [TaxId:169066]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1d3e2_
  • Chain '3':
    Compound: protein (rhinovirus 16 coat protein vp3)
    Species: Human rhinovirus sp. [TaxId:169066]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1d3e3_
  • Chain '4':
    Compound: protein (rhinovirus 16 coat protein vp4)
    Species: Human rhinovirus sp. [TaxId:169066]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1d3e4_
  • Chain 'I':
    Compound: protein (intercellular adhesion molecule-1)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 1D3E (0-184)
    Domains in SCOPe 2.08: d1d3ei_

PDB Chain Sequences:

  • Chain '1':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1d3e1 (1:)
apvaayvdevlnevlvvpninqshpttsnaapvldaaetghtnkiqpedtietryvqssq
tldemsvesflgrsgcihesvldivdnyndqsftkwninlqemaqirrkfemftyarfds
eitmvpsvaakdghighivmqymyvppgapipttrddyawqsgtnasvfwqhgqpfprfs
lpflsiasayymfydgydgdtyksrygtvvtndmgtlcsrivtseqlhkvkvvtriyhka
khtkawcprppravqyshthttnyklssevhndvairprtnlttv

  • Chain '2':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1d3e2 (2:)
sdriiqitrgdstitsqdvanavvgygvwphyltpqdataidkptqpdtssnrfytldsk
mwnstskgwwwklpdalkdmgifgenmfyhflgrsgytvhvqcnaskfhqgtllvvmipe
hqlatvnkgnvnagykythpgeagrevgtaaaaekqpsddnwlnfdgtllgnllifphqf
inlrsnnsatlivpyvnavpmdsmvrhnnwslviipvcqlqsnnisnivpitvsispmca
efsgaraktvvq

  • Chain '3':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1d3e3 (3:)
glpvyvtpgsgqfmttddmqspcalpwyhptkeifipgevknliemcqvdtlipinstqs
nignvsmytvtlspqtklaeeifaikvdiashplattligeiasyfthwtgslrfsfmfc
gtanttlkvllaytppgigkprsrkeamlgthvvwdvglqstvslvvpwisasqyrfttp
dtyssagyitcwyqtnfvvppntpntaemlcfvsgckdfclrmardtdlhkqtgpitq

  • Chain '4':
    Sequence, based on SEQRES records: (download) 
    >1d3e4 (4:)
gaqvsrqnvgthstqnmvsngsslnyfninyfkdaassgasrldfsqdpskftdpvkdvl
ekgiptlq

    Sequence, based on observed residues (ATOM records): (download) 
    >1d3e4 (4:)
gaqvsrqslnyfninyfkdaassgasrld

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1d3eI (I:)
qtsvspskvilprggsvlvtcstscdqpkllgietplpkkelllpgnnrkvyelsnvqed
sqpmcysncpdgqstaktfltvywtpervelaplpswqpvgknltlrcqveggapranlt
vvllrgekelkrepavgepaevtttvlvrrdhhganfscrteldlrpqglelfentsapy
qlqtf