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7B5F

Non-classical MHC Class I molecule Feonatal Fc receptor (FcRn) in complex with echovirus 18 proteins at 2.90Å resolution

Data provenance

Structure downloaded from PDB Europe using the Coordinate Server. Aligned to residues 1-180 of 1HHK2 using the CEALIGN3 function of PyMol4. Chain assigment using a Levenshtein distance5 method using data from the PDBe REST API6. Organism data from PDBe REST API. Data for both of these operations from the Molecules endpoint. Structure visualised with 3DMol7.

Information sections

Complex type

Fcrn with echovirus proteins

1. Beta 2 microglobulin
['H']
2. echovirus_protein_1
['A']
3. echovirus_protein_2
['B']
4. echovirus_protein_3
['C']
5. echovirus_protein_4
['D']
6. Fc receptor (FcRn)
['G']

Species

Locus / Allele group

Non-classical MHC Class I molecule

Publication

Structure of echovirus 18 in complex with neonatal Fc receptor

Buchta, D., Levdansky, Y., Fuzik, T., Mukhamedova, L., Moravcova, J., Hrebik, D., Andersen, J.T., Plevka, P.

Structure deposition and release

Deposited: 2020-12-03
Released: 2022-01-12
Revised: 2022-01-12

Data provenance

Publication data retrieved from PDBe REST API8 and PMCe REST API9

Other structures from this publication

Chain sequences

1. Beta 2 microglobulin
Beta 2 microglobulin
        10        20        30        40        50        60
IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDW
        70        80        90
SFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM
2. echovirus_protein_1
echovirus_protein_1
        10        20        30        40        50        60
GDNQDRTVANTQPSGPSNSTEIPALTAVETGHTSQVDPSDTIQTRHVVNFHSRSESTIEN
        70        80        90       100       110       120
FMGRAACVFMDQYKINGEETSTDRFAVWTINIREMAQLRRKCEMFTYMRFDIEMTMVITS
       130       140       150       160       170       180
CQDQGTILDQDMPVLTHQIMYVPPGGPIPAKVDGYEWQTSTNPSVFWTEGNAPPRISIPF
       190       200       210       220       230       240
ISVGNAYSSFYDGWSHFTQDGTYGYTTLNAMGKLYIRHVNRSSPHQITSTIRVYFKPKHI
       250       260       270       280
KAWVPRPPRLCPYINKRDVNFVVTEITDSRTSITDTPHPEHSVLATH
3. echovirus_protein_2
echovirus_protein_2
        10        20        30        40        50        60
SPSAEECGYSDRVRSMTLGNSTITTQESANVVVGYGEWPSYLSDREATAEDQPTQPDVAT
        70        80        90       100       110       120
CRFYTLESVQWEKTSPGWWWKFPEALKNMGLFGQNMHYHYLGRAGYTIHVQCNASKFHQG
       130       140       150       160       170       180
CLLVVCVPEAEMGCADTDTTFPATELTTEDTPHVFTSDSITGKKVQAAVCNAGMGVGVGN
       190       200       210       220       230       240
LTIFPHQWINLRTNNSATIVIPYINSVPMDNMFRHYNFTLMIIPFAPLNFTDGATAYVPI
       250
TVTIAPMYAEYNGLRLASTQ
4. echovirus_protein_3
echovirus_protein_3
        10        20        30        40        50        60
GVPVLNTPGSNQFLTSDDYQSPSAMPQFDETPEMHIPGEVRNLMEIAEVDSVVPVNNVTG
        70        80        90       100       110       120
KTKSMDAYQIPVGTGNTDKTKPIFSFQMDPGYSSVLKRTLLGEMLNYYAHWSGSVKLTFL
       130       140       150       160       170       180
FCGSAMATGKLLISYSPPGASVPTSRKDAMLGTHIVWDIGLQSSCVLCVPWISQSHYRMV
       190       200       210       220       230
QQDPYTSAGYITCWYQTNIVVPPGAPTSCDVLCFASACNDFSVRLLRDTPFMAQPGKLQ
5. echovirus_protein_4
echovirus_protein_4
        10        20        30        40        50        60
MGAQVSTQKTGAHETSLSAKGNSIIHYTNINFYKDAASSASNRQDIQQDPGKFTDPVKDL

MIKTLPALN
6. Fc receptor (FcRn)
Fc receptor (FcRn)
        10        20        30        40        50        60
AESHLSLLYHLTAVSSPAPGTPAFWVSGWLGPQQYLSYNSLRGEAEPCGAWVWENQVSWY
        70        80        90       100       110       120
WEKETTDLRIKEKLFLEAFKALGGKGPYTLQGLLGCELGPDNTSVPTAKFALNGEEFMNF
       130       140       150       160       170       180
DLKQGTWGGDWPEALAISQRWQQQDKAANKELTFLLFSCPHRLREHLERGRGNLEWKEPP
       190       200       210       220       230       240
SMRLKARPSSPGFSVLTCSAFSFYPPELQLRFLRNGLAAGTGQGDFGPNSDGSFHASSSL
       250       260
TVKSGDEHHYCCIVQHAGLAQPLRVEL

Data provenance

Sequences are retrieved via the Uniprot method of the RSCB REST API. Sequences are then compared to those derived from the PDB file and matched against sequences retrieved from the IPD-IMGT/HLA database for human sequences, or the IPD-MHC database for other species. Mouse sequences are matched against FASTA files from Uniprot. Sequences for the mature extracellular protein (signal petide and cytoplasmic tail removed) are compared to identical length sequences from the datasources mentioned before using either exact matching or Levenshtein distance based matching.

Downloadable data

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or in the case of JSON formatted files to retrieve it and use it as part of notebooks such as Jupyter or GoogleColab.
Please take note of the data license. Using data from this site assumes that you have read and will comply with the license.

Complete structures

Aligned structures [cif]
  1. 7B5F assembly 1  

Components

MHC Class I alpha chain [cif]
  1. 7B5F assembly 1  
MHC Class I antigen binding domain (alpha1/alpha2) [cif]
  1. 7B5F assembly 1  

Derived data

Data for this page [json]
https://api.histo.fyi/v1/structures/7b5f

Data license

The data above is made available under a Creative Commons CC-BY 4.0 license. This means you can copy, remix, transform, build upon and redistribute the material, but you must give appropriate credit, provide a link to the license, and indicate if changes were made.
If you use any data downloaded from this site in a publication, please cite 'https://www.histo.fyi/'. A preprint is in preparation.

Footnotes


Creative Commons Licence
This work is licensed under a Creative Commons Attribution 4.0 International License.