Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin candidate 2, open conformation. Determined by electron microscopy at 3.36 Å resolution. Released 18 Jun 2025.
Explore 9EF2 in 3D Show helices and sheets RCSB PDB PDBe
9EF2 contains 21 α-helices and 57 β-strands across 3 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 3-12 | 10 | 1 |
| β-strand | 23-26 | 4 | 2 |
| β-strand | 34-39 | 6 | 2 |
| β-strand | 54-59 | 6 | 2 |
| β-strand | 68-69 | 2 | 2 |
| α-helix | 78 | 1 | |
| β-strand | 79 | 1 | 3 |
| α-helix | 80 | 1 | |
| β-strand | 92 | 1 | 3 |
| β-strand | 94-95 | 2 | 4 |
| β-strand | 104-108 | 5 | 5 |
| β-strand | 111-116 | 6 | 5 |
| β-strand | 120-122 | 3 | 4 |
| β-strand | 129-130 | 2 | 4 |
| β-strand | 134-139 | 6 | 5 |
| β-strand | 144-148 | 5 | 5 |
| β-strand | 169-172 | 4 | 6 |
| β-strand | 178-182 | 5 | 6 |
| α-helix | 185-188 | 4 | |
| β-strand | 190 | 1 | 7 |
| β-strand | 191-195 | 5 | 6 |
| α-helix | 197-203 | 7 | |
| β-strand | 217-218 | 2 | 6 |
| α-helix | 219-221 | 3 | |
| α-helix | 224-226 | 3 | |
| β-strand | 231 | 1 | 7 |
| β-strand | 235-238 | 4 | 8 |
| β-strand | 247-252 | 6 | 8 |
| β-strand | 261-265 | 5 | 8 |
| β-strand | 272-277 | 6 | 8 |
| β-strand | 288-292 | 5 | 9 |
| β-strand | 301-306 | 6 | 9 |
| β-strand | 310-312 | 3 | 10 |
| β-strand | 318-320 | 3 | 10 |
| β-strand | 323-327 | 5 | 9 |
| β-strand | 329 | 1 | 11 |
| β-strand | 334 | 1 | 11 |
| β-strand | 340-343 | 4 | 9 |
| β-strand | 355-359 | 5 | 12 |
| β-strand | 368-373 | 6 | 12 |
| β-strand | 382 | 1 | 13 |
| β-strand | 383-387 | 5 | 12 |
| β-strand | 400-402 | 3 | 12 |
| α-helix | 407-408 | 2 | |
| β-strand | 415 | 1 | 13 |
| β-strand | 419-423 | 5 | 1 |
| β-strand | 432-437 | 6 | 1 |
| β-strand | 442-448 | 7 | 1 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 123-130 | 8 | 14 |
| α-helix | 133-135 | 3 | |
| α-helix | 139-156 | 18 | |
| β-strand | 160-167 | 8 | 14 |
| α-helix | 180-184 | 5 | |
| β-strand | 194 | 1 | 15 |
| β-strand | 200-206 | 7 | 14 |
| α-helix | 209-216 | 8 | |
| β-strand | 222 | 1 | 15 |
| β-strand | 229 | 1 | 16 |
| α-helix | 231-240 | 10 | |
| α-helix | 242-245 | 4 | |
| β-strand | 251-258 | 8 | 14 |
| β-strand | 262 | 1 | 16 |
| α-helix | 268-271 | 4 | |
| β-strand | 283 | 1 | 17 |
| β-strand | 288 | 1 | 17 |
| α-helix | 295-298 | 4 | |
| α-helix | 299-309 | 11 | |
| β-strand | 311-317 | 7 | 14 |
| α-helix | 319-321 | 3 | |
| α-helix | 322-331 | 10 | |
| β-strand | 335-339 | 5 | 14 |
| α-helix | 345-356 | 12 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 3-5 | 3 | 18 |
| α-helix | 13-25 | 13 | |
| β-strand | 31-33 | 3 | 18 |
| β-strand | 36-39 | 4 | 18 |
| α-helix | 45-56 | 12 | |
| β-strand | 61 | 1 | 18 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Integrin alpha-5 | A | protein | 1005 | Homo sapiens | P08648 (AlphaFold model) |
| Integrin beta-1 | B | protein | 738 | Homo sapiens | P05556 (AlphaFold model) |
| NeoNectin candidate 2 | C | protein | 99 | synthetic construct |
>9EF2_1 Integrin alpha-5 (chains A) MGSRTPESPLHAVQLRWGPRRRPPLLPLLLLLLPPPPRVGGFNLDAEAPAVLSGPPGSFF GFSVEFYRPGTDGVSVLVGAPKANTSQPGVLQGGAVYLCPWGASPTQCTPIEFDSKGSRL LESSLSSSEGEEPVEYKSLQWFGATVRAHGSSILACAPLYSWRTEKEPLSDPVGTCYLST DNFTRILEYAPCRSDFSWAAGQGYCQGGFSAEFTKTGRVVLGGPGSYFWQGQILSATQEQ IAESYYPEYLINLVQGQLQTRQASSIYDDSYLGYSVAVGEFSGDDTEDFVAGVPKGNLTY GYVTILNGSDIRSLYNFSGEQMASYFGYAVAATDVNGDGLDDLLVGAPLLMDRTPDGRPQ EVGRVYVYLQHPAGIEPTPTLTLTGHDEFGRFGSSLTPLGDLDQDGYNDVAIGAPFGGET QQGVVFVFPGGPGGLGSKPSQVLQPLWAASHTPDFFGSALRGGRDLDGNGYPDLIVGSFG VDKAVVYRGRPIVSASASLTIFPAMFNPEERSCSLEGNPVACINLSFCLNASGKHVADSI GFTVELQLDWQKQKGGVRRALFLASRQATLTQTLLIQNGAREDCREMKIYLRNESEFRDK LSPIHIALNFSLDPQAPVDSHGLRPALHYQSKSRIEDKAQILLDCGEDNICVPDLQLEVF GEQNHVYLGDKNALNLTFHAQNVGEGGAYEAELRVTAPPEAEYSGLVRHPGNFSSLSCDY FAVNQSRLLVCDLGNPMKAGASLWGGLRFTVPHLRDTKKTIQFDFQILSKNLNNSQSDVV SFRLSVEAQAQVTLNGVSKPEAVLFPVSDWHPRDQPQKEEDLGPAVHHVYELINQGPSSI SQGVLELSCPQALEGQQLLYVTRVTGLNCTTNHPINPKGLELDPEGSLHHQQKREAPSRS SASSGPQILKCPEAECFRLRCELGPLHQQESQSLQLHFRVWAKTFLQREHQPFSLQCEAV YKALKMPYRILPRQLPQKERQVATAVQWTKAEGSYGTGGLEVLFQ
>9EF2_2 Integrin beta-1 (chains B) MNLQPIFWIGLISSVCCVFAQTDENRCLKANAKSCGECIQAGPNCGWCTNSTFLQEGMPT SARCDDLEALKKKGCPPDDIENPRGSKDIKKNKNVTNRSKGTAEKLKPEDITQIQPQQLV LRLRSGEPQTFTLKFKRAEDYPIDLYYLMDLSYSMKDDLENVKSLGTDLMNEMRRITSDF RIGFGSFVEKTVMPYISTTPAKLRNPCTSEQNCTSPFSYKNVLSLTNKGEVFNELVGKQR ISGNLDSPEGGFDAIMQVAVCGSLIGWRNVTRLLVFSTDAGFHFAGDGKLGGIVLPNDGQ CHLENNMYTMSHYYDYPSIAHLVQKLSENNIQTIFAVTEEFQPVYKELKNLIPKSAVGTL SANSSNVIQLIIDAYNSLSSEVILENGKLSEGVTISYKSYCKNGVNGTGENGRKCSNISI GDEVQFEISITSNKCPKKDSDSFKIRPLGFTEEVEVILQYICECECQSEGIPESPKCHEG NGTFECGACRCNEGRVGRHCECSTDEVNSEDMDAYCRKENSSEICSNNGECVCGQCVCRK RDNTNEIYSGKFCECDNFNCDRSNGLICGGNGVCKCRVCECNPNYTGSACDCSLDTSTCE ASNGQICNGRGICECGVCKCTDPKFQGQTCEMCQTCLGVCAEHKECVQCRAFNKGEKKDT CTQECSYFNITKVESRDKLPQPVQPDPVSHCKEKDVDDCWFYFTYSVNGNNEVMVHVVEN PECPTGPDDTSGLEVLFQ
>9EF2_3 NeoNectin candidate 2 (chains C) MGLNDIFEAQKIEWHEGGSGGGEVEVHGRGDIPRSSLELFEKVAKELGLKVERNHRTVTV KGVSEEQIRELEEVAKKLGLWVLVRVTEGGSLEHHHHHH
| ID | Name | Formula | Copies |
|---|---|---|---|
| CA | Calcium ion | Ca | 3 |
| NAG | 2-acetamido-2-deoxy-beta-D-glucopyranose | C8 H15 N O6 | 3 |
| MN | Manganese (II) ion | Mn | 3 |
De Novo Design of Integrin alpha 5 beta 1 Modulating Proteins to Enhance Biomaterial Properties. Wang, X., Guillem-Marti, J., Kumar, S. et al. Adv Mater (2025) 37:e2500872-e2500872. DOI 10.1002/adma.202500872 · PubMed
Other PDB entries of the same protein (UniProt P08648 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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