CLIP peptide bound to chicken MHC class II molecule (BL-2) from B2 haplotype with a decamer mode of binding
Halabi, S., Kaufman, J.To be published.
Experimental Data Snapshot
Starting Model: experimental
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Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
MHC class II alpha chain | 184 | Gallus gallus | Mutation(s): 0  Gene Names: B-LA | ||
UniProt | |||||
Find proteins for Q4U5Z6 (Gallus gallus) Explore Q4U5Z6  Go to UniProtKB:  Q4U5Z6 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q4U5Z6 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
MHC class II beta chain 2 | 225 | Gallus gallus | Mutation(s): 0  Gene Names: BLB2 | ||
UniProt | |||||
Find proteins for B5BSA0 (Gallus gallus) Explore B5BSA0  Go to UniProtKB:  B5BSA0 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | B5BSA0 | ||||
Glycosylation | |||||
Glycosylation Sites: 1 | |||||
Sequence AnnotationsExpand | |||||
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Ligands 6 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | V [auth B], Z [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
PEG Query on PEG | M [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N | |||
IMD Query on IMD | C [auth A], S [auth B] | IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O | |||
ZN Query on ZN | AA [auth B] BA [auth B] F [auth A] G [auth A] H [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N | |||
NI Query on NI | Y [auth B] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N | |||
ACE Query on ACE | D [auth A] E [auth A] I [auth A] J [auth A] K [auth A] | ACETYL GROUP C2 H4 O IKHGUXGNUITLKF-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 82.803 | α = 90 |
b = 82.803 | β = 90 |
c = 263.071 | γ = 120 |
Software Name | Purpose |
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REFMAC | refinement |
XDS | data reduction |
Aimless | data scaling |
PHASER | phasing |
PDB_EXTRACT | data extraction |
Funding Organization | Location | Grant Number |
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Wellcome Trust | United Kingdom | 110106/Z/15/Z |