9HI4 | pdb_00009hi4

Structure of FI6-focused design_03 scaffold in complex with FI6-Fab

• PDB DOI: https://doi.org/10.2210/pdb9HI4/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Homo sapiens, Bacteroides uniformis ATCC 8492
• Expression System: Drosophila melanogaster, Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-11-24 Released: 2025-12-03 
• Deposition Author(s): Cramer, J.T., Krey, T.
• Funding Organization(s): German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.196 (Depositor), 0.197 (DCC) 
• R-Value Work: 
  0.170 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.171 (Depositor) 

Starting Model: experimental

Literature

Structure of FI6-focused design_03 scaffold in complex with FI6-Fab

Cramer, J.T., Krey, T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 149.14 kDa 
• Atom Count: 11,503 
• Modeled Residue Count: 1,306 
• Deposited Residue Count: 1,346 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FI6 Fab Heavy chain	A, E [auth K]	234	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
FI6 Fab Light chain	B, F [auth L]	219	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
FI6-focused design_03	C	220	Bacteroides uniformis ATCC 8492	Mutation(s): 0
UniProt
Find proteins for A0ABC9N7E0 (Bacteroides uniformis (strain ATCC 8492 / DSM 6597 / CCUG 4942 / CIP 103695 / JCM 5828 / KCTC 5204 / NCTC 13054 / VPI 0061)) Explore A0ABC9N7E0  Go to UniProtKB:  A0ABC9N7E0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
FI6-focused design_03	D	220	Bacteroides uniformis ATCC 8492	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	G [auth D]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
NA	H [auth D], I [auth L]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	C	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.196 (Depositor), 0.197 (DCC) 
• R-Value Work:  0.170 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.171 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.23	α = 90
b = 78.14	β = 100.6
c = 118.72	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-03 
Deposition Author(s): Cramer, J.T., Krey, T.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	--

Revision History  

• Version 1.0: 2025-12-03
  Type: Initial release