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2xt3

HUMAN KIF7, A KINESIN INVOLVED IN HEDGEHOG SIGNALLING

Method: X-RAY DIFFRACTION Dmax: 69.4 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

KINESIN-LIKE PROTEIN KIF7

HOMO SAPIENS

UniProt Q2M1P5

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 7–347 Fragment：RESIDUES 7-347 Mutation：YES ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions：pH 6；pH 6.0 Resolution 1.88 Å R-free 0.229

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 2XT3 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
4A14 HUMAN KIF7, A KINESIN INVOLVED IN HEDGEHOG SIGNALLING Deposited 2011-09-14 Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 8–347（340 aa） Fragment：MOTOR DOMAIN, RESIDUES 8-347
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 20% POLYETHYLENE GLYCOL 3350, 0.20 M LITHIUM ACETATE.
Resolution 1.60 Å R-free 0.207
6MLQ Cryo-EM structure of microtubule-bound Kif7 in the ADP state Deposited 2018-09-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 1–398（398 aa）
Not recorded MG MAGNESIUM ION × 2 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 TA1 TAXOL × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE；Blotted from behind the grid for 2 seconds
Resolution 4.20 Å
6MLR Cryo-EM structure of microtubule-bound Kif7 in the AMPPNP state Deposited 2018-09-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 1–398（398 aa）
Not recorded GTP GUANOSINE-5'-TRIPHOSPHATE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 TA1 TAXOL × 1 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE；Blotted from behind the grid for 2 seconds
Resolution 4.20 Å
7RX0 Complex of AMPPNP-Kif7 and Gli2 Zinc-Finger domain bound to microtubules Deposited 2021-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 1–543（543 aa）
Not recorded ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 G2P PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE；Blotted from behind the grid for 2 seconds
Resolution 3.89 Å

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name KIF7_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 4–344； UniProt 7–347

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 2xt3

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2xt3
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2xt3
Deposition date deposition_date2010-10-04
Structure title titleHUMAN KIF7, A KINESIN INVOLVED IN HEDGEHOG SIGNALLING
Keywords keywordsMOTOR PROTEIN, SIGNAL TRANSDUCTION; MOTOR PROTEIN
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier20.14 Å
Radius of gyration Rg (electron density) rg_electron18.95 Å
Forward intensity I(0) i019172500.00
Molecular weight molecular_weight32462.0 kDa
Excluded volume excluded_volume40378 ų
Envelope volume envelope_volume47456 ų
Hydration-shell volume shell_volume20713 ų
Envelope diameter envelope_diameter71.1 Å
Shell Rg shell_rg25.62 Å
Envelope Rg envelope_rg19.37 Å
Shape Rg shape_rg18.96 Å
Total Rg total_rg19.84 Å
Total atoms total_atoms2281
Residues n_residues300
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax69.4 Å
Rg (real space) rg_real20.04 Å
Rg uncertainty (real space) rg_real_error0.53 Å
I(0) (real space) i0_real1.9170e+07
I(0) uncertainty (real space) i0_real_error2.6940e+05
Rg (reciprocal space) rg_reciprocal20.06 Å
I(0) (reciprocal space) i0_reciprocal19170000.0000
Solution quality estimate total_estimate0.8600
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary25.8 Å
Skewness Skewness skewness0.226
Kurtosis Kurtosis kurtosis-0.263
Angular range angular_range— – 0.3950 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4109000.0000
Real-space data points n_real_points71
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.733; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.980
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (4)

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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd2xt3a_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamilyc.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family familyc.37.1.0 — automated matches

CATH v4.4 (1 domains)

Domain ID domain_id2xt3A00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology850 — Kinesin
Homologous superfamily homologous superfamily10 — Kinesin motor domain
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8. Citations (1)

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9. Files and Curves (10)