← Back to search

1d8e

Zinc-depleted FTase complexed with K-RAS4B peptide substrate and FPP analog.

Method: X-RAY DIFFRACTION D_max: 94.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1d8e
deposition_date	1999-10-22
title	Zinc-depleted FTase complexed with K-RAS4B peptide substrate and FPP analog.
keywords	FTASE, PFT, PFTASE, FARNESYLTRANSFERASE, FARNESYL TRANSFERASE, CAAX, RAS, CANCER, TRANSFERASE; TRANSFERASE
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	27.54 Å
rg_electron	26.56 Å
i0	115556000.00
molecular_weight	85380.0 kDa
excluded_volume	106920 Å³
envelope_volume	125500 Å³
shell_volume	37847 Å³
envelope_diameter	101.3 Å
shell_rg	35.16 Å
envelope_rg	27.07 Å
shape_rg	26.56 Å
total_rg	27.39 Å
total_atoms	6022
n_residues	736
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

▼

3. P(r) Analysis (GNOM)

dmax	94.9 Å
rg_real	27.43 Å
rg_real_error	0.66 Å
i0_real	1.1560e+08
i0_real_error	1.5210e+06
rg_reciprocal	27.47 Å
i0_reciprocal	115600000.0000
total_estimate	0.8643
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	34.4 Å
skewness	0.290
kurtosis	-0.239
angular_range	— – 0.2900 Å⁻¹
current_alpha	0.0000
highest_alpha	51290000.0000
n_real_points	59
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.758; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.956

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (6)

Entity 1 polymer

description	FARNESYLTRANSFERASE (ALPHA SUBUNIT)
formula_weight	44098.1 kDa
ec_number	2.5.1.21
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	6097

MAATEGVGESAPGGEPGQPEQPPPPPPPPPAQQPQEEEMAAEAGEAAASPMDDGFLSLDSPTYVLYRDRAEWADIDPVPQNDGPSPVVQIIYSEKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLRSLQKDLQEEMNYIIAIIEEQPKNYQVWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVRNNSVWNQRHFVISNTTGYSDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSRYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSKHSRESDIPASV

Source

organism	Rattus norvegicus
common_name	Norway rat
ncbi_taxonomy_id	10116
host_organism	Spodoptera frugiperda

Entity 2 polymer

description	FARNESYLTRANSFERASE (BETA SUBUNIT)
formula_weight	48722.3 kDa
ec_number	2.5.1.21
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

MASSSSFTYYCPPSSSPVWSEPLYSLRPEHARERLQDDSVETVTSIEQAKVEEKIQEVFSSYKFNHLVPRLVLQREKHFHYLKRGLRQLTDAYECLDASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPDGGFGGGPGQYPHLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKKERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHFGSGAMLHDVVMGVPENVLQPTHPVYNIGPDKVIQATTHFLQKPVPGFEECEDAVTSDPATD

Source

organism	Rattus norvegicus
common_name	Norway rat
ncbi_taxonomy_id	10116
host_organism	Spodoptera frugiperda

Entity 3 polymer

description	K-RAS4B PEPTIDE SUBSTRATE
formula_weight	1298.7 kDa
src_method	syn
entity_count	1

Polymer

type	polypeptide(L)
strand_id	P

KKKSKTKCVIM

Entity 4 non-polymer

description	ACETATE ION
formula_weight	59.0 kDa
src_method	syn
entity_count	1

Entity 5 non-polymer

description	[(3,7,11-TRIMETHYL-DODECA-2,6,10-TRIENYLOXYCARBAMOYL)-METHYL]-PHOSPHONIC ACID
formula_weight	359.4 kDa
src_method	syn
entity_count	1

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	75

▶

6. Citations (3)

▶

length_a	171.411 Å
length_b	171.411 Å
length_c	69.663 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 61
int_tables_number	169
crystal_system	—

resolution	3.000 Å
resolution_low	50.000 Å
r_factor	0.1990
r_work	0.1960
r_free	0.2490

fit	/app/data/saxs_computation/d8/1d8e/1d8e.fit
pddf	/app/data/pr_computation/d8/1d8e/1d8e.pr.out
profile	/app/data/saxs_computation/d8/1d8e/1d8e.dat

Zinc-depleted FTase complexed with K-RAS4B peptide substrate and FPP analog.

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction

5. Entities & Polymer Info (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Entity 4 non-polymer

Entity 5 non-polymer

Entity 6 water

6. Citations (3)

7. Files & Curves (10)

Files (7)

Curves (3)