EMD-14799 Validation analysis

EMD-14799 › Validation analysis

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Tail tip of siphophage T5 : full complex after interaction with its bacterial receptor FhuA

Validation summary

Resolution:

Method:

Map released:

Last modified:

Sample name:

4.29 Å (depositor provided) (FSC 0.143 CUT-OFF)

Single particle reconstruction

2023-02-08

2024-11-13

Escherichia virus T5

Fitted atomic model:

7zn2 (36 chains, 87774 atoms)

Model evaluation bars:

Model	Metric	Evaluation bar	Average value
7zn2	Q-score		0.32
	Atom Inclusion		0.693
	CCC	CCC bar not available	-
	SMOC		0.854

Additional validation information

Please find validation analyses used for peer review in the wwPDB validation reports for this entries map (EMD-14799) and model-map (7zn2 and EMD-14799). Validation analysis of this entry is available in the main page. Documentation for the outputs of EMDB Validation Analysis can be found on the help page.

Map parameters

Recommended contour level:

Number of grid points:

Voxel size:

Minimum value:

Maximum value:

Average value:

Standard deviation:

0.0214

340 × 340 × 340

1.351 × 1.351 × 1.351 Å

-0.038

0.093

0.000

0.004

Primary map visualisation

Projections

Raw map visualisation (Raw map calculated from deposited two half-maps)

Volume graphs

Download: EMDB Mask Learn more EMDB Raw Map Learn more Depositor Half Map 1 Depositor Half Map 2

Map resolution (Å) measured by Fourier Shell Correlation (FSC)
	EMDB calculated FSC			Author FSC
Threshold	Unmasked	Masked	Corrected	Author
FSC 0.143	6.65	4.26	4.26	4.24
FSC 0.5	9.48	6.61	6.62	6.53
FSC half-bit	7.19	4.36	4.36	4.34

Map and 1 fitted model

Map with model 7zn2 (Tail tip of siphophage T5 : full complex after interaction with its bacterial receptor FhuA)

Primary map with model views

Title

Map-model fit plots

Chain scores summary

Plot

Chain Number of atoms Atom inclusion Q-score

A 3497 0.682 0.253

B 3497 0.686 0.256

C 3497 0.675 0.25

D 3497 0.784 0.377

E 3497 0.773 0.378

F 3497 0.784 0.381

G 2371 0.83 0.453

H 2371 0.835 0.441

I 2371 0.835 0.449

J 1026 0.769 0.353

K 1026 0.749 0.323

L 1034 0.728 0.341

M 1034 0.748 0.349

N 1026 0.756 0.321

O 1026 0.748 0.328

P 1034 0.75 0.35

Q 1034 0.77 0.366

R 1026 0.764 0.337

S 1026 0.772 0.353

T 1034 0.752 0.356

U 1034 0.778 0.37

V 1581 0.825 0.436

W 1581 0.83 0.435

X 1581 0.829 0.422

Y 1581 0.843 0.439

Z 1581 0.858 0.434

a 1581 0.864 0.443

b 7422 0.725 0.355

c 7422 0.728 0.35

d 7422 0.687 0.315

e 5078 0.402 0.168

f 5060 0.409 0.134

g 4469 0.346 0.105

h 320 0.728 0.345

i 320 0.669 0.323

j 320 0.759 0.363

All 87774 0.693 0.32

Chain	Number of atoms	Atom inclusion	Q-score
A	3497	0.682	0.253
B	3497	0.686	0.256
C	3497	0.675	0.25
D	3497	0.784	0.377
E	3497	0.773	0.378
F	3497	0.784	0.381
G	2371	0.83	0.453
H	2371	0.835	0.441
I	2371	0.835	0.449
J	1026	0.769	0.353
K	1026	0.749	0.323
L	1034	0.728	0.341
M	1034	0.748	0.349
N	1026	0.756	0.321
O	1026	0.748	0.328
P	1034	0.75	0.35
Q	1034	0.77	0.366
R	1026	0.764	0.337
S	1026	0.772	0.353
T	1034	0.752	0.356
U	1034	0.778	0.37
V	1581	0.825	0.436
W	1581	0.83	0.435
X	1581	0.829	0.422
Y	1581	0.843	0.439
Z	1581	0.858	0.434
a	1581	0.864	0.443
b	7422	0.725	0.355
c	7422	0.728	0.35
d	7422	0.687	0.315
e	5078	0.402	0.168
f	5060	0.409	0.134
g	4469	0.346	0.105
h	320	0.728	0.345
i	320	0.669	0.323
j	320	0.759	0.363
All	87774	0.693	0.32