Protein sequence

>Q6FDU1: 1-186

1-60:

M

S

A

N

T

F

P

A

Q

I

E

P

Y

K

W

A

E

Q

G

F

T

W

S

G

T

L

P

L

S

R

F

A

R

I

A

R

E

A

V

G

S

I

N

D

Q

L

I

Y

I

D

C

K

L

S

M

D

A

Y

H

R

61-119:

I

V

W

F

E

G

H

I

E

T

K

V

P

L

E

C

Q

R

C

L

E

P

V

E

I

P

L

V

S

D

F

R

L

A

L

V

D

E

S

L

I

E

R

L

D

E

D

A

D

F

I

V

L

G

E

S

E

S

121-179:

T

K

G

D

F

A

T

P

A

T

V

D

L

S

L

E

D

E

L

M

P

L

S

P

K

H

D

A

C

E

H

K

H

Q

P

T

V

Q

D

I

V

E

K

R

D

N

P

F

D

V

L

A

S

L

181-186:

K

G

K

L

N

S

Secondary structure prediction (H: Helix E: Strand C: Coil)

1-60:

C

H

C

E

C

H

C

E

C

61-119:

E

H

C

E

C

H

C

E

C

121-179:

C

H

C

H

C

H

181-186:

H

C

H(Helix): 58(31.18%)

E(Strand): 41(22.04%)

C(Coil): 87(46.77%)

Solvent accessibility prediction (e: Exposed b: Buried)

1-60:

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

61-119:

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

121-179:

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

181-186:

E

e(Exposed): 109(58.6%)

b(Buried): 77(41.4%)

Disorder prediction (N: Normal T: Disorder)

1-60:

T

N

61-119:

N

121-179:

N

T

N

T

N

181-186:

N

T

N(Normal): 164(88.17%)

T(Disorder): 22(11.83%)

Predicted contact map and distance map

Predicted distance map

Predicted contact map

Probability to Precision

Long-Range	Average probability	Predicted precision
TopL/5	0.96	95.38
TopL/2	0.86	89.73

Note: The linear model (Average probability vs Predicted precision) was trained on CASP14 dataset

Predicted Top 1 Tertiary structure

Predicted Model 1

loadClass core.package

loadClass java.lang.String

loadClass core.package

JSmol exec jsmolApplet_M23d1 start applet null

Jmol JavaScript applet jsmolApplet_M23d1__6881945153314306__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d1__6881945153314306__)

nographics false

headless false

vwrOptions:

{ "name":"jsmolApplet_M23d1","applet":true,"documentBase":"http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=Q6FDU1","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d1__6881945153314306__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"6881945153314306","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=Q6FDU1"

Jmol Version: 14.4.0_2015.12.02 2015-12-01 21:40

java.vendor: Java2Script (HTML5)

java.version: 2015-12-01 12:38:36 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jsmolApplet_M23d1 (signed)

loadClass JS.ScriptManager

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor #FFFFFF

backgroundColor = "#FFFFFF"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jsmolApplet_M23d1__6881945153314306__ ready

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-Q6FDU1/full_length/Q6FDU1.casp1.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-Q6FDU1/full_length/Q6FDU1.casp1.pdb

The Resolver thinks Pdb

loadClass J.adapter.readers.pdb.PdbReader

Time for openFile(work/multicom-Q6FDU1/full_length/Q6FDU1.casp1.pdb): 443 ms

reading 1477 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

1477 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Jmol 14.4.0_2015.12.02 2015-12-01 21:40 DSSP analysis for model 1.1 - null

W. Kabsch and C. Sander, Biopolymers, vol 22, 1983, pp 2577-2637

We thank Wolfgang Kabsch and Chris Sander for writing the DSSP software,

and we thank the CMBI for maintaining it to the extent that it was easy to

re-engineer for our purposes. At this point in time, we make no guarantee

that this code gives precisely the same analysis as the code available via license

from CMBI at http://swift.cmbi.ru.nl/gv/dssp

All bioshapes have been deleted and must be regenerated.

null

loadClass J.thread.SpinThread

Script completed

Jmol script terminated

loadClass J.g3d.HermiteRenderer

Model 1 vs Contact (Top L/5)

./work/multicom-Q6FDU1/full_length/casp1_contact/L5_long.png

Model 1 vs Contact (Top L/2)

./work/multicom-Q6FDU1/full_length/casp1_contact/L2_long.png

Model 1 vs Contact (Top L)

./work/multicom-Q6FDU1/full_length/casp1_contact/L_long.png

Model 1 vs Contact (Top 2L)

./work/multicom-Q6FDU1/full_length/casp1_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	97.30
TopL/2	92.47
TopL	75.27
Top2L	44.09

( Alignment file )

Alignment	Number
N	6762
Neff	2708

Model comparsion

Model	TM-score
Model 2	0.9309
Model 3	0.8867
Model 4	0.7748
Model 5	0.7737
Average	0.84153

Radius Gyration

RG	RG/(2.0*L^0.4)
19.76	1.22430

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
3kvn	0.50123
6h3i	0.49448
6afw	0.49152
4k3c	0.49107
6afx	0.48958

Note: The model is built by ab initio method, no significant templates are found!

Predicted Top 2 Tertiary structure

Predicted Model 2

Jmol._Canvas2D (Jmol) "jsmolApplet_M23d2"[x]

Model 2 vs Contact (Top L/5)

./work/multicom-Q6FDU1/full_length/casp2_contact/L5_long.png

Model 2 vs Contact (Top L/2)

./work/multicom-Q6FDU1/full_length/casp2_contact/L2_long.png

Model 2 vs Contact (Top L)

./work/multicom-Q6FDU1/full_length/casp2_contact/L_long.png

Model 2 vs Contact (Top 2L)

./work/multicom-Q6FDU1/full_length/casp2_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	97.30
TopL/2	94.62
TopL	74.73
Top2L	43.82

( Alignment file )

Alignment	Number
N	6762
Neff	2708

Model comparsion

Model	TM-score
Model 1	0.9309
Model 3	0.8840
Model 4	0.7713
Model 5	0.7729
Average	0.83977

Radius Gyration

RG	RG/(2.0*L^0.4)
19.69	1.21996

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5or1	0.49360
5d0o	0.49293
6fsu	0.49179
5ayw	0.49169
4n75	0.49166

Note: The model is built by ab initio method, no significant templates are found!

Predicted Top 3 Tertiary structure

Predicted Model 3

Jmol._Canvas2D (Jmol) "jsmolApplet_M23d3"[x]

spinFPS is set too fast (30) -- can't keep up!

Model 3 vs Contact (Top L/5)

./work/multicom-Q6FDU1/full_length/casp3_contact/L5_long.png

Model 3 vs Contact (Top L/2)

./work/multicom-Q6FDU1/full_length/casp3_contact/L2_long.png

Model 3 vs Contact (Top L)

./work/multicom-Q6FDU1/full_length/casp3_contact/L_long.png

Model 3 vs Contact (Top 2L)

./work/multicom-Q6FDU1/full_length/casp3_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	97.30
TopL/2	95.70
TopL	74.19
Top2L	42.74

( Alignment file )

Alignment	Number
N	6762
Neff	2708

Model comparsion

Model	TM-score
Model 1	0.8867
Model 2	0.8840
Model 4	0.7728
Model 5	0.7819
Average	0.83135

Radius Gyration

RG	RG/(2.0*L^0.4)
19.75	1.22368

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5or1	0.49702
5d0o	0.49608
6fsu	0.49482
6t1w	0.49432
6qgw	0.49019

Note: The model is built by ab initio method, no significant templates are found!

Predicted Top 4 Tertiary structure

Predicted Model 4

Jmol._Canvas2D (Jmol) "jsmolApplet_M23d4"[x]

Model 4 vs Contact (Top L/5)

./work/multicom-Q6FDU1/full_length/casp4_contact/L5_long.png

Model 4 vs Contact (Top L/2)

./work/multicom-Q6FDU1/full_length/casp4_contact/L2_long.png

Model 4 vs Contact (Top L)

./work/multicom-Q6FDU1/full_length/casp4_contact/L_long.png

Model 4 vs Contact (Top 2L)

./work/multicom-Q6FDU1/full_length/casp4_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	94.59
TopL/2	93.55
TopL	68.82
Top2L	35.75

( Alignment file )

Alignment	Number
N	6762
Neff	2708

Model comparsion

Model	TM-score
Model 1	0.7748
Model 2	0.7713
Model 3	0.7728
Model 5	0.8770
Average	0.79897

Radius Gyration

RG	RG/(2.0*L^0.4)
21.36	1.32343

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
3fhh	0.48780
3slo	0.48572
3slj	0.48544
3slt	0.48458
3dwo	0.47912

Note: The model is built by ab initio method, no significant templates are found!

Predicted Top 5 Tertiary structure

Predicted Model 5

Jmol._Canvas2D (Jmol) "jsmolApplet_M23d5"[x]

Model 5 vs Contact (Top L/5)

./work/multicom-Q6FDU1/full_length/casp5_contact/L5_long.png

Model 5 vs Contact (Top L/2)

./work/multicom-Q6FDU1/full_length/casp5_contact/L2_long.png

Model 5 vs Contact (Top L)

./work/multicom-Q6FDU1/full_length/casp5_contact/L_long.png

Model 5 vs Contact (Top 2L)

./work/multicom-Q6FDU1/full_length/casp5_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	97.30
TopL/2	92.47
TopL	66.67
Top2L	35.75

( Alignment file )

Alignment	Number
N	6762
Neff	2708

Model comparsion

Model	TM-score
Model 1	0.7737
Model 2	0.7729
Model 3	0.7819
Model 4	0.8770
Average	0.80137

Radius Gyration

RG	RG/(2.0*L^0.4)
21.38	1.32467

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4b7o	0.47957
4aip	0.47927
6h3i	0.47686
3dwo	0.47552
3slo	0.47388

Note: The model is built by ab initio method, no significant templates are found!

Domain Boundary prediction ( View )

Protein sequence

Secondary structure prediction (H: Helix E: Strand C: Coil)

Solvent accessibility prediction (e: Exposed b: Buried)

Disorder prediction (N: Normal T: Disorder)

Predicted contact map and distance map

Probability to Precision

Predicted Top 1 Tertiary structure

Predicted Contact Accuracy
( Contact file )

( Alignment file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 2 Tertiary structure

Predicted Contact Accuracy
( Contact file )

( Alignment file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 3 Tertiary structure

Predicted Contact Accuracy
( Contact file )

( Alignment file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 4 Tertiary structure

Predicted Contact Accuracy
( Contact file )

( Alignment file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 5 Tertiary structure

Predicted Contact Accuracy
( Contact file )

( Alignment file )

Model comparsion

Radius Gyration

Similar pdbs

References

Domain Boundary prediction ( View )

Predicted contact map and distance map

Probability to Precision

Predicted Top 1 Tertiary structure

Predicted Contact Accuracy ( Contact file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 2 Tertiary structure

Predicted Contact Accuracy ( Contact file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 3 Tertiary structure

Predicted Contact Accuracy ( Contact file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 4 Tertiary structure

Predicted Contact Accuracy ( Contact file )

Model comparsion

Radius Gyration

Similar pdbs

Predicted Top 5 Tertiary structure

Predicted Contact Accuracy ( Contact file )

Model comparsion

Radius Gyration

Similar pdbs

References

Predicted Contact Accuracy
( Contact file )

Predicted Contact Accuracy
( Contact file )

Predicted Contact Accuracy
( Contact file )

Predicted Contact Accuracy
( Contact file )

Predicted Contact Accuracy
( Contact file )