Protein sequence

>P62066: 1-106

1-60:

M

S

V

A

R

F

S

C

G

K

T

A

Q

L

S

K

Q

T

G

Y

S

P

E

I

F

P

S

T

G

K

D

C

N

P

Q

P

A

N

C

L

K

D

Q

Y

V

L

R

H

C

V

D

R

S

G

K

M

61-106:

G

Y

S

V

K

F

L

V

L

T

R

M

D

T

E

T

A

S

L

F

H

C

K

P

C

Y

S

K

M

T

F

T

I

Y

H

P

L

T

H

S

F

T

S

C

W

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

1-60:

C

E

C

E

C

E

C

H

C

E

C

61-106:

E

C

E

C

E

C

E

C

E

C

H(Helix): 2(1.89%)

E(Strand): 39(36.79%)

C(Coil): 65(61.32%)

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

61-106:

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

e(Exposed): 60(56.6%)

b(Buried): 46(43.4%)

Disorder prediction (N: Normal T: Disorder)

1-60:

T

N

61-106:

N

N(Normal): 105(99.06%)

T(Disorder): 1(0.94%)

Predicted contact map and distance map

Predicted distance map

Predicted contact map

Probability to Precision

Long-Range	Average probability	Predicted precision
TopL/5	0.11	14.31
TopL/2	0.10	12.47

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

Predicted Top 1 Tertiary structure

Predicted Model 1

Model 1 vs Contact (Top L/5)

./work/multicom-P62066/full_length/casp1_contact/L5_long.png

Model 1 vs Contact (Top L/2)

./work/multicom-P62066/full_length/casp1_contact/L2_long.png

Model 1 vs Contact (Top L)

./work/multicom-P62066/full_length/casp1_contact/L_long.png

Model 1 vs Contact (Top 2L)

./work/multicom-P62066/full_length/casp1_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	19.05
TopL/2	15.09
TopL	11.32
Top2L	9.43

( Alignment file )

Alignment	Number
N	46
Neff	10

Model comparsion

Model	TM-score
Model 2	0.4102
Model 3	0.4028
Model 4	0.3945
Model 5	0.4578
Average	0.41633

Radius Gyration

RG	RG/(2.0*L^0.4)
13.07	1.01571

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5myf	0.49411
2g77	0.47935
6h4b	0.47133
5mil	0.47060
5mwl	0.46879

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

Predicted Top 2 Tertiary structure

Predicted Model 2

loadClass core.package

loadClass java.lang.String

loadClass core.package

JSmol exec jsmolApplet_M23d1 start applet null

Jmol JavaScript applet jsmolApplet_M23d1__189868712729647__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d1__189868712729647__)

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=P62066","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d1__189868712729647__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"189868712729647","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P62066"

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

JSmol exec jsmolApplet_M23d2 start applet null

Jmol JavaScript applet jsmolApplet_M23d2__189868712729647__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d2__189868712729647__)

nographics false

headless false

vwrOptions:

{ "name":"jsmolApplet_M23d2","applet":true,"documentBase":"http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P62066","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d2__189868712729647__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d2_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"189868712729647","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P62066"

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_M23d2 (signed)

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_M23d2__189868712729647__ ready

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-P62066/full_length/P62066.casp2.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-P62066/full_length/P62066.casp2.pdb

The Resolver thinks Pdb

loadClass J.adapter.readers.pdb.PdbReader

Time for openFile(work/multicom-P62066/full_length/P62066.casp2.pdb): 398 ms

reading 844 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

844 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

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__189868712729647__ ready

Model 2 vs Contact (Top L/5)

./work/multicom-P62066/full_length/casp2_contact/L5_long.png

Model 2 vs Contact (Top L/2)

./work/multicom-P62066/full_length/casp2_contact/L2_long.png

Model 2 vs Contact (Top L)

./work/multicom-P62066/full_length/casp2_contact/L_long.png

Model 2 vs Contact (Top 2L)

./work/multicom-P62066/full_length/casp2_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	4.76
TopL/2	3.77
TopL	5.66
Top2L	6.13

( Alignment file )

Alignment	Number
N	46
Neff	10

Model comparsion

Model	TM-score
Model 1	0.4102
Model 3	0.3713
Model 4	0.3878
Model 5	0.3240
Average	0.37333

Radius Gyration

RG	RG/(2.0*L^0.4)
13.15	1.02193

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4dod	0.52410
2xfg	0.52305
4tf4	0.52222
3wc3	0.52166
1js4	0.52162

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]

Model 3 vs Contact (Top L/5)

./work/multicom-P62066/full_length/casp3_contact/L5_long.png

Model 3 vs Contact (Top L/2)

./work/multicom-P62066/full_length/casp3_contact/L2_long.png

Model 3 vs Contact (Top L)

./work/multicom-P62066/full_length/casp3_contact/L_long.png

Model 3 vs Contact (Top 2L)

./work/multicom-P62066/full_length/casp3_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	14.29
TopL/2	9.43
TopL	7.55
Top2L	9.43

( Alignment file )

Alignment	Number
N	46
Neff	10

Model comparsion

Model	TM-score
Model 1	0.4028
Model 2	0.3713
Model 4	0.2989
Model 5	0.2772
Average	0.33755

Radius Gyration

RG	RG/(2.0*L^0.4)
12.94	1.00561

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
2f3o	0.47354
2xqo	0.47290
3w31	0.46108
1pn0	0.46104
1foh	0.46004

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]

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

Model 4 vs Contact (Top L/5)

./work/multicom-P62066/full_length/casp4_contact/L5_long.png

Model 4 vs Contact (Top L/2)

./work/multicom-P62066/full_length/casp4_contact/L2_long.png

Model 4 vs Contact (Top L)

./work/multicom-P62066/full_length/casp4_contact/L_long.png

Model 4 vs Contact (Top 2L)

./work/multicom-P62066/full_length/casp4_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	14.29
TopL/2	7.55
TopL	4.72
Top2L	6.60

( Alignment file )

Alignment	Number
N	46
Neff	10

Model comparsion

Model	TM-score
Model 1	0.3945
Model 2	0.3878
Model 3	0.2989
Model 5	0.3878
Average	0.36725

Radius Gyration

RG	RG/(2.0*L^0.4)
13.68	1.06312

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5c5y	0.48067
2pa5	0.47788
5c2x	0.47497
1p1x	0.47344
1jcj	0.47325

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-P62066/full_length/casp5_contact/L5_long.png

Model 5 vs Contact (Top L/2)

./work/multicom-P62066/full_length/casp5_contact/L2_long.png

Model 5 vs Contact (Top L)

./work/multicom-P62066/full_length/casp5_contact/L_long.png

Model 5 vs Contact (Top 2L)

./work/multicom-P62066/full_length/casp5_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	0.00
TopL/2	13.21
TopL	10.38
Top2L	10.85

( Alignment file )

Alignment	Number
N	46
Neff	10

Model comparsion

Model	TM-score
Model 1	0.4578
Model 2	0.3240
Model 3	0.2772
Model 4	0.3878
Average	0.36170

Radius Gyration

RG	RG/(2.0*L^0.4)
13.33	1.03592

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4n4a	0.51388
4n49	0.50732
4n48	0.50646
4fdu	0.50501
6h5x	0.50176

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 )