Protein sequence

>P38521: 1-108

1-60:

M

A

K

N

R

S

R

L

R

K

M

H

I

D

E

F

Q

E

L

G

F

S

V

A

W

R

F

P

E

G

T

S

E

Q

I

D

K

T

V

D

F

I

N

E

V

I

E

P

N

K

L

A

F

D

G

S

61-108:

G

Y

L

A

W

E

G

L

I

C

M

Q

E

I

G

K

C

T

E

H

Q

A

I

V

R

K

W

L

E

R

K

L

D

E

V

R

T

S

E

L

F

D

V

W

D

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

1-60:

C

H

C

H

C

E

C

H

C

E

C

61-108:

C

E

C

H

C

E

C

H

E

C

H(Helix): 51(47.22%)

E(Strand): 19(17.59%)

C(Coil): 38(35.19%)

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

61-108:

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

e(Exposed): 60(55.56%)

b(Buried): 48(44.44%)

Disorder prediction (N: Normal T: Disorder)

1-60:

T

N

61-108:

N

N(Normal): 101(93.52%)

T(Disorder): 7(6.48%)

Predicted contact map and distance map

Predicted distance map

Predicted contact map

Probability to Precision

Long-Range	Average probability	Predicted precision
TopL/5	0.99	98.21
TopL/2	0.95	99.33

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-P38521/full_length/casp1_contact/L5_long.png

Model 1 vs Contact (Top L/2)

./work/multicom-P38521/full_length/casp1_contact/L2_long.png

Model 1 vs Contact (Top L)

./work/multicom-P38521/full_length/casp1_contact/L_long.png

Model 1 vs Contact (Top 2L)

./work/multicom-P38521/full_length/casp1_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	100.00
TopL/2	98.15
TopL	91.67
Top2L	51.85

( Alignment file )

Alignment	Number
N	419
Neff	217

Model comparsion

Model	TM-score
Model 2	0.9504
Model 3	0.9492
Model 4	0.9222
Model 5	0.9512
Average	0.94325

Radius Gyration

RG	RG/(2.0*L^0.4)
17.04	1.31427

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4oyi	0.67570
5iv3	0.67558
4oym	0.67385
5iv4	0.67322
4oya	0.67281

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__2952805958609197__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d1__2952805958609197__)

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=P38521","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d1__2952805958609197__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"2952805958609197","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521"

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__2952805958609197__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d2__2952805958609197__)

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=P38521","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d2__2952805958609197__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d2_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"2952805958609197","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521"

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__2952805958609197__ ready

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-P38521/full_length/P38521.casp2.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-P38521/full_length/P38521.casp2.pdb

The Resolver thinks Pdb

loadClass J.adapter.readers.pdb.PdbReader

Time for openFile(work/multicom-P38521/full_length/P38521.casp2.pdb): 463 ms

reading 907 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

907 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__2952805958609197__ ready

Model 2 vs Contact (Top L/5)

./work/multicom-P38521/full_length/casp2_contact/L5_long.png

Model 2 vs Contact (Top L/2)

./work/multicom-P38521/full_length/casp2_contact/L2_long.png

Model 2 vs Contact (Top L)

./work/multicom-P38521/full_length/casp2_contact/L_long.png

Model 2 vs Contact (Top 2L)

./work/multicom-P38521/full_length/casp2_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	100.00
TopL/2	98.15
TopL	87.96
Top2L	50.00

( Alignment file )

Alignment	Number
N	419
Neff	217

Model comparsion

Model	TM-score
Model 1	0.9504
Model 3	0.9340
Model 4	0.9232
Model 5	0.9487
Average	0.93907

Radius Gyration

RG	RG/(2.0*L^0.4)
17.01	1.31196

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5iv3	0.67184
4oym	0.66953
4oya	0.66875
5iv4	0.66833
4cm0	0.66770

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

Predicted Top 3 Tertiary structure

Predicted Model 3

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-P38521/full_length/P38521.casp3.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-P38521/full_length/P38521.casp3.pdb

The Resolver thinks Pdb

Time for openFile(work/multicom-P38521/full_length/P38521.casp3.pdb): 353 ms

reading 907 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

907 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

Script completed

Jmol script terminated

JSmol exec jsmolApplet_M23d4 start applet null

Jmol JavaScript applet jsmolApplet_M23d4__2952805958609197__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d4__2952805958609197__)

nographics false

headless false

vwrOptions:

{ "name":"jsmolApplet_M23d4","applet":true,"documentBase":"http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d4__2952805958609197__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d4_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"2952805958609197","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521"

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_M23d4 (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_M23d4__2952805958609197__ ready

Model 3 vs Contact (Top L/5)

./work/multicom-P38521/full_length/casp3_contact/L5_long.png

Model 3 vs Contact (Top L/2)

./work/multicom-P38521/full_length/casp3_contact/L2_long.png

Model 3 vs Contact (Top L)

./work/multicom-P38521/full_length/casp3_contact/L_long.png

Model 3 vs Contact (Top 2L)

./work/multicom-P38521/full_length/casp3_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	100.00
TopL/2	98.15
TopL	90.74
Top2L	53.24

( Alignment file )

Alignment	Number
N	419
Neff	217

Model comparsion

Model	TM-score
Model 1	0.9492
Model 2	0.9340
Model 4	0.9433
Model 5	0.9598
Average	0.94658

Radius Gyration

RG	RG/(2.0*L^0.4)
17.19	1.32584

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5iv3	0.69006
5iv4	0.68702
4cm0	0.68500
4oym	0.68450
4usu	0.68426

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

Predicted Top 4 Tertiary structure

Predicted Model 4

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

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-P38521/full_length/P38521.casp4.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-P38521/full_length/P38521.casp4.pdb

The Resolver thinks Pdb

Time for openFile(work/multicom-P38521/full_length/P38521.casp4.pdb): 142 ms

reading 907 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

907 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

Script completed

Jmol script terminated

JSmol exec jsmolApplet_M23d5 start applet null

Jmol JavaScript applet jsmolApplet_M23d5__2952805958609197__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d5__2952805958609197__)

nographics false

headless false

vwrOptions:

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setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521"

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_M23d5 (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_M23d5__2952805958609197__ ready

Model 4 vs Contact (Top L/5)

./work/multicom-P38521/full_length/casp4_contact/L5_long.png

Model 4 vs Contact (Top L/2)

./work/multicom-P38521/full_length/casp4_contact/L2_long.png

Model 4 vs Contact (Top L)

./work/multicom-P38521/full_length/casp4_contact/L_long.png

Model 4 vs Contact (Top 2L)

./work/multicom-P38521/full_length/casp4_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	100.00
TopL/2	100.00
TopL	94.44
Top2L	54.17

( Alignment file )

Alignment	Number
N	419
Neff	217

Model comparsion

Model	TM-score
Model 1	0.9222
Model 2	0.9232
Model 3	0.9433
Model 5	0.9574
Average	0.93653

Radius Gyration

RG	RG/(2.0*L^0.4)
16.88	1.30193

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
5iv3	0.69416
5iv4	0.69155
4usu	0.68914
4cm0	0.68908
4clu	0.68879

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

Predicted Top 5 Tertiary structure

Predicted Model 5

JSmol exec jsmolApplet_M23d3 loadClazz null

JSmol exec jsmolApplet_M23d3 start applet null

Jmol JavaScript applet jsmolApplet_M23d3__2952805958609197__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d3__2952805958609197__)

nographics false

headless false

vwrOptions:

{ "name":"jsmolApplet_M23d3","applet":true,"documentBase":"http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d3__2952805958609197__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d3_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"2952805958609197","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=P38521"

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_M23d3 (signed)

Jmol getValue emulate null

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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

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Jmol getValue PICKCallback null

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Jmol applet jsmolApplet_M23d3__2952805958609197__ ready

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-P38521/full_length/P38521.casp5.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-P38521/full_length/P38521.casp5.pdb

The Resolver thinks Pdb

Time for openFile(work/multicom-P38521/full_length/P38521.casp5.pdb): 179 ms

reading 907 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

907 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

Script completed

Jmol script terminated

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

Model 5 vs Contact (Top L/5)

./work/multicom-P38521/full_length/casp5_contact/L5_long.png

Model 5 vs Contact (Top L/2)

./work/multicom-P38521/full_length/casp5_contact/L2_long.png

Model 5 vs Contact (Top L)

./work/multicom-P38521/full_length/casp5_contact/L_long.png

Model 5 vs Contact (Top 2L)

./work/multicom-P38521/full_length/casp5_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	100.00
TopL/2	98.15
TopL	92.59
Top2L	52.78

( Alignment file )

Alignment	Number
N	419
Neff	217

Model comparsion

Model	TM-score
Model 1	0.9512
Model 2	0.9487
Model 3	0.9598
Model 4	0.9574
Average	0.95427

Radius Gyration

RG	RG/(2.0*L^0.4)
16.98	1.30965

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4oym	0.68363
4cm0	0.68205
4oyx	0.68182
5iv3	0.68173
4oz2	0.68170

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 )