Protein sequence

>B2RH12: 1-139

1-60:

M

D

I

Q

I

Q

G

Q

L

I

Q

I

L

P

L

N

S

G

V

G

K

A

S

G

K

E

W

K

Q

E

Y

I

L

E

T

L

D

Q

Y

P

R

K

I

H

F

S

V

W

G

D

R

I

D

P

S

Y

Q

V

G

61-119:

D

Q

V

T

V

W

V

D

I

E

S

R

E

F

N

G

R

W

Y

T

D

V

K

A

W

R

M

E

R

G

Y

I

G

Q

G

Q

L

P

Q

E

M

P

A

G

A

P

T

F

P

T

Q

P

S

M

P

121-139:

S

Q

P

A

T

G

W

A

S

N

A

D

A

G

D

L

P

F

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

1-60:

C

E

C

E

C

E

C

61-119:

C

E

C

E

C

E

C

121-139:

C

H(Helix): 0(0%)

E(Strand): 45(32.37%)

C(Coil): 94(67.63%)

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

61-119:

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

B

E

121-139:

E

B

E

e(Exposed): 101(72.66%)

b(Buried): 38(27.34%)

Disorder prediction (N: Normal T: Disorder)

1-60:

T

N

T

N

61-119:

N

T

121-139:

T

N(Normal): 85(61.15%)

T(Disorder): 54(38.85%)

Predicted contact map and distance map

Predicted distance map

Predicted contact map

Probability to Precision

Long-Range	Average probability	Predicted precision
TopL/5	0.93	92.37
TopL/2	0.86	90.16

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__980076119914435__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jsmolApplet_M23d1__980076119914435__)

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=B2RH12","platform":"J.awtjs2d.Platform","fullName":"jsmolApplet_M23d1__980076119914435__","codePath":"http://sysbio.rnet.missouri.edu/nihr01duf/js/j2s/","display":"jsmolApplet_M23d1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"980076119914435","bgcolor":"#FFFFFF" }

setting document base to "http://sysbio.rnet.missouri.edu/nihr01duf/status.php?domain_class=full_length&method=multicom&target_name=B2RH12"

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__980076119914435__ ready

script 1 started

FileManager.getAtomSetCollectionFromFile(work/multicom-B2RH12/full_length/B2RH12.casp1.pdb)

FileManager opening url http://sysbio.rnet.missouri.edu/nihr01duf/work/multicom-B2RH12/full_length/B2RH12.casp1.pdb

The Resolver thinks Pdb

loadClass J.adapter.readers.pdb.PdbReader

Time for openFile(work/multicom-B2RH12/full_length/B2RH12.casp1.pdb): 477 ms

reading 1368 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 Babel

1368 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.

NOTE: Backbone amide hydrogen positions are present and will be ignored. Their positions will be approximated, as in standard DSSP analysis.

Use SET dsspCalculateHydrogenAlways FALSE to not use this approximation.

null

loadClass J.thread.SpinThread

Script completed

Jmol script terminated

loadClass J.g3d.HermiteRenderer

Model 1 vs Contact (Top L/5)

./work/multicom-B2RH12/full_length/casp1_contact/L5_long.png

Model 1 vs Contact (Top L/2)

./work/multicom-B2RH12/full_length/casp1_contact/L2_long.png

Model 1 vs Contact (Top L)

./work/multicom-B2RH12/full_length/casp1_contact/L_long.png

Model 1 vs Contact (Top 2L)

./work/multicom-B2RH12/full_length/casp1_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	96.43
TopL/2	92.86
TopL	67.63
Top2L	34.17

( Alignment file )

Alignment	Number
N	21865
Neff	3221

Model comparsion

Model	TM-score
Model 2	0.7543
Model 3	0.6766
Model 4	0.6991
Model 5	0.7164
Average	0.71160

Radius Gyration

RG	RG/(2.0*L^0.4)
22.90	1.59534

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
6skl	0.71827
5u8t	0.70393
6mii	0.69960
3jc7	0.68639
6rax	0.68116

Note: This is multi-domain structure, check alignments and domain qualities in individual domains!

Predicted Top 2 Tertiary structure

Predicted Model 2

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

Model 2 vs Contact (Top L/5)

./work/multicom-B2RH12/full_length/casp2_contact/L5_long.png

Model 2 vs Contact (Top L/2)

./work/multicom-B2RH12/full_length/casp2_contact/L2_long.png

Model 2 vs Contact (Top L)

./work/multicom-B2RH12/full_length/casp2_contact/L_long.png

Model 2 vs Contact (Top 2L)

./work/multicom-B2RH12/full_length/casp2_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	96.43
TopL/2	95.71
TopL	70.50
Top2L	35.61

( Alignment file )

Alignment	Number
N	21865
Neff	3221

Model comparsion

Model	TM-score
Model 1	0.7543
Model 3	0.6803
Model 4	0.6994
Model 5	0.7100
Average	0.71100

Radius Gyration

RG	RG/(2.0*L^0.4)
21.91	1.52637

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4fdg	0.68021
6skl	0.67422
5v8f	0.67278
3f9v	0.66520
4r7y	0.65608

Note: This is multi-domain structure, check alignments and domain qualities in individual domains!

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-B2RH12/full_length/casp3_contact/L5_long.png

Model 3 vs Contact (Top L/2)

./work/multicom-B2RH12/full_length/casp3_contact/L2_long.png

Model 3 vs Contact (Top L)

./work/multicom-B2RH12/full_length/casp3_contact/L_long.png

Model 3 vs Contact (Top 2L)

./work/multicom-B2RH12/full_length/casp3_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	96.43
TopL/2	92.86
TopL	69.78
Top2L	35.97

( Alignment file )

Alignment	Number
N	21865
Neff	3221

Model comparsion

Model	TM-score
Model 1	0.6766
Model 2	0.6803
Model 4	0.6714
Model 5	0.6672
Average	0.67388

Radius Gyration

RG	RG/(2.0*L^0.4)
17.51	1.21984

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
6skl	0.62988
3jc5	0.62116
6mii	0.61386
5u8t	0.61263
6raw	0.61191

Note: This is multi-domain structure, check alignments and domain qualities in individual domains!

Predicted Top 4 Tertiary structure

Predicted Model 4

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

Model 4 vs Contact (Top L/5)

./work/multicom-B2RH12/full_length/casp4_contact/L5_long.png

Model 4 vs Contact (Top L/2)

./work/multicom-B2RH12/full_length/casp4_contact/L2_long.png

Model 4 vs Contact (Top L)

./work/multicom-B2RH12/full_length/casp4_contact/L_long.png

Model 4 vs Contact (Top 2L)

./work/multicom-B2RH12/full_length/casp4_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	96.43
TopL/2	92.86
TopL	69.06
Top2L	34.89

( Alignment file )

Alignment	Number
N	21865
Neff	3221

Model comparsion

Model	TM-score
Model 1	0.6991
Model 2	0.6994
Model 3	0.6714
Model 5	0.7100
Average	0.69498

Radius Gyration

RG	RG/(2.0*L^0.4)
22.91	1.59604

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4fdg	0.66918
4r7y	0.66820
3f9v	0.65018
3jc7	0.64687
6skl	0.63782

Note: This is multi-domain structure, check alignments and domain qualities in individual domains!

Predicted Top 5 Tertiary structure

Predicted Model 5

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

Model 5 vs Contact (Top L/5)

./work/multicom-B2RH12/full_length/casp5_contact/L5_long.png

Model 5 vs Contact (Top L/2)

./work/multicom-B2RH12/full_length/casp5_contact/L2_long.png

Model 5 vs Contact (Top L)

./work/multicom-B2RH12/full_length/casp5_contact/L_long.png

Model 5 vs Contact (Top 2L)

./work/multicom-B2RH12/full_length/casp5_contact/2L_long.png

Predicted Contact Accuracy
( Contact file )

Long-Range	Precision
TopL/5	96.43
TopL/2	92.86
TopL	67.63
Top2L	34.89

( Alignment file )

Alignment	Number
N	21865
Neff	3221

Model comparsion

Model	TM-score
Model 1	0.7164
Model 2	0.7100
Model 3	0.6672
Model 4	0.7100
Average	0.70090

Radius Gyration

RG	RG/(2.0*L^0.4)
22.32	1.55494

Note: Radius Gyration is calculated based on wiki

Similar pdbs

PDB	TM-score
4r7y	0.66927
4fdg	0.66855
6mii	0.66830
5v8f	0.66673
3f9v	0.66429

Note: This is multi-domain structure, check alignments and domain qualities in individual domains!

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 )