RAPHAEL Determination of periodicty in protein structures

Title: request

emailaddress:

pid: 64843784

Status: finished

NB: The data will be kept for two weeks, after which it will be deleted without further notice.

Available files:

Input parameters: HTML
PDB file: PDF
Variance file (insertions): Text

RAPHAEL output

PDB: 1hm9A
Ratio Alpha helix: 0.218340611353712
Ratio Beta strand: 0.299126637554585
Ratio Coils: 0.482532751091703
Total score: 1.4993
Variance in period matrix: 7.50864
Variance in sequence seperation for 6 Å contacts: 9.76331000000002
Predicted repeat length: 25.4246
Minimum distance between N and C terminus divided by protein length: 0.0950245000000004
Concentration of 15 Å contacts with sequence seperation > 55 : 0.172785999999999
Structure status: REPEAT
SVM SCORE: 10.406811...... (-1≥score≥1 indicates prediction accurate and precise)
Period matrix:
 Sequence info:
         10        20        30        40        50        60        70   
SNFAIILAAGKGTRMKSDLPKVLHKVAGISMLEHVFRSVGAIQPEKTVTVVGHKAELVEEVLAGQTEFVT
.EEEEEE.....GGG..SS.GGGSEETTEEHHHHHHHHHHTT..SEEEEEE.TTHHHHHHSSSSSSEEEE
0000011100000000000000000000000111111000000000111111111110000011001111
         80        90        100       110       120       130       140  
QSEQLGTGHAVMMTEPILEGLSGHTLVIAGDTPLITGESLKNLIDFHINHKNVATILTAETDNPFGYGRI
.SS...HHHHHHTTHHHHTT..SEEEEEETT.TT..HHHHHHHHHHHHHTT.SEEEEEEE.S..TTS.EE
1111110000011111000000000111100000000000000011000000000000000001111111
         150       160       170       180       190       200       210  
VRNDNAEVLRIVEQKDATDFEKQIKEINTGTYVFDNERLFEALKNINTNNAQGEYYITDVIGIFRETGEK
EE.TT..EEEEE.TTT..TTGGG..EEEEEEEEEEHHHHHHHHTT..S.STT.S..TTHHHHHHHHHT..
1111000000000111111100011111111111000000000001111100011000000111001100
         220       230       240       250       260       270       280  
VGAYTLKDFDESLGVNDRVALATAESVMRRRINHKHMVNGVSFVNPEATYIDIDVEIAPEVQIEANVILK
EEEEE.SSGGGG....SHHHHHHHHHHHHHHHHHHHHHTT.EES.GGG.EE.TT.EE.TT.EE.SS.EEE
0000000000000110000000000000011111111000001111111111111111111111111111
         290       300       310       320       330       340       350  
GQTKIGAETVLTNGTYVVDSTIGAGAVITNSMIEESSVADGVTVGPYAHIRPNSSLGAQVHIGNFVEVKG
SS.EE.TT.EE.TT.EEES.EE.TT.EE.S.EEES.EE.TT.EE.SS.EE.SS.EE.TT.EEEEEEEEES
1111111111111111111111111111111111111111111111111111111111111111111111
         360       370       380       390       400       410       420  
SSIGENTKAGHLTYIGNCEVGSNVNFGAGTITVNYDGKNKYKTVIGDNVFVGSNSTIIAPVELGDNSLVG
.EE.TT.EEEEEEEEESEEE.TT.EE.TT.EEE.B.SS.B..EEE.TT.EE.TT.EEESS.EE.TT.EE.
1111111111111111111111111111111111111110000111111111111111111111111111
         430       440       450     458  
AGSTITKDVPADAIAIGRGRQINKDEYATRLPHHPKNQ
TT.EE.S.B.TT.EE..S......TTGGGGSTTSGGG.
11111111111111111111110000000000000000
Variance profile: