Bugs item #1204598, was opened at 2005-05-18 18:39
Message generated for change (Settings changed) made by migueljmol
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Category: Applet
Group: v10.00
>Status: Open
Resolution: None
Priority: 5
Submitted By: Nobody/Anonymous (nobody)
Assigned to: Miguel (migueljmol)
Summary: Jmol applet misses a beta strand
Initial Comment:
When visualizing azurin (1azu.pdb) using rockets I get
only 7 beta strands (arrows). There should be eight
arrows. The missing arrow is for the beta strand
running from atomno>=581 to atomno<=611. Maybe it's a
little too short? Is there some minimum length for
beta strands in the jmol applet?
This is the script I use:
select all;color gray;ribbons off;
delay 1;select atomno<=46
and atomno>=7;spacefill 0%;wireframe off;rockets
on;color rockets structure;
delay 1;select atomno<=152 and atomno>=125;rockets
on;color rockets structure;
delay 1;select atomno<=922 and atomno>=890;rockets
on;color rockets structure;
delay 1;select atomno<=807 and atomno>=767;rockets
on;color rockets structure;
delay 1;select atomno<=373 and atomno>=338;rockets
on;color rockets structure;
delay 1;select atomno<=611 and atomno>=581;rockets
on;color rockets structure;
delay 1;select atomno<=703 and atomno>=658;rockets
on;color rockets structure;
delay 1;select atomno<=248 and atomno>=181;rockets
on;color rockets structure
Thanx
Victor
[EMAIL PROTECTED]
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Comment By: SourceForge Robot (sf-robot)
Date: 2005-11-29 22:20
Message:
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This Tracker item was closed automatically by the system. It was
previously set to a Pending status, and the original submitter
did not respond within 180 days (the time period specified by
the administrator of this Tracker).
----------------------------------------------------------------------
Comment By: Miguel (migueljmol)
Date: 2005-06-02 22:11
Message:
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The structure definition records are below.
atoms 581 through 611 correspond to residues 81 through 85
There is no mention of residues 81 through 85
HELIX 1 1 MET A 56 GLY A 67 1
12
HELIX 2 2 GLY A 67 TYR A 72 1
6
SHEET 1 A 3 SER A 4 GLN A 8 0
SHEET 2 A 3 GLN A 28 SER A 34 1 O THR A 30 N
VAL A 5
SHEET 3 A 3 ASP A 93 ASP A 98 -1 O ASP A 93 N
LEU A 33
SHEET 1 B 4 ILE A 20 VAL A 22 0
SHEET 2 B 4 LYS A 122 LEU A 127 1 O THR A 124 N
ILE A 20
SHEET 3 B 4 TYR A 108 PHE A 111 -1 O TYR A 108 N
LEU A 125
SHEET 4 B 4 VAL A 49 THR A 52 -1 N VAL A 49 O
PHE A 111
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