SILENT_MODE
BLOCK_FILE jp_P2NNjMS.concise.blc
MAX_NSEQ 50
MAX_INPUT_LEN 50
OUTPUT_FILE jp_P2NNjMS.concise.ps
PORTRAIT
POINTSIZE 8
IDENT_WIDTH 12
X_OFFSET 2
Y_OFFSET 2
DEFINE_FONT 0 Helvetica		DEFAULT 
DEFINE_FONT 1 Helvetica		REL		0.75   
DEFINE_FONT 7 Helvetica		REL		0.6
DEFINE_FONT 3 Helvetica-Bold	DEFAULT    
DEFINE_FONT 4 Times-Bold    	DEFAULT   
DEFINE_FONT 5 Helvetica-BoldOblique	DEFAULT 
#
DEFINE_COLOUR 3  1 0.62 0.67	# Turquiose
DEFINE_COLOUR 4  1 1 0		# Yellow
DEFINE_COLOUR 5  1 0 0		# Red
DEFINE_COLOUR 7  1 0 1		# Purple
DEFINE_COLOUR 8  0 0 1		# Blue
DEFINE_COLOUR 9  0 1 0		# Green
DEFINE_COLOUR 10 0.41 0.64 1.00	# Pale blue 
DEFINE_COLOUR 11 0.41 0.82 0.67	# Pale green 
DEFINE_COLOUR 50 0.69 0.18 0.37	# Pink (helix)
DEFINE_COLOUR 51 1.00 0.89 0.00	# Gold (strand)
NUMBER_INT 10
SETUP
#
# Highlight specific residues.
# Avoid highlighting Lupas 'C' predictions by
# limiting the highlighting to the alignments 
Scol_CHARS	C 1 1 122 27   4
Ccol_CHARS	H ALL    5
Ccol_CHARS	P ALL    8
SURROUND_CHARS LIV   ALL
#
# Replace known structure types with whitespace
SUB_CHARS 1 28 122 37 H SPACE
SUB_CHARS 1 28 122 37 E SPACE
SUB_CHARS 1 28 122 37 - SPACE
STRAND 3 31 5
COLOUR_TEXT_REGION 3 31 5 31 51
STRAND 13 31 23
COLOUR_TEXT_REGION 13 31 23 31 51
STRAND 32 31 40
COLOUR_TEXT_REGION 32 31 40 31 51
STRAND 44 31 50
COLOUR_TEXT_REGION 44 31 50 31 51
STRAND 83 31 87
COLOUR_TEXT_REGION 83 31 87 31 51
STRAND 101 31 106
COLOUR_TEXT_REGION 101 31 106 31 51
STRAND 113 31 116
COLOUR_TEXT_REGION 113 31 116 31 51
STRAND 118 31 119
COLOUR_TEXT_REGION 118 31 119 31 51
HELIX 51 31 56
COLOUR_TEXT_REGION 51 31 56 31 50
HELIX 65 31 79
COLOUR_TEXT_REGION 65 31 79 31 50
STRAND 3 36 5
COLOUR_TEXT_REGION 3 36 5 36 51
STRAND 12 36 23
COLOUR_TEXT_REGION 12 36 23 36 51
STRAND 32 36 41
COLOUR_TEXT_REGION 32 36 41 36 51
STRAND 44 36 50
COLOUR_TEXT_REGION 44 36 50 36 51
STRAND 83 36 87
COLOUR_TEXT_REGION 83 36 87 36 51
STRAND 101 36 106
COLOUR_TEXT_REGION 101 36 106 36 51
HELIX 51 36 57
COLOUR_TEXT_REGION 51 36 57 36 50
HELIX 65 36 79
COLOUR_TEXT_REGION 65 36 79 36 50
STRAND 2 37 6
COLOUR_TEXT_REGION 2 37 6 37 51
STRAND 22 37 23
COLOUR_TEXT_REGION 22 37 23 37 51
STRAND 31 37 39
COLOUR_TEXT_REGION 31 37 39 37 51
STRAND 44 37 50
COLOUR_TEXT_REGION 44 37 50 37 51
STRAND 84 37 86
COLOUR_TEXT_REGION 84 37 86 37 51
STRAND 101 37 107
COLOUR_TEXT_REGION 101 37 107 37 51
STRAND 113 37 119
COLOUR_TEXT_REGION 113 37 119 37 51
HELIX 13 37 21
COLOUR_TEXT_REGION 13 37 21 37 50
HELIX 51 37 55
COLOUR_TEXT_REGION 51 37 55 37 50
HELIX 65 37 79
COLOUR_TEXT_REGION 65 37 79 37 50