Analysis of interatomic Contacts of Structural Units in PDB entry:
9GMD


Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 9GMD entry

There are 6 chains in PDB entry 9GMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
C
 GLN 191ARG 327
D
 ARG 42TYR 101
E
 VAL 9ILE 213
F
 GLU 7GLU 209
I
 ASP 4ASN 49
J
 ARG 3ASN 49
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are 32 helices in PDB entry 9GMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
C
191 196Right-handed alpha
Helix 2
AA2
C
264 289Right-handed alpha
Helix 3
AA3
C
295 307Right-handed alpha
Helix 4
AA4
C
308 311Right-handed 310
Helix 5
AA5
D
48 55Right-handed alpha
Helix 6
AA6
D
70 79Right-handed alpha
Helix 7
AA7
D
95 99Right-handed 310
Helix 8
AA8
E
11 19Right-handed alpha
Helix 9
AA9
E
22 31Right-handed alpha
Helix 10
AB1
E
40 50Right-handed alpha
Helix 11
AB2
E
50 59Right-handed alpha
Helix 12
AB3
E
89 105Right-handed alpha
Helix 13
AB4
E
106 112Right-handed 310
Helix 14
AB5
E
117 125Right-handed alpha
Helix 15
AB6
E
129 138Right-handed alpha
Helix 16
AB7
E
144 165Right-handed alpha
Helix 17
AB8
E
182 187Right-handed 310
Helix 18
AB9
E
188 193Right-handed alpha
Helix 19
AC1
E
196 208Right-handed alpha
Helix 20
AC2
F
11 19Right-handed alpha
Helix 21
AC3
F
22 32Right-handed alpha
Helix 22
AC4
F
40 50Right-handed alpha
Helix 23
AC5
F
50 59Right-handed alpha
Helix 24
AC6
F
89 104Right-handed alpha
Helix 25
AC7
F
106 112Right-handed alpha
Helix 26
AC8
F
116 128Right-handed alpha
Helix 27
AC9
F
129 138Right-handed alpha
Helix 28
AD1
F
144 166Right-handed alpha
Helix 29
AD2
F
182 192Right-handed 310
Helix 30
AD3
F
196 208Right-handed alpha
Helix 31
AD4
I
10 49Right-handed alpha
Helix 32
AD5
J
10 49Right-handed alpha
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There are 8 sheets in PDB entry 9GMD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
313 315first strand
Strand 2
E
210 212anti-parallel
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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
317 318first strand
Strand 2
E
85 86anti-parallel
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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
323 325first strand
Strand 2
F
85 87parallel
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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
63 66first strand
Strand 2
E
74 77anti-parallel
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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
114 116first strand
Strand 2
E
177 180anti-parallel
Strand 3
E
168 170anti-parallel
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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
63 67first strand
Strand 2
F
73 77anti-parallel
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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
114 115first strand
Strand 2
F
178 180anti-parallel
Strand 3
F
168 170anti-parallel
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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
5 9first strand
Strand 2
J
5 9anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il