Contacts of the helix formed by residues 82 - 111 (chain J) in PDB entry 3IS7
Residue contacts within the protein 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). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASN 82 (chain J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35J TRP* 4.0 8.7 - - + -
80J GLY 3.5 0.4 - - - -
81J GLU* 1.3 84.7 - - - +
83J THR* 1.3 54.4 + - - +
84J GLN* 3.4 9.5 + - - +
85J GLU* 3.0 40.8 + - - +
86J MET* 2.7 41.8 + - - +
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Residues in contact with THR 83 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J TRP* 2.8 35.3 + - + +
35J TRP* 4.3 4.2 - - - -
37J LEU* 4.0 4.2 - - - +
40J LEU* 4.2 9.2 - - + -
82J ASN* 1.3 74.0 - - - +
84J GLN* 1.3 65.1 + - - +
86J MET* 3.0 5.0 + - - +
87J LEU* 3.0 42.2 + - + +
141J ILE* 4.8 3.1 - - + -
146J LEU* 5.1 4.0 - - + -
149J TYR* 4.3 7.0 - - + -
150J LEU* 3.6 35.5 - - + +
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Residues in contact with GLN 84 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82J ASN* 3.4 7.8 + - - +
83J THR* 1.3 80.3 - - - +
85J GLU* 1.3 63.2 + - - +
87J LEU* 4.0 7.9 - - - +
88J GLN* 3.0 24.1 + - + +
138J LEU* 4.1 22.1 + - + +
141J ILE* 4.0 33.1 - - + +
142J GLN* 4.1 15.3 + - - +
146J LEU* 4.8 15.6 - - + +
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Residues in contact with GLU 85 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79J ILE 4.9 0.5 - - - +
80J GLY* 3.6 11.3 - - - -
81J GLU* 2.8 41.3 + - - +
82J ASN* 3.0 34.3 + - - +
84J GLN* 1.3 76.0 - - - +
86J MET* 1.3 56.0 + - - +
88J GLN* 3.1 5.8 + - - +
89J CYS* 2.7 40.0 + - - -
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Residues in contact with MET 86 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28J HIS* 3.5 57.2 - - + +
31J MET* 4.0 15.9 - - + -
32J TRP* 3.4 40.4 - - + +
35J TRP* 3.6 19.5 - - - -
80J GLY* 3.8 14.4 - - - +
82J ASN* 2.7 36.6 + - - +
83J THR 3.0 3.8 + - - +
85J GLU* 1.3 73.4 - - - +
87J LEU* 1.3 59.2 + - - +
89J CYS 3.4 0.5 + - - -
90J ASP* 3.0 33.9 + - - +
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Residues in contact with LEU 87 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J TRP* 4.1 20.4 - - + -
40J LEU* 4.7 6.3 - - + -
44J GLU* 5.9 0.7 - - - +
83J THR* 3.0 28.4 + - + +
84J GLN 4.0 2.9 - - - +
86J MET* 1.3 75.3 - - - +
88J GLN* 1.4 64.8 + - - +
90J ASP* 3.4 7.9 + - - +
91J LEU* 3.2 22.0 + - - +
133J TYR* 4.7 5.4 - - + -
134J LEU* 3.9 25.9 - - + +
137J GLN* 4.1 26.5 - - + -
138J LEU* 4.0 20.4 - - + +
141J ILE* 3.9 27.4 - - + -
149J TYR* 4.3 4.5 - - - +
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Residues in contact with GLN 88 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84J GLN* 3.0 20.8 + - + +
85J GLU* 3.1 5.8 + - - +
87J LEU* 1.4 77.5 - - - +
89J CYS* 1.3 56.6 + - - +
91J LEU* 3.2 27.1 + - - +
92J ASN* 2.9 58.9 + - - +
95J LEU* 5.6 1.4 - - - +
138J LEU* 4.4 14.7 - - + +
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Residues in contact with CYS 89 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24J GLN* 3.3 9.3 + - - +
28J HIS* 4.2 0.7 - - + -
78J LEU* 3.2 47.4 - - + +
79J ILE 4.2 1.8 - - - -
80J GLY* 3.9 14.8 - - - -
85J GLU* 2.7 25.1 + - - +
86J MET 3.5 6.3 - - - +
88J GLN* 1.3 74.2 - - - +
90J ASP* 1.3 57.6 + - - +
92J ASN* 3.4 10.0 + - - +
93J LEU* 3.0 22.3 + - - +
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Residues in contact with ASP 90 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24J GLN* 2.9 28.1 + - - +
25J TYR* 3.3 21.0 + - + -
28J HIS* 2.9 16.6 + - - -
32J TRP* 4.7 3.5 - - - -
44J GLU* 2.3 32.9 - - - +
86J MET 3.0 16.5 + - - +
87J LEU* 3.6 8.6 - - - +
88J GLN 3.3 0.2 - - - -
89J CYS* 1.3 76.9 - - - +
91J LEU* 1.3 58.7 + - - +
93J LEU* 3.2 3.6 + - - +
94J GLU* 2.9 32.1 + - - +
130J HIS* 4.7 1.3 - - + -
134J LEU* 3.9 23.7 - - + +
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Residues in contact with LEU 91 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87J LEU 3.2 11.8 + - - +
88J GLN* 3.2 26.0 + - - +
90J ASP* 1.3 72.4 - - - +
92J ASN* 1.3 65.6 + - - +
94J GLU* 3.0 2.5 + - - +
95J LEU* 2.9 46.7 + - + +
131J ILE* 4.1 33.4 - - + -
134J LEU* 3.7 17.9 - - + +
135J GLU* 4.1 24.7 - - + +
138J LEU* 4.0 21.8 - - + -
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Residues in contact with ASN 92 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78J LEU* 4.0 13.2 - - + +
88J GLN* 2.9 50.3 + - - +
89J CYS* 3.8 12.2 - - - +
90J ASP 3.3 0.2 - - - -
91J LEU* 1.3 76.3 - - - +
93J LEU* 1.3 64.3 + - - +
95J LEU* 3.4 11.8 + - - +
96J LYS* 3.3 21.0 + - - +
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Residues in contact with LEU 93 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17J ASN* 4.9 6.3 - - + +
20J ILE* 3.7 25.1 - - + -
21J ALA* 3.7 39.0 - - + +
24J GLN* 3.5 24.2 - - - +
25J TYR* 4.1 8.1 - - + +
76J LYS 4.9 2.0 - - - +
78J LEU* 3.9 15.0 - - + +
89J CYS 3.0 18.1 + - - +
90J ASP 3.5 4.7 - - - +
92J ASN* 1.3 80.3 - - - +
94J GLU* 1.3 57.5 + - - +
96J LYS* 3.3 12.1 + - + +
97J ALA* 2.9 27.5 + - + +
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Residues in contact with GLU 94 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21J ALA* 5.3 0.5 - - - +
25J TYR* 2.5 26.5 + - - +
51J GLU* 4.5 1.6 - - - +
90J ASP 2.9 20.7 + - - +
91J LEU* 3.0 4.7 + - - +
93J LEU* 1.3 77.8 - - - +
95J LEU* 1.3 57.2 + - - +
97J ALA* 3.6 6.4 - - - +
98J THR* 2.9 34.6 + - - -
127J GLU* 3.0 43.7 - - - +
130J HIS* 2.8 29.3 + - + +
131J ILE* 3.6 22.4 - - + -
134J LEU* 4.1 7.9 - - + -
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Residues in contact with LEU 95 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88J GLN* 5.6 1.3 - - - +
91J LEU* 2.9 42.3 + - + +
92J ASN* 3.7 12.8 - - - +
94J GLU* 1.3 75.9 - - - +
96J LYS* 1.3 63.0 + - - +
98J THR* 3.5 9.5 - - + +
99J LYS* 3.1 23.8 + - - +
131J ILE* 4.2 21.3 - - + -
135J GLU* 5.4 3.8 - - - +
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Residues in contact with LYS 96 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13J LYS* 4.1 11.0 - - - +
17J ASN* 3.7 14.8 + - - +
92J ASN 3.3 9.4 + - - +
93J LEU* 3.5 16.6 - - + +
94J GLU 3.3 0.2 - - - -
95J LEU* 1.3 77.9 - - - +
97J ALA* 1.3 67.4 + - - +
99J LYS* 3.3 19.5 + - - +
100J ASP* 2.6 52.4 + - - +
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Residues in contact with ALA 97 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14J ILE* 4.8 0.2 - - - +
17J ASN* 4.1 27.2 + - + +
18J GLU* 6.1 0.7 - - - +
93J LEU* 2.9 19.8 + - + +
94J GLU* 3.3 18.8 + - - +
96J LYS* 1.3 76.6 - - - +
98J THR* 1.3 57.8 + - - +
100J ASP* 3.2 5.0 + - - +
101J LEU* 3.0 40.8 + - + +
127J GLU* 4.9 6.5 - - + +
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Residues in contact with THR 98 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94J GLU 2.9 20.7 + - - -
95J LEU* 3.5 11.7 - - + +
97J ALA* 1.3 75.1 - - - +
99J LYS* 1.3 65.2 + - - +
101J LEU* 3.4 5.9 + - - +
102J ARG* 3.1 59.5 + - - +
124J LEU* 4.1 15.6 - - + +
127J GLU* 4.1 10.2 - - - +
128J GLU* 4.7 1.2 - - - +
131J ILE* 3.6 19.5 - - + +
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Residues in contact with LYS 99 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95J LEU 3.1 14.8 + - - +
96J LYS* 3.3 23.5 + - - +
98J THR* 1.3 76.6 - - - +
100J ASP* 1.3 72.8 + - - +
101J LEU 3.3 0.3 + - - -
102J ARG* 3.3 16.2 + - - +
103J GLU* 3.3 28.9 + - + +
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Residues in contact with ASP 100 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10J HIS* 4.7 2.8 + - - -
13J LYS* 3.2 30.8 + - + +
14J ILE* 3.6 11.8 - - + +
17J ASN* 2.8 26.5 + - - +
96J LYS* 2.6 47.1 + - - +
97J ALA 3.2 2.9 + - - +
99J LYS* 1.3 82.4 + - - +
101J LEU* 1.3 56.7 + - - +
103J GLU* 3.3 13.0 + - - +
104J ALA* 3.0 28.8 + - - +
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Residues in contact with LEU 101 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14J ILE* 3.6 34.0 - - + +
18J GLU* 5.2 1.3 - - - +
97J ALA* 3.0 31.6 + - + +
98J THR* 3.6 8.7 - - - +
99J LYS 3.2 0.2 - - - -
100J ASP* 1.3 75.1 - - - +
102J ARG* 1.3 67.3 + - - +
104J ALA* 3.1 2.5 + - - +
105J ILE* 3.0 30.6 + - + +
120J LEU* 3.6 38.8 - - + +
123J ILE* 4.0 20.6 - - + -
124J LEU* 4.3 17.0 - - + -
127J GLU* 4.1 15.3 - - + -
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Residues in contact with ARG 102 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111F VAL 5.5 0.4 - - - -
112F HIS* 2.9 50.0 + - + +
113F ASP* 4.1 9.9 + - - +
114F TYR* 3.9 16.5 - - + +
98J THR* 3.1 38.6 + - - +
99J LYS* 3.7 10.1 - - - +
101J LEU* 1.3 78.1 - - - +
103J GLU* 1.3 58.3 + - + +
105J ILE* 3.3 2.8 + - - +
106J VAL* 3.0 31.9 + - - +
124J LEU* 3.8 17.6 - - + +
128J GLU* 2.8 31.1 + - - +
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Residues in contact with GLU 103 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F HIS* 6.2 0.4 - - + -
10J HIS* 4.0 17.4 - - + -
13J LYS* 5.0 6.2 + - - -
99J LYS* 3.3 29.5 + - + +
100J ASP* 3.7 16.5 - - - +
101J LEU 3.3 0.4 - - - -
102J ARG* 1.3 76.5 - - + +
104J ALA* 1.3 63.1 + - - +
106J VAL* 3.4 9.0 + - - +
107J HIS* 3.1 22.9 + - - +
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Residues in contact with ALA 104 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10J HIS* 3.6 35.4 + - + +
14J ILE* 4.3 11.2 - - + -
100J ASP 3.0 16.8 + - - +
101J LEU 3.1 4.4 + - - +
103J GLU* 1.3 76.4 - - - +
105J ILE* 1.3 58.0 + - - +
107J HIS* 3.3 3.1 + - - +
108J CYS* 2.9 32.7 + - - -
120J LEU* 3.6 22.7 - - + -
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Residues in contact with ILE 105 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114F TYR* 3.4 44.6 - - + -
101J LEU 3.0 21.8 + - - +
102J ARG 3.6 4.3 - - - +
104J ALA* 1.3 74.3 - - - +
106J VAL* 1.3 66.1 + - - +
108J CYS* 3.4 6.8 + - - +
109J GLU* 3.0 22.3 + - - +
117J ARG* 3.8 30.2 + - + +
120J LEU* 3.7 22.9 - - + +
121J LYS* 4.1 22.2 - - + +
124J LEU* 4.1 16.8 - - + -
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Residues in contact with VAL 106 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F HIS* 3.6 30.1 - - + +
114F TYR* 3.2 21.3 - - - +
102J ARG 3.0 18.5 + - - +
103J GLU* 3.4 9.4 + - - +
105J ILE* 1.3 77.2 - - - +
107J HIS* 1.3 65.4 + - - +
109J GLU* 3.6 6.2 - - - +
110J GLN* 3.0 28.8 + - + +
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Residues in contact with HIS 107 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4J ASP* 3.0 22.7 + - - -
6J LYS* 3.1 24.8 - - + +
7J VAL* 3.7 26.7 - - + -
10J HIS* 3.9 19.5 + + + +
103J GLU 3.1 11.4 + - - +
104J ALA 3.7 6.5 - - - +
106J VAL* 1.3 83.7 - - - +
108J CYS* 1.3 61.9 + - - +
110J GLN* 3.1 24.7 + - - +
111J VAL* 3.1 39.3 + - + +
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Residues in contact with CYS 108 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7J VAL* 4.3 17.9 - - - -
10J HIS* 6.1 1.3 - - - -
11J LEU* 5.6 0.4 - - - -
104J ALA* 2.9 26.0 + - - +
105J ILE 3.7 4.7 - - - +
107J HIS* 1.3 72.7 - - - +
109J GLU* 1.3 57.7 + - - +
111J VAL* 3.4 4.7 + - - -
112J HIS 2.9 10.4 + - - -
113J ASP* 2.8 46.0 + - + +
116J SER* 3.8 24.5 - - - -
117J ARG* 4.0 10.3 - - + -
120J LEU* 3.9 17.3 - - - -
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Residues in contact with GLU 109 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109F GLU* 4.2 7.2 - - - +
109G GLU* 4.2 7.6 - - - +
117G ARG* 2.6 34.6 + - - -
105J ILE 3.0 17.4 + - - +
106J VAL* 3.6 7.2 - - - +
108J CYS* 1.3 76.4 - - - +
110J GLN* 1.3 64.3 + - - +
112J HIS* 3.1 21.8 + - - -
114J TYR* 3.7 16.7 + - - -
117J ARG* 2.9 42.8 + - - +
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Residues in contact with GLN 110 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106J VAL* 3.0 20.9 + - + +
107J HIS* 3.1 32.3 + - - +
109J GLU* 1.3 79.4 - - - +
111J VAL* 1.3 64.1 + - + +
112J HIS* 3.5 13.0 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102G ARG* 5.6 0.5 - - - -
4J ASP* 4.0 21.5 - - + +
7J VAL* 3.7 29.8 - - + -
107J HIS* 3.1 36.4 + - + +
108J CYS 4.0 3.8 - - - +
110J GLN* 1.3 85.9 - - + +
112J HIS* 1.3 70.8 + - - +
113J ASP* 3.4 5.9 + - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il