Contacts of the helix formed by residues 82 - 111 (chain W) 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 W).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35W TRP* 4.1 7.4 - - - -
80W GLY 3.7 0.2 - - - -
81W GLU* 1.3 80.3 - - - +
83W THR* 1.3 66.5 + - - +
84W GLN* 3.3 10.7 + - - +
85W GLU* 3.1 41.8 + - - +
86W MET* 2.9 28.0 + - - +
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Residues in contact with THR 83 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32W TRP* 2.9 35.0 + - + +
35W TRP* 4.4 3.8 - - - -
37W LEU* 3.8 5.7 - - - +
40W LEU* 3.9 13.0 - - + -
82W ASN* 1.3 74.2 - - - +
84W GLN* 1.3 65.3 + - - +
86W MET* 3.1 3.8 + - - +
87W LEU* 2.9 41.9 + - + +
141W ILE* 5.0 2.2 - - + -
146W LEU* 5.4 3.4 - - + -
149W TYR* 4.3 5.8 - - + -
150W LEU* 3.7 32.4 - - + +
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Residues in contact with GLN 84 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82W ASN* 3.3 8.7 + - - +
83W THR* 1.3 79.6 - - - +
85W GLU* 1.3 58.6 + - + +
87W LEU* 3.5 2.4 + - - +
88W GLN* 3.1 26.8 + - + +
138W LEU* 4.0 26.7 + - + +
141W ILE* 3.8 29.6 - - + +
142W GLN* 3.5 25.4 + - - +
146W LEU* 4.7 16.7 - - + +
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Residues in contact with GLU 85 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80W GLY* 4.1 4.8 - - - -
81W GLU* 3.2 37.3 + - - +
82W ASN* 3.1 36.6 + - - +
84W GLN* 1.3 76.3 - - + +
86W MET* 1.3 61.4 + - - +
88W GLN* 3.7 5.5 - - - +
89W CYS* 2.8 36.0 + - - -
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Residues in contact with MET 86 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28W HIS* 3.5 60.3 - - + +
31W MET* 4.0 17.9 - - + -
32W TRP* 3.4 39.3 - - + +
35W TRP* 3.5 25.4 - - + -
80W GLY* 3.8 13.7 - - - -
82W ASN* 2.9 26.1 + - - +
83W THR 3.1 0.2 + - - -
85W GLU* 1.3 74.7 - - - +
87W LEU* 1.3 66.6 + - - +
89W CYS* 3.2 1.9 + - - +
90W ASP* 3.0 27.8 + - - +
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Residues in contact with LEU 87 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32W TRP* 4.0 20.4 - - + -
40W LEU* 4.7 5.2 - - + -
44W GLU* 5.8 0.4 - - - +
83W THR* 2.9 34.8 + - + +
84W GLN 3.9 0.2 - - - +
86W MET* 1.3 78.4 - - - +
88W GLN* 1.3 56.5 + - - +
90W ASP* 3.3 7.5 + - - +
91W LEU* 2.8 27.3 + - - +
133W TYR* 4.6 6.1 - - + -
134W LEU* 3.7 27.5 - - + +
137W GLN* 4.1 24.0 - - + -
138W LEU* 3.8 21.1 - - + -
141W ILE* 4.0 21.8 - - + -
149W TYR* 4.3 4.7 - - - +
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Residues in contact with GLN 88 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84W GLN 3.1 17.8 + - - +
85W GLU* 3.8 6.3 - - - +
87W LEU* 1.3 78.1 - - - +
89W CYS* 1.3 52.0 + - - +
91W LEU* 3.0 22.1 + - - +
92W ASN* 2.7 63.8 + - - +
95W LEU* 5.6 1.4 - - - +
138W LEU* 4.0 19.9 - - + +
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Residues in contact with CYS 89 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24W GLN* 3.2 9.7 + - - +
28W HIS* 4.2 2.2 - - + -
78W LEU* 3.3 42.9 - - + +
79W ILE 4.0 3.1 - - - -
80W GLY* 3.9 15.7 - - - -
85W GLU* 2.8 30.0 + - - +
86W MET 3.6 4.7 - - - +
88W GLN* 1.3 70.5 - - - +
90W ASP* 1.3 61.2 + - - +
92W ASN* 3.7 11.2 - - - +
93W LEU* 2.9 25.1 + - - +
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Residues in contact with ASP 90 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24W GLN* 3.0 15.4 + - - +
25W TYR* 3.3 20.1 - - + -
28W HIS* 3.0 21.9 + - - -
32W TRP* 4.7 5.2 - - - -
44W GLU* 2.5 32.6 - - - +
86W MET 3.0 14.3 + - - +
87W LEU* 3.4 8.2 - - - +
89W CYS* 1.3 72.4 - - - +
91W LEU* 1.3 66.2 + - - +
93W LEU* 3.4 1.6 + - - +
94W GLU* 2.9 27.7 + - - +
130W HIS* 4.5 1.3 - - + -
134W LEU* 3.9 23.8 - - + +
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Residues in contact with LEU 91 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87W LEU 2.8 18.1 + - - +
88W GLN* 3.0 25.3 + - - +
90W ASP* 1.3 72.9 - - - +
92W ASN* 1.3 64.3 + - - +
94W GLU* 3.0 2.8 + - - -
95W LEU* 2.9 45.1 + - + +
131W ILE* 4.0 36.1 - - + -
134W LEU* 4.0 15.6 - - + +
135W GLU* 4.2 21.8 - - + +
138W LEU* 4.1 20.2 - - + -
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Residues in contact with ASN 92 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78W LEU* 4.1 14.7 - - + +
88W GLN* 2.7 54.3 + - - +
89W CYS* 3.7 9.6 - - - +
91W LEU* 1.3 73.9 - - - +
93W LEU* 1.3 64.6 + - - +
95W LEU* 3.2 19.1 + - - +
96W LYS* 3.3 14.0 + - - +
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Residues in contact with LEU 93 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17W ASN* 5.0 6.7 - - + +
20W ILE* 3.9 24.2 - - + -
21W ALA* 3.6 39.9 - - + +
24W GLN* 3.7 24.7 - - - +
25W TYR* 3.9 10.8 - - + +
76W LYS 5.1 1.3 - - - +
78W LEU* 4.1 13.4 - - + +
89W CYS 2.9 16.9 + - - +
90W ASP 3.6 4.3 - - - +
92W ASN* 1.3 77.7 - - - +
94W GLU* 1.3 56.8 + - - +
95W LEU 3.4 0.2 + - - -
96W LYS* 3.4 12.8 + - + +
97W ALA* 3.0 28.8 + - + +
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Residues in contact with GLU 94 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25W TYR* 2.6 27.8 + - - +
51W GLU* 3.3 6.4 - - - +
90W ASP 2.9 17.3 + - - +
91W LEU* 3.0 4.0 + - - +
93W LEU* 1.3 76.4 - - - +
95W LEU* 1.3 56.9 + - - +
97W ALA* 3.5 6.9 - - - +
98W THR* 3.0 32.4 + - - -
127W GLU* 2.6 44.6 - - - +
130W HIS* 2.7 31.4 + - + +
131W ILE* 3.6 24.0 - - + +
134W LEU* 4.3 5.6 - - + -
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Residues in contact with LEU 95 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88W GLN* 5.6 1.1 - - - +
91W LEU* 2.9 41.1 + - + +
92W ASN* 3.2 13.0 + - - +
94W GLU* 1.3 76.7 - - - +
96W LYS* 1.3 62.1 + - - +
98W THR* 3.4 11.6 - - + +
99W LYS* 3.2 22.2 + - - +
131W ILE* 4.3 20.9 - - + -
135W GLU* 5.7 2.9 - - - +
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Residues in contact with LYS 96 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13W LYS* 4.7 8.5 - - - +
17W ASN* 4.5 12.8 + - - +
92W ASN 3.3 10.0 + - - +
93W LEU* 3.7 16.2 - - + +
95W LEU* 1.3 77.6 - - - +
97W ALA* 1.3 67.2 + - - +
99W LYS* 3.3 13.2 + - + +
100W ASP* 2.8 56.7 + - - +
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Residues in contact with ALA 97 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14W ILE* 4.7 0.7 - - - +
17W ASN* 4.1 24.9 + - + +
18W GLU* 5.8 2.0 - - - +
93W LEU* 3.0 20.4 + - + +
94W GLU* 3.3 18.8 + - - +
96W LYS* 1.3 75.8 - - - +
98W THR* 1.3 57.7 + - - +
100W ASP* 3.3 4.5 + - - +
101W LEU* 3.0 39.3 + - + +
127W GLU* 5.1 6.1 - - + -
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Residues in contact with THR 98 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94W GLU 3.0 14.9 + - - +
95W LEU* 3.4 20.0 - - + +
97W ALA* 1.3 74.6 - - - +
99W LYS* 1.3 66.1 + - - +
101W LEU* 3.3 9.3 + - - +
102W ARG* 3.0 51.0 + - - +
124W LEU* 3.2 19.9 - - - +
127W GLU* 4.3 8.3 - - - +
128W GLU* 4.4 2.4 - - - +
131W ILE* 4.0 17.2 - - + +
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Residues in contact with LYS 99 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95W LEU 3.2 9.3 + - - +
96W LYS* 3.5 16.2 - - + +
98W THR* 1.3 85.0 - - + +
100W ASP* 1.3 69.1 + - - +
102W ARG* 3.3 9.0 + - - +
103W GLU* 3.2 41.9 + - + +
----------------------------------------------------------
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Residues in contact with ASP 100 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10W HIS* 4.7 2.8 + - - -
13W LYS* 3.9 25.5 + - + +
14W ILE* 3.5 15.8 - - + +
17W ASN* 2.8 33.0 + - - +
96W LYS* 2.8 41.5 + - - +
97W ALA 3.7 3.1 - - - +
99W LYS* 1.3 82.7 - - - +
101W LEU* 1.3 59.7 + - - +
103W GLU* 3.5 16.0 + - - +
104W ALA* 3.0 24.3 + - - +
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Residues in contact with LEU 101 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14W ILE* 3.5 36.3 - - + +
18W GLU* 5.3 1.3 - - - +
97W ALA* 3.0 27.5 + - + +
98W THR* 3.4 11.2 - - - +
100W ASP* 1.3 73.8 - - - +
102W ARG* 1.3 61.1 + - - +
104W ALA* 3.2 2.8 + - - +
105W ILE* 2.8 37.2 + - + +
120W LEU* 3.9 28.5 - - + +
123W ILE* 4.3 9.4 - - + -
124W LEU* 4.1 25.8 - - + -
127W GLU* 3.9 26.2 - - + -
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Residues in contact with ARG 102 (chain W).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111H VAL 5.4 0.4 - - - -
112H HIS* 2.8 44.9 + - + +
113H ASP* 4.2 8.3 + - - +
114H TYR* 4.0 16.0 - - + +
98W THR* 3.0 41.5 + - - +
99W LYS* 3.7 8.9 - - - +
101W LEU* 1.3 77.6 - - - +
103W GLU* 1.3 62.7 + - + +
105W ILE* 3.2 3.7 + - - +
106W VAL* 3.0 27.0 + - - +
124W LEU* 3.7 19.8 - - + +
128W GLU* 2.9 31.9 + - - +
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Residues in contact with GLU 103 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10W HIS* 4.1 16.2 + - + -
13W LYS* 4.8 8.3 + - - -
99W LYS* 3.2 36.1 + - + +
100W ASP* 3.9 16.4 - - - +
101W LEU 3.2 0.2 - - - -
102W ARG* 1.3 77.2 - - + +
104W ALA* 1.3 62.6 + - - +
106W VAL* 3.4 9.9 + - - +
107W HIS* 3.1 21.5 + - - +
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Residues in contact with ALA 104 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10W HIS* 3.6 36.4 + - + +
14W ILE* 4.4 11.0 - - + -
100W ASP 3.0 18.6 + - - +
101W LEU 3.2 2.7 + - - +
103W GLU* 1.3 78.6 - - - +
105W ILE* 1.3 63.1 + - - +
107W HIS* 3.4 2.3 + - - +
108W CYS* 3.0 26.9 + - - -
120W LEU* 3.8 19.1 - - + -
----------------------------------------------------------
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Residues in contact with ILE 105 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114H TYR* 3.7 43.1 - - + -
101W LEU 2.8 21.9 + - - +
102W ARG 3.6 3.8 - - - +
104W ALA* 1.3 77.2 - - - +
106W VAL* 1.3 64.4 + - - +
108W CYS* 3.2 5.9 + - - +
109W GLU* 3.0 21.8 + - - +
117W ARG* 3.6 33.0 - - + +
120W LEU* 3.7 24.9 - - + +
121W LYS* 4.1 18.6 - - + +
124W LEU* 4.0 18.8 - - + -
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Residues in contact with VAL 106 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112H HIS* 3.5 28.3 - - + +
114H TYR* 3.1 22.2 - - - +
102W ARG 3.0 16.0 + - - +
103W GLU* 3.5 11.4 - - - +
105W ILE* 1.3 78.0 - - - +
107W HIS* 1.3 66.8 + - + +
109W GLU* 3.3 6.8 + - - +
110W GLN* 3.0 25.2 + - + +
117W ARG* 5.9 0.2 - - - +
----------------------------------------------------------
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Residues in contact with HIS 107 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4W ASP* 3.1 20.6 + - - -
6W LYS* 3.3 37.2 - - + +
7W VAL* 3.9 22.9 - - + -
10W HIS* 3.8 28.1 + + + +
103W GLU 3.1 5.4 + - - +
104W ALA 3.8 3.1 - - - +
105W ILE 3.2 0.2 - - - -
106W VAL* 1.3 84.2 - - + +
108W CYS* 1.3 63.3 + - - +
110W GLN* 3.2 24.6 + - - +
111W VAL* 3.0 37.3 + - + +
----------------------------------------------------------
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Residues in contact with CYS 108 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7W VAL* 4.2 19.3 - - - -
10W HIS* 6.1 1.8 - - - -
11W LEU* 5.5 0.2 - - - -
104W ALA* 3.0 19.3 + - - +
105W ILE 3.2 7.4 + - - +
107W HIS* 1.3 76.5 - - - +
109W GLU* 1.3 64.0 + - - +
111W VAL* 3.3 7.4 + - - -
112W HIS* 3.0 4.2 + - - -
113W ASP* 2.9 41.6 + - - +
116W SER* 3.8 26.0 - - - -
117W ARG* 3.9 12.1 - - + -
120W LEU* 3.9 15.5 - - - -
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Residues in contact with GLU 109 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A GLU* 4.2 7.8 - - - +
117A ARG* 2.6 33.4 + - - -
109H GLU* 4.0 6.3 - - - +
105W ILE 3.0 12.2 + - - +
106W VAL* 3.4 11.4 - - - +
108W CYS* 1.3 75.2 - - - +
110W GLN* 1.3 67.0 + - - +
112W HIS* 2.8 23.0 + - - -
114W TYR* 3.7 17.6 + - - -
117W ARG* 2.8 46.7 + - - +
----------------------------------------------------------
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Residues in contact with GLN 110 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106W VAL* 3.0 13.8 + - + +
107W HIS* 3.6 33.7 + - - +
109W GLU* 1.3 82.8 - - - +
111W VAL* 1.3 64.9 + - + +
112W HIS* 3.4 16.3 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain W).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ARG* 5.6 0.5 - - - -
4W ASP* 4.2 20.0 - - + +
7W VAL* 3.8 25.8 - - + -
107W HIS* 3.0 38.4 + - + +
108W CYS 3.7 5.8 - - - +
110W GLN* 1.3 88.3 - - + +
112W HIS* 1.3 71.9 + - - +
113W ASP* 3.3 7.0 + - + +
----------------------------------------------------------
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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