Contacts of the helix formed by residues 82 - 111 (chain U) 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 U).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35U TRP* 4.1 8.3 - - + -
81U GLU* 1.3 81.5 - - - +
83U THR* 1.3 59.7 + - - +
84U GLN* 2.9 42.5 - - - +
85U GLU* 3.0 24.9 + - - +
86U MET* 2.8 35.7 + - - +
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Residues in contact with THR 83 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143S LYS* 6.1 0.2 - - - -
32U TRP* 3.0 21.5 + - + +
35U TRP* 4.4 4.2 - - - -
37U LEU* 3.6 8.5 - - - +
40U LEU* 3.8 19.1 - - + -
82U ASN* 1.3 75.3 - - - +
84U GLN* 1.3 72.0 + - - +
86U MET* 3.1 11.2 + - - +
87U LEU* 2.9 37.2 + - + +
141U ILE* 4.9 2.2 - - + -
146U LEU* 5.4 0.4 - - + -
149U TYR* 4.3 5.8 - - + -
150U LEU* 3.3 34.3 - - + +
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Residues in contact with GLN 84 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82U ASN* 2.9 32.5 + - - +
83U THR* 1.3 86.7 + - - +
85U GLU* 1.3 62.9 + - + +
87U LEU* 3.4 6.5 + - - +
88U GLN* 3.0 23.7 + - - +
138U LEU* 4.1 7.4 - - + +
141U ILE* 4.6 18.1 - - + +
146U LEU* 3.5 36.3 - - + +
150U LEU* 5.4 1.2 - - - +
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Residues in contact with GLU 85 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80U GLY* 4.0 9.2 - - - -
81U GLU* 3.1 36.4 + - - +
82U ASN* 3.0 28.1 + - - +
84U GLN* 1.3 79.0 - - + +
86U MET* 1.3 54.8 + - - +
88U GLN* 3.3 5.6 + - - +
89U CYS* 2.7 41.3 + - - -
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Residues in contact with MET 86 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28U HIS* 3.5 59.3 - - + +
31U MET* 3.9 17.9 - - + -
32U TRP* 3.5 37.0 - - + +
35U TRP* 3.6 18.2 - - + -
80U GLY* 3.8 15.0 - - - -
82U ASN* 2.8 30.6 + - - +
83U THR 3.1 3.8 + - - +
85U GLU* 1.3 75.4 - - - +
87U LEU* 1.3 63.6 + - - +
89U CYS 3.3 0.7 + - - -
90U ASP* 3.1 30.3 + - - +
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Residues in contact with LEU 87 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32U TRP* 4.1 19.7 - - + -
40U LEU* 4.9 2.0 - - + -
44U GLU* 6.0 0.4 - - - +
83U THR* 2.9 27.4 + - + +
84U GLN 3.7 0.2 - - - +
86U MET* 1.3 77.3 - - - +
88U GLN* 1.3 57.6 + - - +
90U ASP* 3.3 6.2 + - - +
91U LEU* 3.0 27.6 + - - +
133U TYR* 4.5 7.4 - - + +
134U LEU* 3.8 28.8 - - + +
137U GLN* 3.9 26.5 - - + -
138U LEU* 3.6 22.4 - - + -
141U ILE* 3.9 27.8 - - + -
149U TYR* 4.2 6.5 - - - +
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Residues in contact with GLN 88 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84U GLN 3.0 17.4 + - - +
85U GLU* 3.8 6.3 - - - +
87U LEU* 1.3 76.9 - - - +
89U CYS* 1.3 56.7 + - - +
91U LEU* 3.3 22.7 + - - +
92U ASN* 2.9 59.1 + - - +
95U LEU* 5.9 0.6 - - - +
138U LEU* 3.8 21.0 - - + +
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Residues in contact with CYS 89 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24U GLN* 3.4 8.3 + - - +
28U HIS* 4.2 1.6 - - + -
78U LEU* 3.1 45.5 - - + +
79U ILE 4.2 1.8 - - - -
80U GLY* 4.0 14.8 - - - -
85U GLU* 2.7 32.5 + - - +
86U MET 3.6 5.2 - - - +
88U GLN* 1.3 70.2 - - - +
90U ASP* 1.3 60.4 + - - +
92U ASN* 3.3 11.6 + - - +
93U LEU* 2.9 24.9 + - - +
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Residues in contact with ASP 90 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24U GLN* 2.9 17.1 + - - +
25U TYR* 3.3 22.0 + - + -
28U HIS* 2.9 22.1 + - - -
32U TRP* 4.8 3.3 - - - -
44U GLU* 2.5 31.9 - - - +
86U MET 3.1 15.0 + - - +
87U LEU* 3.6 8.2 - - - +
89U CYS* 1.3 77.5 - - - +
91U LEU* 1.3 57.7 + - - +
93U LEU* 3.4 2.8 + - - +
94U GLU* 3.0 32.6 + - - +
130U HIS* 4.6 1.0 - - + -
134U LEU* 3.8 22.1 - - + +
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Residues in contact with LEU 91 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87U LEU 3.0 15.1 + - - +
88U GLN* 3.4 28.5 - - - +
89U CYS 3.2 0.2 - - - -
90U ASP* 1.3 73.4 - - - +
92U ASN* 1.3 64.4 + - - +
94U GLU* 3.4 1.6 + - - +
95U LEU* 3.0 44.9 + - + +
131U ILE* 4.3 20.6 - - + -
134U LEU* 3.6 18.1 - - + +
135U GLU* 4.2 31.0 - - + +
138U LEU* 4.0 20.4 - - + -
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Residues in contact with ASN 92 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78U LEU* 4.4 12.2 - - + +
88U GLN* 2.9 53.8 + - - +
89U CYS* 3.7 9.2 - - - +
91U LEU* 1.3 72.7 - - - +
93U LEU* 1.3 63.6 + - - +
95U LEU* 3.4 11.6 + - - +
96U LYS* 3.2 21.5 + - - +
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Residues in contact with LEU 93 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17U ASN* 4.9 3.6 - - + +
20U ILE* 3.9 20.6 - - + -
21U ALA* 3.7 39.7 - - + +
24U GLN* 3.6 25.1 - - - +
25U TYR* 4.1 7.6 - - + +
76U LYS 4.7 2.0 - - - +
78U LEU* 3.8 22.7 - - + +
89U CYS 2.9 16.5 + - - +
90U ASP 3.5 4.9 - - - +
91U LEU 3.3 0.2 - - - -
92U ASN* 1.3 75.5 - - - +
94U GLU* 1.3 57.3 + - - +
96U LYS* 3.4 11.3 + - + +
97U ALA* 2.9 28.1 + - + +
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Residues in contact with GLU 94 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21U ALA* 5.2 0.5 - - - +
25U TYR* 2.8 26.0 + - - +
51U GLU* 3.4 7.2 - - - +
90U ASP 3.0 15.2 + - - +
91U LEU* 3.4 3.8 + - - +
93U LEU* 1.3 75.7 - - - +
95U LEU* 1.3 66.4 + - - +
97U ALA* 3.8 7.0 - - - +
98U THR* 3.0 27.7 + - - -
127U GLU* 2.6 50.3 - - - +
130U HIS* 3.1 27.5 + - + +
131U ILE* 3.8 19.5 - - + +
134U LEU* 4.3 4.9 - - + -
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Residues in contact with LEU 95 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88U GLN* 5.9 0.7 - - - +
91U LEU* 3.0 36.8 + - + +
92U ASN* 3.7 11.7 - - - +
94U GLU* 1.3 74.6 - - - +
96U LYS* 1.3 63.1 + - - +
98U THR* 3.4 10.2 - - + +
99U LYS* 3.2 22.0 + - - +
131U ILE* 4.0 23.6 - - + -
135U GLU* 5.9 1.6 - - - +
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Residues in contact with LYS 96 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13U LYS* 4.1 11.5 - - - +
17U ASN* 4.5 10.8 + - - +
92U ASN 3.2 9.6 + - - +
93U LEU* 3.4 15.3 - - + +
94U GLU 3.2 0.2 - - - -
95U LEU* 1.3 80.2 - - - +
97U ALA* 1.3 63.5 + - - +
98U THR 3.2 0.3 + - - -
99U LYS* 3.3 22.6 + - - +
100U ASP* 2.8 46.4 + - - +
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Residues in contact with ALA 97 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14U ILE* 4.8 0.5 - - - +
17U ASN* 3.9 29.9 + - + +
18U GLU* 5.9 1.8 - - - +
51U GLU* 5.9 0.7 - - - +
93U LEU* 2.9 21.0 + - + +
94U GLU* 3.2 17.9 + - - +
96U LYS* 1.3 72.0 - - - +
98U THR* 1.3 56.5 + - - +
100U ASP* 3.4 3.8 + - - +
101U LEU* 3.0 40.7 + - + +
127U GLU* 5.1 5.6 - - + -
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Residues in contact with THR 98 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94U GLU 3.0 14.3 + - - +
95U LEU* 3.4 18.6 - - + +
97U ALA* 1.3 76.3 - - - +
99U LYS* 1.3 68.3 + - - +
101U LEU* 3.3 9.0 + - - +
102U ARG* 2.9 50.2 + - - +
124U LEU* 3.5 19.0 - - - +
127U GLU* 4.1 11.8 - - - +
128U GLU* 4.4 1.7 - - - +
131U ILE* 4.0 18.5 - - + +
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Residues in contact with LYS 99 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95U LEU 3.2 10.2 + - - +
96U LYS* 3.5 29.8 - - + +
98U THR* 1.3 85.4 - - + +
100U ASP* 1.3 64.3 + - - +
102U ARG* 3.3 9.8 + - - +
103U GLU* 3.2 48.2 + - + +
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Residues in contact with ASP 100 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10U HIS* 4.9 1.7 + - - -
13U LYS* 3.1 31.9 + - + +
14U ILE* 3.8 11.6 - - + +
17U ASN* 2.9 24.6 + - - +
96U LYS* 2.8 43.8 + - - +
97U ALA 3.7 7.6 - - - +
99U LYS* 1.3 79.9 + - - +
101U LEU* 1.3 65.2 + - - +
103U GLU* 3.4 13.1 + - - +
104U ALA* 3.1 23.4 + - - +
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Residues in contact with LEU 101 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14U ILE* 3.5 37.9 - - + +
18U GLU* 5.4 1.1 - - - +
97U ALA* 3.0 35.1 + - + +
98U THR* 3.3 8.7 + - - +
100U ASP* 1.3 74.5 - - - +
102U ARG* 1.3 66.4 + - - +
104U ALA* 3.2 2.5 + - - +
105U ILE* 2.9 29.9 + - + +
120U LEU* 3.8 28.7 - - + +
123U ILE* 4.2 12.3 - - + -
124U LEU* 4.3 18.6 - - + +
127U GLU* 4.2 23.1 - - + -
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Residues in contact with ARG 102 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111D VAL 5.4 0.2 - - - -
112D HIS* 2.8 52.7 + - + +
113D ASP* 4.1 8.1 + - - +
114D TYR* 4.0 16.1 + - + +
98U THR* 2.9 36.5 + - - +
99U LYS* 3.3 10.0 + - - +
101U LEU* 1.3 76.4 - - - +
103U GLU* 1.3 57.3 + - + +
105U ILE* 3.2 3.6 + - - +
106U VAL* 3.0 33.9 + - - +
124U LEU* 3.7 22.8 - - + +
128U GLU* 2.8 32.5 + - - +
131U ILE* 6.2 0.2 - - - +
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Residues in contact with GLU 103 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10U HIS* 3.9 16.0 - - + -
13U LYS* 5.1 4.0 + - - -
99U LYS* 3.2 45.3 + - - +
100U ASP* 3.7 15.4 - - - +
101U LEU 3.3 0.2 - - - -
102U ARG* 1.3 76.6 - - + +
104U ALA* 1.3 61.4 + - - +
106U VAL* 3.6 9.9 - - - +
107U HIS* 3.2 19.8 + - - +
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Residues in contact with ALA 104 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10U HIS* 3.6 33.5 + - + +
14U ILE* 4.4 11.0 - - + -
100U ASP 3.1 16.5 + - - +
101U LEU 3.8 2.7 - - - +
103U GLU* 1.3 74.7 - - - +
105U ILE* 1.3 66.3 + - - +
107U HIS* 3.1 3.6 + - - +
108U CYS* 2.9 26.4 + - - -
120U LEU* 3.6 22.9 - - + -
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Residues in contact with ILE 105 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114D TYR* 3.6 44.2 - - + -
101U LEU* 2.9 22.1 + - + +
102U ARG 3.6 3.8 - - - +
104U ALA* 1.3 77.1 - - - +
106U VAL* 1.3 65.6 + - - +
108U CYS* 3.2 6.3 + - - +
109U GLU* 3.1 21.8 + - - +
117U ARG* 3.8 30.0 - - + +
120U LEU* 3.7 25.6 - - + +
121U LYS* 4.0 22.4 - - + +
124U LEU* 4.0 16.2 - - + -
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Residues in contact with VAL 106 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112D HIS* 3.5 28.0 - - + +
114D TYR* 3.3 20.2 - - - +
102U ARG 3.0 15.8 + - - +
103U GLU* 3.6 12.3 - - - +
105U ILE* 1.3 75.7 - - - +
107U HIS* 1.3 66.2 + - + +
109U GLU* 3.3 7.2 + - - +
110U GLN* 3.2 26.1 + - + +
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Residues in contact with HIS 107 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4U ASP* 2.9 22.4 + - - -
6U LYS* 3.4 29.2 - - + +
7U VAL* 3.7 28.0 - - + -
10U HIS* 3.7 30.5 + + + +
103U GLU 3.2 4.2 + - - +
104U ALA 3.1 10.0 + - - +
106U VAL* 1.3 81.9 - - - +
108U CYS* 1.3 64.1 + - - +
110U GLN* 3.0 31.8 + - - +
111U VAL* 3.1 29.3 + - + +
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Residues in contact with CYS 108 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7U VAL* 4.1 20.2 - - - -
10U HIS* 6.0 1.6 - - - -
11U LEU* 5.4 0.2 - - - -
104U ALA* 2.9 18.6 + - - -
105U ILE 3.6 7.4 - - - +
107U HIS* 1.3 76.0 - - - +
109U GLU* 1.3 62.6 + - - +
111U VAL* 3.4 7.5 + - - -
112U HIS* 3.0 3.6 + - - -
113U ASP* 2.9 41.8 + - - +
116U SER* 3.8 26.2 - - - -
117U ARG* 4.0 11.2 - - + -
120U LEU* 4.0 16.8 - - - -
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Residues in contact with GLU 109 (chain U).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109D GLU* 4.2 7.0 - - - +
109E GLU* 4.3 9.0 - - - +
117E ARG* 2.6 31.4 + - - -
105U ILE 3.1 12.2 + - - +
106U VAL* 3.5 12.1 - - - +
108U CYS* 1.3 76.0 - - - +
110U GLN* 1.3 63.5 + - - +
112U HIS* 3.1 22.7 + - - -
114U TYR* 3.7 17.7 + - - -
117U ARG* 2.8 44.2 + - - +
----------------------------------------------------------
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Residues in contact with GLN 110 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6U LYS* 5.4 4.8 - - - +
106U VAL* 3.2 14.5 + - + +
107U HIS* 3.0 26.3 + - - +
109U GLU* 1.3 79.9 - - - +
111U VAL* 1.3 76.3 + - - +
112U HIS* 3.3 14.3 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain U).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102E ARG* 5.3 0.9 - - - -
4U ASP* 4.0 22.2 - - + +
6U LYS* 6.2 0.4 - - - +
7U VAL* 3.9 25.8 - - + -
107U HIS* 3.1 35.7 + - + +
108U CYS 3.9 3.6 - - - +
110U GLN* 1.3 89.4 - - - +
112U HIS* 1.3 75.4 + - - +
113U ASP* 3.4 6.6 + - + +
----------------------------------------------------------
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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