Contacts of the helix formed by residues 92 - 119 (chain F) in PDB entry 1IES
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 THR 92 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37F PHE* 4.0 10.8 - - - -
44F LEU* 4.0 5.7 - - - +
47F VAL* 3.9 34.9 - - + +
91F THR* 1.3 70.1 - - - +
93F LEU* 1.3 57.2 + - - +
95F ALA* 3.3 1.5 + - - +
96F MET* 2.7 36.3 + - + +
151F ILE* 3.6 26.5 - - + -
163F GLU* 2.7 32.7 + - - +
166F PHE* 4.1 15.5 - - + -
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Residues in contact with LEU 93 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91F THR* 3.1 9.4 + - - +
92F THR* 1.3 77.5 - - - +
94F ASP* 1.3 67.8 + - - +
96F MET* 3.9 0.5 - - - -
97F LYS* 3.0 48.6 + - + +
148F LEU* 3.5 27.4 - - + -
151F ILE* 4.1 26.3 - - + +
152F GLN* 3.8 28.7 - - + +
155F VAL* 4.4 21.5 - - + -
163F GLU* 5.6 0.8 - - - +
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Residues in contact with ASP 94 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89F TRP 3.6 15.9 - - - +
90F GLY* 4.0 5.4 - - - -
91F THR* 2.8 30.0 + - - +
93F LEU* 1.3 82.3 - - - +
95F ALA* 1.3 63.3 + - - +
97F LYS* 3.3 14.3 + - - +
98F ALA* 3.0 23.6 + - - +
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Residues in contact with ALA 95 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33F LEU* 3.7 20.5 - - + +
37F PHE* 3.6 30.1 - - + -
51F PHE* 3.8 11.0 - - + -
89F TRP* 3.8 7.0 + - - +
91F THR 2.9 19.8 + - - +
92F THR* 3.7 3.1 - - - +
94F ASP* 1.3 72.1 - - - +
96F MET* 1.3 56.8 + - - +
98F ALA* 3.2 6.7 + - - +
99F ALA* 2.9 28.6 + - - +
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Residues in contact with MET 96 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47F VAL* 5.6 0.7 - - + -
50F PHE* 3.5 41.7 - - + -
51F PHE* 4.3 9.8 - - + -
92F THR* 2.7 28.5 + - + +
93F LEU 3.9 2.7 - - - +
95F ALA* 1.3 70.5 - - - +
97F LYS* 1.3 56.7 + - - +
99F ALA* 3.2 4.3 + - - +
100F ILE* 2.9 31.7 + - - +
144F MET* 4.5 13.7 - - + +
147F HIS* 4.0 30.3 - - + -
148F LEU* 3.9 18.3 - - + +
151F ILE* 3.5 26.2 - - + -
166F PHE* 4.6 6.1 - - + -
171F LEU* 4.9 3.6 - - + -
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Residues in contact with LYS 97 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93F LEU* 3.0 39.4 + - + +
94F ASP* 3.6 12.7 + - - +
96F MET* 1.3 75.3 - - - +
98F ALA* 1.3 63.8 + - - +
100F ILE* 3.2 12.5 - - + +
101F VAL* 3.2 28.3 + - + +
148F LEU* 3.5 15.5 - - + -
152F GLN* 3.8 24.6 - - - +
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Residues in contact with ALA 98 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33F LEU* 5.3 4.0 - - + -
86F GLN* 5.2 4.9 - - - +
89F TRP* 4.4 24.9 - - + -
94F ASP 3.0 14.2 + - - +
95F ALA* 3.4 11.7 - - - +
97F LYS* 1.3 76.4 - - - +
99F ALA* 1.3 61.7 + - - +
101F VAL* 3.4 6.7 + - - +
102F LEU* 3.0 22.4 + - - +
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Residues in contact with ALA 99 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30F TYR* 3.6 30.7 - - + +
33F LEU* 4.8 3.8 - - + +
51F PHE* 3.8 14.1 - - + -
95F ALA 2.9 16.2 + - - +
96F MET* 3.7 6.1 - - - +
98F ALA* 1.3 77.2 - - - +
100F ILE* 1.3 57.5 + - - +
102F LEU* 3.1 7.6 + - - +
103F GLU* 2.9 30.8 + - - +
144F MET* 3.9 11.4 - - + -
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Residues in contact with ILE 100 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3E GLN* 4.3 14.6 - - + +
4E ILE* 4.1 18.4 - - + -
96F MET 2.9 15.7 + - - +
97F LYS* 3.2 19.1 - - + +
99F ALA* 1.3 74.9 - - - +
101F VAL* 1.3 63.7 + - + +
103F GLU* 3.2 2.3 + - - +
104F LYS* 2.8 41.9 + - + +
141F ILE* 4.1 13.7 - - + +
144F MET* 4.0 18.1 - - + -
145F GLY* 4.1 23.3 - - - +
148F LEU* 3.9 18.2 - - + -
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Residues in contact with VAL 101 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97F LYS* 3.2 16.7 + - + +
98F ALA* 3.5 10.1 - - - +
100F ILE* 1.3 75.5 - - + +
102F LEU* 1.3 66.7 + - - +
104F LYS* 3.3 10.5 + - - +
105F SER* 3.0 24.1 + - - -
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Residues in contact with LEU 102 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22F LEU 5.8 0.2 - - - +
25F ARG* 5.2 11.7 - - - +
26F ALA* 4.1 28.5 - - + -
29F THR* 4.0 26.5 - - + +
30F TYR* 3.8 32.3 - - + +
33F LEU* 5.6 0.2 - - + -
98F ALA 3.0 14.6 + - - +
99F ALA* 3.3 8.7 - - - +
101F VAL* 1.3 76.7 - - - +
103F GLU* 1.3 65.3 + - - +
105F SER* 2.8 30.1 + - - +
106F LEU* 3.0 12.7 + - + +
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Residues in contact with GLU 103 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30F TYR* 2.6 26.4 + - - +
58F LYS* 2.9 35.0 + - - -
99F ALA 2.9 20.0 + - - +
100F ILE* 3.7 7.9 - - - +
102F LEU* 1.3 71.7 - - - +
104F LYS* 1.3 57.4 + - - +
106F LEU* 3.1 10.4 + - - +
107F ASN* 2.7 28.4 + - - +
137F GLU* 2.7 32.9 - - - +
140F LEU* 3.4 17.5 - - + +
141F ILE* 3.8 16.4 - - + -
144F MET* 3.8 16.2 - - + -
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Residues in contact with LYS 104 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3E GLN 3.0 28.6 + - - -
4E ILE* 4.0 20.0 - - - +
5E ARG 4.6 7.2 + - - -
6E GLN* 2.8 46.1 + - + +
100F ILE* 2.8 34.5 + - + +
101F VAL* 3.5 11.0 - - - +
102F LEU 3.2 0.2 - - - -
103F GLU* 1.3 76.7 - - - +
105F SER* 1.3 57.3 + - - +
107F ASN 3.2 0.7 + - - -
108F GLN* 2.9 15.1 + - - +
141F ILE* 4.3 9.6 - - + -
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Residues in contact with SER 105 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22F LEU* 4.7 5.0 - - - +
101F VAL* 3.0 13.9 + - - -
102F LEU* 2.8 28.1 + - - +
104F LYS* 1.3 72.3 - - - +
106F LEU* 1.3 67.8 + - - +
108F GLN* 3.4 7.7 + - - +
109F ALA* 3.0 22.7 + - - +
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Residues in contact with LEU 106 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19F LEU* 4.8 0.7 - - - +
22F LEU* 3.9 43.5 - - + +
23F TYR* 4.2 20.0 - - + +
26F ALA* 3.8 23.3 - - + -
58F LYS* 3.9 23.8 - - + +
102F LEU* 3.0 12.0 + - + +
103F GLU* 3.4 25.6 - - - +
105F SER* 1.3 82.8 + - - +
107F ASN* 1.3 63.7 + - - +
109F ALA* 3.2 8.3 + - - +
110F LEU* 3.0 27.3 + - - +
137F GLU* 4.4 5.4 - - - +
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Residues in contact with ASN 107 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6E GLN* 2.8 29.0 - - - +
72E ARG* 5.9 0.5 + - - -
103F GLU 2.7 16.9 + - - +
104F LYS 3.5 0.4 - - - +
106F LEU* 1.3 74.9 - - - +
108F GLN* 1.3 66.1 + - - +
110F LEU* 3.2 12.3 + - - +
111F LEU* 2.9 37.0 + - - +
134F LEU* 4.5 7.1 + - - +
137F GLU* 3.2 33.2 - - + +
138F VAL* 4.9 9.6 - - - +
141F ILE* 4.1 9.0 - - + +
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Residues in contact with GLN 108 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6E GLN* 3.7 20.7 + - - +
7E ASN* 5.5 1.8 - - - +
104F LYS 2.9 13.8 + - - +
105F SER* 3.6 11.0 - - - +
107F ASN* 1.3 76.1 - - - +
109F ALA* 1.3 55.8 + - - +
111F LEU* 3.1 21.7 + - - +
112F ASP* 2.8 63.7 + - - +
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Residues in contact with ALA 109 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18F ARG* 4.2 14.5 + - - +
19F LEU* 3.6 23.2 - - + +
22F LEU* 3.7 17.7 - - + -
105F SER 3.0 13.5 + - - +
106F LEU 3.3 9.4 - - - +
108F GLN* 1.3 74.3 - - - +
110F LEU* 1.3 57.6 + - - +
112F ASP* 3.5 9.0 + - - +
113F LEU* 2.9 28.4 + - - +
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Residues in contact with LEU 110 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19F LEU* 3.6 25.6 - - + -
23F TYR* 3.7 20.9 - - + +
106F LEU 3.0 15.5 + - - +
107F ASN* 3.2 10.5 + - - +
109F ALA* 1.3 72.8 - - - +
111F LEU* 1.3 61.2 + - - +
113F LEU* 3.1 6.0 + - - +
114F HIS* 2.7 32.6 + - - +
129F LEU* 4.1 12.7 - - + +
133F PHE* 3.6 43.1 - - + +
134F LEU* 3.7 12.8 - - + -
137F GLU* 3.9 25.6 - - + -
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Residues in contact with LEU 111 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6E GLN* 4.8 4.5 - - - +
7E ASN* 3.6 39.9 - - + +
123E PRO* 3.8 26.7 - - + +
124E HIS* 5.8 1.8 - - + +
107F ASN* 2.9 33.4 + - - +
108F GLN* 3.3 30.7 - - - +
110F LEU* 1.3 77.0 - - - +
112F ASP* 1.3 63.1 + - - +
114F HIS* 3.4 4.9 + - - +
115F ALA* 3.0 21.8 + - - +
134F LEU* 4.1 15.9 - - + -
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Residues in contact with ASP 112 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18F ARG* 5.7 2.4 + - - +
108F GLN* 2.8 45.8 + - - +
109F ALA* 3.6 7.9 - - - +
111F LEU* 1.3 72.1 - - - +
113F LEU* 1.3 65.5 + - - +
115F ALA* 2.8 19.9 + - - +
116F LEU* 3.0 11.9 + - - +
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Residues in contact with LEU 113 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12F VAL* 4.4 9.2 - - + +
15F ALA* 3.5 30.3 - - + -
16F VAL* 4.1 20.4 - - + +
19F LEU* 3.6 29.4 - - + -
65F LEU* 5.2 0.9 - - + -
109F ALA 2.9 20.8 + - - +
110F LEU* 3.7 4.5 - - - +
112F ASP* 1.3 69.7 - - - +
114F HIS* 1.3 58.8 + - - +
116F LEU* 3.2 16.9 + - + +
117F GLY* 2.9 24.6 + - - -
125F LEU* 3.9 17.3 - - + +
129F LEU* 3.9 22.2 - - + -
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Residues in contact with HIS 114 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123E PRO* 3.5 31.7 - - + +
110F LEU 2.7 21.6 + - - +
111F LEU* 3.5 7.9 - - - +
113F LEU* 1.3 72.8 - - - +
115F ALA* 1.3 58.5 + - - +
117F GLY* 3.1 3.4 + - - +
118F SER* 3.0 31.7 + - - -
125F LEU* 5.1 0.2 - - - -
126F CYS* 3.7 38.9 - - + +
129F LEU* 3.7 15.6 - - + +
130F GLU* 2.8 30.0 + - - -
134F LEU* 4.0 13.2 - - + -
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Residues in contact with ALA 115 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E ALA* 6.3 3.1 - - + -
111F LEU 3.0 12.4 + - - +
112F ASP* 2.8 13.5 + - - +
114F HIS* 1.3 72.7 + - - +
116F LEU* 1.3 60.6 + - - +
118F SER* 3.1 9.1 + - - -
119F ALA* 2.8 29.7 + - - +
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Residues in contact with LEU 116 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11F GLU* 3.5 43.3 - - + +
12F VAL* 3.9 7.6 - - + +
15F ALA* 3.9 17.0 - - + -
112F ASP 3.0 9.9 + - - +
113F LEU* 3.2 11.7 - - + +
115F ALA* 1.3 74.7 - - - +
117F GLY* 1.3 55.4 + - - +
119F ALA* 3.0 9.1 + - + +
120F GLN* 2.8 62.1 + - + +
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Residues in contact with GLY 117 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12F VAL* 4.6 1.5 - - - +
113F LEU 2.9 10.7 + - - -
114F HIS 3.1 4.0 + - - -
116F LEU* 1.3 76.3 - - - +
118F SER* 1.3 54.2 + - - +
120F GLN* 3.4 2.5 + - - -
121F ALA 3.0 7.3 + - - -
122F ASP* 2.7 36.4 + - - +
125F LEU* 3.6 25.7 - - - +
126F CYS* 3.7 10.5 - - - -
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Residues in contact with SER 118 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114F HIS* 3.0 23.2 + - - -
115F ALA* 3.1 14.2 + - - -
117F GLY* 1.3 74.2 - - - +
119F ALA* 1.3 58.5 + - - +
121F ALA* 2.9 20.6 + - - +
122F ASP 4.7 0.2 - - - +
126F CYS* 3.5 12.2 - - - -
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Residues in contact with ALA 119 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115F ALA 2.8 17.9 + - - +
116F LEU* 3.4 14.8 - - + +
118F SER* 1.3 72.2 - - - +
120F GLN* 1.3 68.0 + - + +
121F ALA* 3.4 1.9 + - - +
----------------------------------------------------------
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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