Contacts of the helix formed by residues 92 - 119 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B PHE* 4.1 11.9 - - - -
44B LEU* 3.9 5.9 - - - +
47B VAL* 3.8 34.2 - - + +
51B PHE* 6.1 0.2 - - + -
91B THR* 1.3 69.1 - - - +
93B LEU* 1.3 57.3 + - - +
95B ALA* 3.4 1.5 + - + +
96B MET* 2.8 35.4 + - + +
151B ILE* 3.7 24.9 - - + -
163B GLU* 2.8 33.2 + - - +
166B PHE* 4.1 15.7 - - + -
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Residues in contact with LEU 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B THR* 3.1 9.6 + - - +
92B THR* 1.3 74.9 - - - +
94B ASP* 1.3 71.4 + - - +
96B MET* 3.9 0.5 - - - +
97B LYS* 3.0 51.3 + - + +
148B LEU* 3.4 28.7 - - + -
151B ILE* 4.2 24.7 - - + +
152B GLN* 3.8 28.7 - - + +
155B VAL* 4.6 20.2 - - + -
163B GLU* 5.7 0.8 - - - +
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Residues in contact with ASP 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B GLN* 6.3 0.4 - - - +
89B TRP 3.4 17.0 - - - +
90B GLY* 3.8 6.1 - - - -
91B THR* 2.9 32.1 + - - +
93B LEU* 1.3 82.9 - - - +
95B ALA* 1.3 61.9 + - - +
97B LYS* 3.2 12.5 + - - +
98B ALA* 2.9 23.9 + - - +
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Residues in contact with ALA 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 3.6 25.5 - - + +
37B PHE* 3.6 32.8 - - + -
51B PHE* 3.9 10.9 - - + -
89B TRP* 3.7 7.3 + - - +
91B THR 2.8 7.4 + - - +
92B THR* 3.8 3.6 - - - +
94B ASP* 1.3 76.2 - - - +
96B MET* 1.3 55.4 + - - +
98B ALA* 3.3 6.6 + - - +
99B ALA* 2.9 28.2 + - - +
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Residues in contact with MET 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B VAL* 5.6 0.9 - - + -
50B PHE* 3.5 40.4 - - + -
51B PHE* 4.4 8.0 - - + -
92B THR* 2.8 24.4 + - + +
93B LEU 3.9 2.9 - - - +
95B ALA* 1.3 67.7 - - - +
97B LYS* 1.3 65.8 + - - +
99B ALA* 3.2 4.3 + - - +
100B ILE* 2.9 27.1 + - - +
144B MET* 4.5 13.4 - - - +
147B HIS* 3.7 32.3 - - + -
148B LEU* 4.0 18.3 - - + +
151B ILE* 3.4 25.6 - - + -
166B PHE* 4.6 8.1 - - + -
171B LEU* 5.0 4.0 - - + -
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Residues in contact with LYS 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B LEU* 3.0 44.1 + - + +
94B ASP* 3.4 12.1 + - - +
96B MET* 1.3 74.4 - - - +
98B ALA* 1.3 64.4 + - - +
100B ILE* 3.1 26.1 - - + +
101B VAL* 3.2 13.7 + - - +
148B LEU* 3.6 14.4 - - + -
152B GLN* 3.8 23.8 - - - +
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Residues in contact with ALA 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 5.5 3.1 - - + -
86B GLN* 5.2 4.5 - - - +
89B TRP* 4.4 25.6 - - + -
94B ASP 2.9 13.5 + - - +
95B ALA* 3.5 10.5 - - - +
97B LYS* 1.3 76.1 - - - +
99B ALA* 1.3 57.9 + - - +
101B VAL* 3.4 8.5 + - - +
102B LEU* 2.9 26.6 + - - +
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Residues in contact with ALA 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 3.7 18.1 + - + +
33B LEU* 5.0 3.8 - - + +
51B PHE* 3.7 26.5 - - + -
95B ALA 2.9 17.3 + - - +
96B MET* 3.2 6.5 + - - +
98B ALA* 1.3 75.5 - - - +
100B ILE* 1.3 57.1 + - - +
102B LEU* 2.9 8.9 + - - +
103B GLU* 2.8 29.8 + - - +
144B MET* 4.0 13.0 - - + -
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Residues in contact with ILE 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A GLN* 4.4 12.8 - - + +
4A ILE* 4.1 18.2 - - + -
96B MET 2.9 18.6 + - - +
97B LYS* 3.1 21.8 - - - +
99B ALA* 1.3 71.8 - - - +
101B VAL* 1.3 61.9 + - + +
103B GLU* 3.2 2.6 + - - +
104B LYS* 2.8 44.7 + - + +
141B ILE* 4.2 11.9 - - + +
144B MET* 4.0 17.2 - - + -
145B GLY* 4.0 24.2 - - - +
148B LEU* 4.1 20.0 - - + -
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Residues in contact with VAL 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B LYS* 3.2 14.5 + - + +
98B ALA* 3.5 11.0 - - - +
100B ILE* 1.3 79.2 - - + +
102B LEU* 1.3 64.8 + - - +
104B LYS* 3.4 9.7 + - + +
105B SER* 3.1 23.1 + - - -
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Residues in contact with LEU 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU 5.9 0.2 - - - +
26B ALA* 4.2 22.2 - - + -
29B THR* 3.8 34.1 - - + +
30B TYR* 3.8 30.5 - - + +
33B LEU* 5.5 0.2 - - + -
98B ALA 2.9 14.8 + - - +
99B ALA* 2.9 10.3 + - - +
101B VAL* 1.3 77.6 - - - +
103B GLU* 1.3 63.4 + - - +
105B SER* 2.9 28.4 + - - +
106B LEU* 3.1 12.9 + - + +
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Residues in contact with GLU 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 2.6 30.2 + - - +
58B LYS* 2.8 35.0 + - - -
99B ALA 2.8 15.3 + - - +
100B ILE* 3.7 7.2 - - - +
102B LEU* 1.3 71.1 - - - +
104B LYS* 1.3 58.6 + - - +
106B LEU* 3.1 11.7 + - - +
107B ASN* 2.7 30.1 + - - +
137B GLU* 2.7 30.4 - - - +
140B LEU* 3.4 23.7 - - + +
141B ILE* 3.8 15.3 - - + -
144B MET* 3.9 11.0 - - - -
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Residues in contact with LYS 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A GLN 3.1 28.4 + - - -
4A ILE* 4.0 18.8 - - - +
5A ARG 4.6 7.7 + - - -
6A GLN* 2.9 45.4 + - - +
100B ILE* 2.8 36.8 + - + +
101B VAL* 3.5 11.0 - - - +
103B GLU* 1.3 76.0 - - - +
105B SER* 1.3 56.4 + - - +
107B ASN* 3.3 0.8 + - - -
108B GLN* 2.9 14.8 + - - +
141B ILE* 4.2 10.5 - - + +
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Residues in contact with SER 105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 4.8 4.6 - - - +
101B VAL* 3.1 10.3 + - - -
102B LEU* 2.9 25.7 + - - +
104B LYS* 1.3 74.5 - - - +
106B LEU* 1.3 69.0 + - - +
108B GLN* 3.3 8.4 + - - +
109B ALA* 3.0 22.5 + - - +
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Residues in contact with LEU 106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU* 4.8 0.7 - - - +
22B LEU* 3.9 42.6 - - + +
23B TYR* 4.2 21.3 - - + +
26B ALA* 3.9 13.9 - - + -
58B LYS* 3.8 38.8 - - + +
102B LEU* 3.1 13.1 + - + +
103B GLU* 3.4 18.8 - - - +
105B SER* 1.3 82.1 + - - +
107B ASN* 1.3 62.5 + - - +
109B ALA* 3.2 7.8 + - - +
110B LEU* 3.1 27.2 + - - +
137B GLU* 4.6 4.9 - - - +
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Residues in contact with ASN 107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6A GLN* 2.9 29.0 - - - +
72A ARG* 5.9 0.7 + - - -
103B GLU 2.7 19.4 + - - +
104B LYS 3.5 0.9 - - - +
106B LEU* 1.3 71.7 - - - +
108B GLN* 1.3 64.5 + - - +
110B LEU* 3.2 11.5 + - - +
111B LEU* 3.0 37.4 + - - +
134B LEU* 4.5 7.7 + - - +
137B GLU* 3.3 33.1 - - + +
138B VAL* 4.8 10.8 - - - +
141B ILE* 4.0 9.5 - - + +
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Residues in contact with GLN 108 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A GLN* 3.6 19.9 + - - +
7A ASN* 5.5 2.1 - - - +
104B LYS 2.9 13.5 + - - +
105B SER* 3.6 11.4 - - - +
107B ASN* 1.3 75.7 - - - +
109B ALA* 1.3 56.0 + - - +
111B LEU* 3.4 20.6 + - - +
112B ASP* 2.8 53.0 + - - +
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Residues in contact with ALA 109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18B ARG* 3.8 19.5 + - - +
19B LEU* 3.6 23.1 - - + +
22B LEU* 3.7 22.2 - - + -
105B SER 3.0 9.5 + - - +
106B LEU 3.2 9.8 + - - +
108B GLN* 1.3 74.2 - - - +
110B LEU* 1.3 57.7 + - - +
112B ASP* 3.3 7.8 + - - +
113B LEU* 2.9 28.2 + - - +
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Residues in contact with LEU 110 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU* 3.7 24.9 - - + -
23B TYR* 3.7 19.3 - - + +
106B LEU 3.1 15.3 + - - +
107B ASN* 3.2 10.1 + - - +
109B ALA* 1.3 71.4 - - - +
111B LEU* 1.3 54.4 + - - +
113B LEU* 3.0 6.8 + - - +
114B HIS* 2.7 36.1 + - - +
129B LEU* 3.9 14.4 - - + +
133B PHE* 3.6 41.5 - - + +
134B LEU* 3.7 17.7 - - + -
137B GLU* 3.9 26.5 - - + -
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Residues in contact with LEU 111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A GLN* 4.8 5.6 - - - +
7A ASN* 3.7 37.9 - - + +
123A PRO* 3.7 25.7 - - + +
124A HIS* 5.7 1.8 - - + +
107B ASN* 3.0 32.2 + - - +
108B GLN* 3.4 29.8 - - - +
110B LEU* 1.3 75.8 - - - +
112B ASP* 1.3 57.8 + - - +
114B HIS* 3.2 6.9 + - - +
115B ALA* 2.9 28.1 + - - +
134B LEU* 4.2 15.3 - - + -
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Residues in contact with ASP 112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B ARG* 5.3 5.4 + - - +
108B GLN* 2.8 49.8 + - - +
109B ALA* 3.7 8.4 - - - +
111B LEU* 1.3 71.7 - - - +
113B LEU* 1.3 60.8 + - - +
115B ALA* 3.5 7.1 + - - +
116B LEU* 3.1 20.6 + - - +
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Residues in contact with LEU 113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B VAL* 4.4 7.6 - - + -
15B ALA* 3.5 32.1 - - + +
16B VAL* 4.3 18.6 - - + +
18B ARG* 6.1 2.2 - - - +
19B LEU* 3.5 30.1 - - + -
65B LEU* 5.2 0.9 - - + -
109B ALA 2.9 14.2 + - - +
110B LEU* 3.5 8.1 - - - +
112B ASP* 1.3 72.2 - - - +
114B HIS* 1.3 66.5 + - - +
116B LEU* 3.1 14.0 + - + +
117B GLY* 2.8 20.3 + - - -
125B LEU* 3.9 16.6 - - + +
129B LEU* 3.8 22.4 - - + -
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Residues in contact with HIS 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A PRO* 3.5 32.3 - - + +
110B LEU 2.7 16.7 + - - +
111B LEU* 3.4 13.2 - - - +
113B LEU* 1.3 73.1 - - - +
115B ALA* 1.3 61.9 + - - +
117B GLY* 3.1 3.9 + - - +
118B SER* 3.0 26.8 + - - -
125B LEU* 5.2 0.2 - - - -
126B CYS* 3.7 37.6 - - + +
129B LEU* 3.7 13.4 - - + +
130B GLU* 2.9 27.8 + - - -
134B LEU* 3.9 14.8 - - + -
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Residues in contact with ALA 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ALA* 6.5 0.7 - - + -
111B LEU 2.9 16.7 + - - +
112B ASP* 3.6 9.6 - - - +
114B HIS* 1.3 76.8 + - - +
116B LEU* 1.3 60.6 + - - +
118B SER* 2.9 20.4 + - - -
119B ALA* 2.9 14.4 + - - +
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Residues in contact with LEU 116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B GLU* 3.6 36.1 - - + +
12B VAL* 3.9 12.6 - - + -
15B ALA* 3.9 17.9 - - + -
112B ASP 3.1 11.5 + - - +
113B LEU* 3.1 11.8 + - + +
115B ALA* 1.3 77.7 - - - +
117B GLY* 1.3 53.7 + - - +
119B ALA* 3.0 8.7 + - + +
120B GLN* 2.8 64.2 + - + +
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Residues in contact with GLY 117 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B VAL* 4.5 4.0 - - - +
113B LEU 2.8 13.7 + - - -
114B HIS 3.1 4.2 + - - -
116B LEU* 1.3 72.1 - - - +
118B SER* 1.3 54.1 + - - +
120B GLN 3.5 0.3 + - - -
121B ALA 3.0 6.8 + - - -
122B ASP* 2.6 37.8 + - - +
125B LEU* 3.7 25.0 - - - +
126B CYS* 3.7 10.8 - - - -
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Residues in contact with SER 118 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B HIS* 3.0 19.2 + - - -
115B ALA* 2.9 19.1 + - - -
117B GLY* 1.3 71.9 - - - +
119B ALA* 1.3 63.3 + - - +
121B ALA* 2.8 16.3 + - - +
122B ASP 4.7 0.2 - - - +
126B CYS* 3.5 12.6 - - - -
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Residues in contact with ALA 119 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115B ALA 2.9 15.0 + - - +
116B LEU* 3.0 13.7 + - + +
118B SER* 1.3 75.9 - - - +
120B GLN* 1.3 69.6 + - + +
121B ALA* 3.3 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