Contacts of the helix formed by residues 96 - 123 (chain C) in PDB entry 4PHZ
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 96 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C ALA 4.2 7.0 - - - +
95C VAL* 1.3 76.1 - - - +
97C PRO* 1.3 65.2 - - + +
98C ARG* 4.0 5.7 + - - +
99C GLU* 2.9 23.0 + - - +
100C GLU* 2.8 33.8 + - - +
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Residues in contact with PRO 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B GLY 5.6 0.4 - - - -
12B PRO* 3.3 27.6 - - + +
95C VAL 4.3 3.1 - - - +
96C THR* 1.3 86.2 - - + +
98C ARG* 1.3 57.6 + - - +
100C GLU* 4.0 1.6 - - + -
101C MET* 3.2 22.7 + - - +
245C LEU* 4.1 30.9 - - + +
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Residues in contact with ARG 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B PRO* 2.9 49.6 + - + +
14B ASN* 3.4 30.0 + - - +
18B GLU* 2.6 45.2 + - - -
16C GLU* 3.1 47.8 + - - +
17C SER 3.9 1.8 - - - +
18C VAL* 3.5 17.7 - - + +
96C THR* 3.0 6.1 + - - +
97C PRO* 1.3 76.8 - - - +
99C GLU* 1.3 61.4 + - - +
101C MET* 3.5 3.1 + - - +
102C ARG* 3.0 27.4 + - - +
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Residues in contact with GLU 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C VAL* 3.5 18.2 - - + -
96C THR* 2.9 22.5 + - - +
98C ARG* 1.3 78.0 - - - +
100C GLU* 1.3 63.4 + - - +
102C ARG* 3.3 33.0 + - - +
103C ARG* 2.8 59.1 + - - +
302C PGT 5.3 1.6 - - - +
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Residues in contact with GLU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C VAL* 3.3 15.6 - - + +
96C THR 2.8 20.2 + - - +
97C PRO* 4.3 1.1 - - + +
99C GLU* 1.3 72.4 - - - +
101C MET* 1.3 58.4 + - - +
103C ARG* 2.9 6.9 + - - +
104C LEU* 2.9 33.5 + - + +
171C ARG 5.3 1.6 - - - +
172C ILE* 3.8 10.9 - - + +
173C PRO* 3.2 39.8 - - + +
174C TYR 4.8 0.2 + - - -
241C ARG* 2.8 42.1 + - - -
245C LEU* 3.1 25.5 - - + +
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Residues in contact with MET 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B PRO* 4.2 9.6 - - + -
13B PHE* 3.9 29.2 - - + -
22B CYS* 4.8 3.4 - - - -
18C VAL* 3.6 19.9 - - + +
97C PRO 3.2 19.5 + - - +
98C ARG* 3.7 4.7 - - - +
100C GLU* 1.3 77.2 - - - +
102C ARG* 1.3 62.7 + - - +
104C LEU* 3.9 6.4 + - - +
105C VAL* 3.3 29.9 + - - +
242C ILE* 4.2 34.3 - - + +
245C LEU* 3.7 32.4 - - + +
246C VAL* 4.4 9.0 - - + -
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Residues in contact with ARG 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C SER 3.6 15.3 - - - +
18C VAL* 3.3 28.9 - - + +
20C ASP* 6.3 2.5 - - + +
98C ARG 3.0 13.8 + - - +
99C GLU* 3.3 40.2 + - - +
100C GLU 3.1 0.2 - - - -
101C MET* 1.3 77.6 - - - +
103C ARG* 1.3 68.8 + - - +
105C VAL* 3.0 8.3 + - - +
106C VAL* 2.9 46.4 + - + +
167C TYR* 4.1 0.2 + - - -
302C PGT 2.4 46.3 + - - -
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Residues in contact with ARG 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C ASP* 2.6 45.6 + - - +
92C VAL* 4.0 5.1 - - - +
95C VAL* 4.0 11.9 - - - +
99C GLU* 2.8 45.4 + - - +
100C GLU* 2.9 8.7 + - - +
102C ARG* 1.3 90.8 - - - +
104C LEU* 1.3 55.7 + - - +
106C VAL* 3.2 1.9 + - - -
107C LEU* 2.8 25.5 + - - +
167C TYR* 3.3 25.4 - - - +
171C ARG* 3.1 36.1 + - + +
172C ILE* 3.7 16.2 - - + -
302C PGT 4.4 14.1 + - - -
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Residues in contact with LEU 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLU* 2.9 20.1 + - + +
101C MET* 4.0 11.4 - - - +
103C ARG* 1.3 70.1 - - - +
105C VAL* 1.3 58.9 + - + +
107C LEU* 3.0 5.1 + - - +
108C VAL* 2.8 34.2 + - - +
172C ILE* 3.5 30.6 - - + +
175C PHE* 5.1 2.7 - - + -
238C ILE* 4.4 24.9 - - + +
241C ARG* 3.8 33.4 - - + -
242C ILE* 3.8 28.3 - - + +
245C LEU* 4.1 18.8 - - + -
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Residues in contact with VAL 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B CYS* 4.2 16.4 - - - -
26B VAL* 3.8 26.7 - - + -
29B MET* 3.9 4.4 - - - +
18C VAL* 4.0 12.1 - - + +
19C VAL* 3.7 22.2 - - + -
21C LEU* 4.7 4.5 - - + -
101C MET* 3.3 20.1 + - - +
102C ARG 3.0 8.9 + - - +
104C LEU* 1.3 76.4 - - + +
106C VAL* 1.3 61.8 + - + +
108C VAL* 3.4 7.3 + - - +
109C GLN* 3.1 37.2 + - - +
242C ILE* 6.3 2.0 - - + -
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Residues in contact with VAL 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C VAL 5.7 0.7 - - - +
20C ASP* 6.2 3.6 - - + -
102C ARG* 2.9 44.6 + - + +
103C ARG 3.5 1.6 - - - +
105C VAL* 1.3 72.2 - - + +
107C LEU* 1.3 64.9 + - - +
109C GLN* 3.0 17.5 + - - +
110C TRP* 2.9 23.6 + - + -
167C TYR* 3.1 35.9 - - + +
302C PGT 3.4 43.5 - - + +
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Residues in contact with LEU 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C ARG 2.8 14.8 + - - +
104C LEU* 3.0 10.3 + - + +
106C VAL* 1.3 77.7 - - - +
108C VAL* 1.3 61.9 + - - +
110C TRP* 3.3 6.2 + - + +
111C LEU* 3.0 28.6 + - + +
164C ALA* 3.5 32.5 - - + +
167C TYR* 3.7 17.2 - - + -
168C ALA* 3.6 26.0 - - + -
172C ILE* 4.4 8.5 - - + -
175C PHE* 3.9 11.9 - - + -
183C PHE* 4.3 10.8 - - + -
238C ILE* 3.6 31.6 - - + -
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Residues in contact with VAL 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B VAL* 4.4 13.5 - - + -
29B MET* 3.5 36.1 - - + -
30B LEU* 3.9 24.0 - - + -
33B LEU* 4.1 6.5 - - + -
104C LEU 2.8 25.3 + - - +
105C VAL* 3.8 8.5 - - + +
107C LEU* 1.3 70.3 - - - +
109C GLN* 1.3 57.5 + - - +
111C LEU* 3.2 9.0 + - + +
112C VAL* 2.8 26.9 + - - +
238C ILE* 4.1 27.4 - - + -
242C ILE* 5.6 0.7 - - + -
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Residues in contact with GLN 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B MET* 3.3 17.5 - - + -
20C ASP* 4.6 3.4 - - - +
21C LEU* 3.3 42.8 + - + +
23C GLY 4.3 0.2 + - - -
24C MET* 3.4 29.1 + - + +
105C VAL* 3.1 30.0 + - - +
106C VAL* 3.0 16.9 + - - +
108C VAL* 1.3 72.5 - - - +
110C TRP* 1.3 60.2 + - - +
112C VAL* 2.7 24.3 + - - +
113C VAL* 3.0 14.1 + - - +
302C PGT 3.3 34.4 - - + +
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Residues in contact with TRP 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C LEU* 3.7 32.8 - - + -
84C LEU* 4.1 17.7 - - + -
106C VAL* 2.9 31.5 + - + -
107C LEU* 3.3 9.6 - - - +
109C GLN* 1.3 71.5 - - - +
111C LEU* 1.3 58.3 + - - +
113C VAL* 3.5 3.8 + - - +
114C TYR* 3.0 25.6 + - - +
160C ILE* 3.9 20.4 - - + +
163C GLY* 3.5 18.8 - - - -
164C ALA* 3.3 32.0 - - + +
167C TYR* 3.7 27.6 - + + -
302C PGT 3.6 79.1 + - + +
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Residues in contact with LEU 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B LEU* 6.1 0.2 - - + -
33B LEU* 3.2 35.7 - - + +
107C LEU* 3.0 18.1 + - + +
108C VAL* 3.6 3.8 - - + +
109C GLN 3.0 0.2 - - - -
110C TRP* 1.3 75.3 - - - +
112C VAL* 1.3 59.4 + - - +
114C TYR* 3.1 18.4 + - + +
115C GLY 2.8 26.0 + - - -
164C ALA* 3.8 23.6 - - + -
183C PHE* 4.1 15.9 - - + -
186C VAL* 6.0 1.6 - - + -
231C VAL* 5.1 7.6 - - + -
234C VAL* 4.1 13.5 - - + -
235C VAL* 4.9 7.9 - - + -
238C ILE* 3.7 29.8 - - + -
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Residues in contact with VAL 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B MET* 3.4 48.0 - - + +
32B VAL* 4.3 17.9 - - + -
33B LEU* 3.8 10.6 - - + +
24C MET* 4.0 20.9 - - + -
28C LEU* 4.4 12.6 - - + -
108C VAL 2.8 16.8 + - - +
109C GLN 2.7 15.6 + - - +
111C LEU* 1.3 71.6 - - - +
113C VAL* 1.3 59.5 + - - +
115C GLY* 3.3 2.9 + - - -
116C ILE* 3.1 29.7 + - + +
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Residues in contact with VAL 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C MET* 4.2 9.2 - - + +
27C GLY 4.3 0.7 - - - -
28C LEU* 3.8 35.7 - - + +
31C LEU* 4.4 8.5 - - + +
109C GLN 3.0 7.0 + - - +
110C TRP 3.7 7.2 - - - +
112C VAL* 1.3 72.8 - - - +
114C TYR* 1.3 60.0 + - - +
116C ILE* 3.0 4.9 + - - +
117C ALA* 2.9 26.9 + - - +
160C ILE* 3.9 29.6 - - + -
302C PGT 3.5 43.3 - - + -
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Residues in contact with TYR 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 6.0 2.0 - - + -
37B ALA* 5.9 5.2 - - + -
110C TRP 3.0 15.5 + - - +
111C LEU* 3.2 22.4 - - + +
113C VAL* 1.3 76.2 - - - +
115C GLY* 1.3 64.9 + - - +
117C ALA* 3.8 2.1 - - - +
118C ILE* 2.9 46.4 + - + +
157C TYR* 3.9 22.7 - + + -
160C ILE* 3.5 12.3 - - + +
161C ALA* 3.3 41.5 - - + -
164C ALA* 5.4 0.7 - - + -
186C VAL* 3.7 28.4 + - + +
190C PRO* 5.2 0.2 - - - +
228C ALA* 4.8 13.0 + - - +
231C VAL* 3.8 28.0 - - + -
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Residues in contact with GLY 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 4.2 11.7 - - - -
36B PHE* 2.6 33.7 - - - +
37B ALA* 4.1 3.6 - - - -
111C LEU 2.8 16.3 + - - -
112C VAL 3.3 4.5 + - - -
113C VAL 3.3 0.2 - - - -
114C TYR* 1.3 77.3 - - - +
116C ILE* 1.3 60.2 + - - +
118C ILE* 3.3 1.8 + - - +
119C TYR* 2.9 20.8 + - - +
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Residues in contact with ILE 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B VAL* 4.5 4.9 - - + -
36B PHE* 3.3 34.1 - - + -
28C LEU* 4.1 26.5 - - + -
31C LEU* 3.5 22.4 - - + -
32C ASN* 3.8 17.0 - - - +
112C VAL* 3.1 25.7 + - + +
113C VAL 3.0 7.1 + - - +
115C GLY* 1.3 75.0 - - - +
117C ALA* 1.3 63.8 + - - +
119C TYR* 3.0 16.5 + - + +
120C TRP* 3.0 33.3 + - + +
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Residues in contact with ALA 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C LEU* 4.1 11.0 - - + -
35C TYR* 5.0 2.9 + - - -
113C VAL 2.9 15.2 + - - +
114C TYR* 3.8 5.2 - - - +
116C ILE* 1.3 76.2 - - - +
118C ILE* 1.3 57.7 + - - +
120C TRP* 3.9 4.8 - - - +
121C GLY* 2.9 24.9 + - - -
153C SER 4.4 1.9 - - - +
156C ILE* 4.6 3.6 - - + -
157C TYR* 3.4 35.4 - - + +
160C ILE* 4.0 18.6 - - + -
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Residues in contact with ILE 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B ALA* 3.4 29.6 - - - +
40B GLY* 3.8 19.7 - - - -
41B GLY 4.8 0.2 - - - +
114C TYR* 2.9 43.6 + - + +
115C GLY 3.5 2.7 - - - +
117C ALA* 1.3 74.1 - - - +
119C TYR* 1.3 60.4 + - - +
122C ALA* 2.8 35.4 + - + +
123C SER 3.8 0.2 + - - -
157C TYR* 3.2 47.8 - - + +
228C ALA* 6.1 1.8 - - + +
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Residues in contact with TYR 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B PHE* 4.4 23.1 - + + +
39B LEU* 3.7 30.3 - - + -
40B GLY* 5.1 3.1 - - - -
103B ILE* 5.8 0.2 - - + -
104B GLY* 4.5 9.1 + - - -
107B ILE* 3.2 44.2 - - + +
115C GLY 2.9 14.0 + - - +
116C ILE* 3.0 12.7 + - + +
118C ILE* 1.3 79.1 - - - +
120C TRP* 1.3 84.8 + + - +
123C SER* 3.0 35.7 + - - +
124C PHE* 3.1 29.9 + + + +
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Residues in contact with TRP 120 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C LEU* 4.9 0.2 - - + -
32C ASN* 3.3 36.5 + - + +
35C TYR* 3.1 57.4 - + + -
36C LEU* 4.6 17.0 - - + -
39C ARG* 5.4 2.0 - - + -
116C ILE* 3.0 38.7 + - + +
117C ALA 3.9 1.1 - - - +
118C ILE 3.3 0.2 - - - -
119C TYR* 1.3 94.6 - + - +
121C GLY* 1.3 61.3 + - - +
124C PHE* 3.4 41.6 + + + +
125C PHE* 3.0 54.2 + + + -
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Residues in contact with GLY 121 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ALA 2.9 15.8 + - - -
120C TRP* 1.3 80.0 - - - +
122C ALA* 1.3 57.6 + - - +
125C PHE 4.5 0.3 - - - -
126C THR* 3.0 22.5 + - - -
149C GLU* 4.7 0.2 - - - +
153C SER* 3.2 35.3 + - - -
154C TYR* 3.7 14.5 - - - -
157C TYR* 4.7 2.2 - - - -
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Residues in contact with ALA 122 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B GLY* 3.5 27.8 - - - +
43B HIS* 4.3 0.9 + - - -
44B VAL* 3.0 35.6 + - + +
118C ILE* 2.8 31.1 + - + +
121C GLY* 1.3 74.7 - - - -
123C SER* 1.3 59.1 + - - +
126C THR* 3.4 10.8 - - - +
154C TYR* 3.9 11.0 - - + +
157C TYR* 5.2 0.6 - - + -
193C ILE* 5.7 2.5 - - + -
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Residues in contact with SER 123 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B LEU* 4.2 10.5 - - - -
40B GLY* 4.6 2.0 - - - -
43B HIS* 2.7 30.8 + - - -
104B GLY* 3.5 18.5 + - - -
108B ASN* 4.4 0.4 - - - -
118C ILE 3.8 0.6 + - - -
119C TYR* 3.0 30.7 + - - -
122C ALA* 1.3 80.1 - - - +
124C PHE* 1.3 60.5 + - - +
125C PHE 3.7 0.9 - - - -
126C THR* 3.3 0.9 + - - -
127C GLU* 2.9 34.7 + - - +
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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