Contacts of the helix formed by residues 143 - 173 (chain C) in PDB entry 1CD9
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 SER 143 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C ALA* 1.3 82.0 - - - +
144C ALA* 1.3 66.4 + - - +
145C PHE* 3.9 7.2 + - - +
146C GLN* 2.9 40.9 + - - +
147C ARG* 2.9 17.8 + - - +
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Residues in contact with ALA 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ILE 5.1 2.0 - - - +
143C SER* 1.3 71.5 - - - +
145C PHE* 1.3 64.5 + - - +
147C ARG* 3.1 32.8 + - - +
148C ARG* 2.9 49.6 + - - +
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Residues in contact with PHE 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C LEU* 4.4 22.9 - - + -
48C LEU* 4.6 9.4 - - + -
51C LEU* 4.0 25.1 - - + -
143C SER* 3.2 7.0 + - - +
144C ALA* 1.3 79.2 - - - +
146C GLN* 1.3 65.1 + - + +
148C ARG* 4.3 13.4 - - + +
149C ALA* 2.8 44.0 + - + +
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Residues in contact with GLN 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C SER* 5.4 1.8 + - - -
55C LEU* 3.0 41.1 - - + +
140C ALA 4.4 3.5 + - - +
141C PHE* 3.6 15.1 - - - -
142C ALA* 2.9 40.5 + - - +
143C SER* 2.9 24.9 + - - +
145C PHE* 1.3 83.5 - - + +
147C ARG* 1.3 53.4 + - - +
149C ALA* 4.9 0.7 - - - -
150C GLY* 2.7 32.2 + - - -
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Residues in contact with ARG 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 3.4 35.8 - - - +
94C GLU* 4.9 13.8 + - - -
96C ILE* 2.9 45.0 + - - +
97C SER* 4.7 3.0 - - - +
141C PHE* 3.5 29.7 + - + +
142C ALA 4.3 5.2 + - - -
143C SER 2.9 15.3 + - - +
144C ALA* 3.1 37.0 + - - +
146C GLN* 1.3 77.3 - - - +
148C ARG* 1.3 56.7 + - - +
151C GLY 3.0 21.5 + - - -
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Residues in contact with ARG 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU* 4.1 6.5 - - + +
40C TYR* 3.6 62.8 + - + +
42C LEU* 3.8 18.8 - - + -
96C ILE* 4.1 14.5 + - + +
97C SER* 5.0 8.7 - - - -
144C ALA* 2.9 35.9 + - - +
145C PHE* 3.6 12.3 - - + +
147C ARG* 1.3 74.6 - - - +
149C ALA* 1.3 65.0 + - - +
151C GLY* 3.3 2.4 + - - -
152C VAL* 3.2 23.9 + - - +
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Residues in contact with ALA 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C LEU* 4.5 2.4 - - - +
48C LEU* 3.9 25.3 - - + +
51C LEU* 4.4 10.5 - - + -
55C LEU* 4.7 7.0 - - + -
145C PHE* 2.8 39.4 + - + +
146C GLN 4.3 1.3 - - - +
148C ARG* 1.3 70.5 - - - +
150C GLY* 1.3 67.4 + - - +
152C VAL* 3.0 5.1 + - - +
153C LEU* 3.0 29.4 + - + +
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Residues in contact with GLY 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LEU* 4.3 3.0 - - - +
57C ILE* 3.9 9.2 - - - -
93C LEU* 3.9 7.4 - - - -
141C PHE* 3.9 20.2 - - - -
146C GLN 2.7 23.8 + - - -
147C ARG 3.9 0.7 - - - -
149C ALA* 1.3 71.9 - - - +
151C GLY* 1.3 56.9 + - - +
153C LEU* 3.1 1.7 + - - +
154C VAL* 2.7 36.2 + - - +
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Residues in contact with GLY 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C LEU* 4.6 4.2 - - - +
36C LEU* 4.2 7.4 - - - -
90C LEU* 5.9 0.3 - - - +
93C LEU* 3.5 21.4 - - - +
96C ILE* 4.0 10.8 - - - -
147C ARG 3.0 13.2 + - - -
148C ARG 3.3 4.2 + - - -
149C ALA 3.1 0.2 - - - -
150C GLY* 1.3 76.9 - - - +
152C VAL* 1.3 62.7 + - - +
154C VAL* 4.0 0.2 - - - +
155C ALA* 2.9 27.6 + - - +
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Residues in contact with VAL 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C GLN* 4.3 11.1 - - + +
36C LEU* 3.7 28.8 - - + +
42C LEU* 4.3 23.8 - - + +
43C CYS 5.9 0.2 - - - -
44C HIS 5.2 0.4 - - - -
45C PRO* 3.8 35.4 - - + -
48C LEU* 4.3 13.7 - - + -
148C ARG 3.2 14.2 + - - +
149C ALA* 3.0 7.0 + - - +
151C GLY* 1.3 75.1 - - - +
153C LEU* 1.3 57.8 + - + +
155C ALA* 3.6 4.7 - - - +
156C SER* 3.0 26.2 + - - -
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C PRO* 4.3 16.4 - - + +
48C LEU* 4.2 32.1 - - + +
49C VAL* 4.6 5.6 - - - +
51C LEU* 4.3 10.1 - - + -
52C GLY* 4.1 24.7 - - - +
55C LEU* 4.9 2.2 - - + -
57C ILE* 4.1 24.2 - - + -
149C ALA* 3.0 18.0 + - + +
150C GLY* 3.6 5.4 - - - +
152C VAL* 1.3 76.7 - - + +
154C VAL* 1.3 61.2 + - - +
156C SER* 2.9 7.5 + - - -
157C HIS* 2.8 43.1 + - + +
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Residues in contact with VAL 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ILE* 4.2 22.9 - - + +
86C TYR* 4.0 15.3 - - + -
89C LEU* 4.0 29.4 - - + -
90C LEU* 3.6 31.0 - - + +
93C LEU* 4.5 8.5 - - + -
141C PHE* 4.7 4.3 - - + -
150C GLY 2.7 26.1 + - - +
151C GLY 4.0 2.2 - - - +
153C LEU* 1.3 72.0 - - - +
155C ALA* 1.3 57.7 + - - +
157C HIS* 3.1 6.9 + - - +
158C LEU* 2.8 30.3 + - + +
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Residues in contact with ALA 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C GLY* 4.8 7.0 - - - +
32C LEU* 4.2 18.4 - - + -
33C GLN* 3.8 25.4 - - + +
90C LEU* 5.2 0.8 - - - +
107C LEU* 5.4 3.4 - - + -
151C GLY 2.9 19.8 + - - +
152C VAL 3.6 4.5 - - - +
154C VAL* 1.3 77.0 - - - +
156C SER* 1.3 62.8 + - - +
158C LEU* 3.8 8.4 - - - +
159C GLN* 3.1 30.0 + - - +
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Residues in contact with SER 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C GLN* 4.1 9.5 + - - -
45C PRO* 3.9 26.4 - - - +
152C VAL 3.0 17.6 + - - -
153C LEU* 2.9 10.5 + - - -
155C ALA* 1.3 78.9 - - - +
157C HIS* 1.3 66.6 + - - +
159C GLN* 3.5 5.8 + - - +
160C SER* 3.1 26.5 + - - -
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Residues in contact with HIS 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLY* 5.7 4.9 - - - -
57C ILE* 3.7 30.1 - - + +
58C PRO 2.9 27.8 + - - -
59C TRP* 4.1 11.1 - - + +
86C TYR* 3.3 24.8 + - + +
153C LEU* 2.8 29.0 + - + +
154C VAL 3.7 1.6 - - - +
156C SER* 1.3 79.5 - - - +
158C LEU* 1.3 64.9 + - - +
159C GLN 3.0 1.6 - - - -
160C SER* 3.1 7.7 + - - -
161C PHE* 2.9 23.4 + - - +
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Residues in contact with LEU 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ILE* 4.1 5.6 - - + +
29C GLY* 5.8 1.8 - - - -
83C LEU* 4.7 5.2 - - + -
86C TYR* 3.4 41.4 - - + -
90C LEU* 4.5 8.7 - - + -
107C LEU* 4.0 37.0 - - + -
111C VAL* 4.0 15.7 - - + -
154C VAL* 2.8 16.8 + - + +
155C ALA* 3.8 5.6 - - - +
157C HIS* 1.3 74.3 - - - +
159C GLN* 1.3 60.3 + - - +
161C PHE* 3.0 9.4 + - + +
162C LEU* 2.9 50.9 + - + +
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Residues in contact with GLN 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ILE 5.0 0.2 + - - -
26C GLN* 3.3 43.0 + - - +
29C GLY* 4.0 19.4 - - - -
30C ALA* 4.3 1.5 - - - +
33C GLN* 3.9 21.3 - - - +
155C ALA 3.1 19.4 + - - +
156C SER* 3.5 8.7 - - - +
157C HIS 3.0 0.4 - - - -
158C LEU* 1.3 83.3 - - - +
160C SER* 1.3 60.4 + - - +
162C LEU* 3.3 6.3 + - - +
163C GLU* 3.1 38.8 + - + +
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Residues in contact with SER 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C SER* 3.1 12.9 + - - -
157C HIS* 3.1 9.5 + - - -
159C GLN* 1.3 75.0 - - - +
161C PHE* 1.3 64.5 + - - +
163C GLU* 3.3 19.3 + - - +
164C VAL* 3.3 23.7 + - - +
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Residues in contact with PHE 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C ALA* 3.9 19.5 - - + +
61C PRO 4.3 12.3 - - - -
62C LEU* 4.3 21.8 - - + -
78C GLN 4.2 1.6 - - - -
79C LEU* 3.6 29.6 - - + -
82C GLY* 3.5 22.7 - - - -
83C LEU* 3.6 32.5 - - + -
86C TYR* 3.8 22.4 - + + +
157C HIS 2.9 12.9 + - - +
158C LEU* 3.2 8.7 - - + +
160C SER* 1.3 79.4 - - - +
162C LEU* 1.3 69.5 + - + +
164C VAL* 3.6 4.8 + - - +
165C SER* 3.0 30.4 + - - -
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Residues in contact with LEU 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C VAL* 3.8 25.7 - - + +
25C ILE* 3.4 38.1 - - + -
26C GLN* 3.9 28.2 - - + +
79C LEU* 5.6 0.2 - - + -
83C LEU* 4.0 27.4 - - + -
114C PHE* 4.9 3.8 - - + -
158C LEU* 2.9 27.8 + - + +
159C GLN* 4.0 5.8 - - - +
160C SER 3.3 0.2 - - - -
161C PHE* 1.3 85.1 - - + +
163C GLU* 1.3 60.5 + - - +
165C SER* 3.8 5.6 - - - -
166C TYR* 2.9 29.3 + - - +
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Residues in contact with GLU 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C GLN* 4.2 13.5 - - - +
159C GLN* 3.1 30.9 + - + +
160C SER* 3.3 14.6 + - - +
161C PHE 3.3 0.6 - - - -
162C LEU* 1.3 79.1 - - - +
164C VAL* 1.3 62.9 + - + +
166C TYR* 3.5 5.1 + - - +
167C ARG* 3.4 24.8 + - - +
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Residues in contact with VAL 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C LEU* 3.5 29.6 - - + +
160C SER* 3.3 15.7 + - - +
161C PHE* 3.9 4.3 - - - +
162C LEU 3.3 0.2 - - - -
163C GLU* 1.3 75.7 - - + +
165C SER* 1.3 66.3 + - - +
167C ARG* 3.0 17.9 + - + +
168C VAL* 3.0 20.0 + - + +
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Residues in contact with SER 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C VAL* 4.7 9.6 - - - -
62C LEU* 3.8 11.8 - - - +
79C LEU* 3.2 37.8 - - - +
161C PHE* 3.0 22.1 + - - -
162C LEU* 3.8 9.2 - - - -
163C GLU 3.4 0.2 - - - -
164C VAL* 1.3 79.3 - - - +
166C TYR* 1.3 56.8 + - - +
168C VAL* 3.7 5.8 - - - +
169C LEU* 2.9 36.5 + - - +
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Residues in contact with TYR 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 3.5 44.8 - - + +
22C VAL* 3.9 22.8 - - + +
23C ARG* 3.0 36.5 + - + -
26C GLN* 5.1 4.5 - - - +
162C LEU 2.9 18.6 + - - +
163C GLU* 3.7 7.4 - - - +
164C VAL 3.1 0.2 - - - -
165C SER* 1.3 76.5 - - - +
167C ARG* 1.3 67.1 + - - +
170C ARG* 2.7 79.2 + - - +
145D GLU* 4.3 4.3 + - - -
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Residues in contact with ARG 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C GLU 3.4 14.8 + - - +
164C VAL* 3.0 11.5 + - + +
166C TYR* 1.3 84.6 - - - +
168C VAL* 1.3 66.0 + - + +
170C ARG* 3.2 43.5 + - - +
171C HIS* 3.0 24.4 + - - +
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Residues in contact with VAL 168 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C LEU* 4.8 3.6 - - + -
65C CYS* 4.1 23.6 - - - +
66C PRO* 5.2 7.9 - - + -
75C CYS* 3.6 28.9 - - - -
79C LEU* 5.8 2.5 - - + -
164C VAL* 3.0 29.4 + - + +
165C SER* 3.7 10.3 - - - +
167C ARG* 1.3 78.8 - - + +
169C LEU* 1.3 68.3 + - + +
171C HIS* 3.2 12.9 + - - +
172C LEU* 3.2 22.4 + - + +
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Residues in contact with LEU 169 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 3.9 27.0 - - + +
18C CYS* 3.7 35.0 - - + -
19C LEU* 3.5 19.3 - - + -
22C VAL* 4.5 13.0 - - + -
75C CYS* 6.1 0.7 - - - -
76C LEU* 4.7 8.7 - - + -
79C LEU* 4.0 30.1 - - + -
114C PHE* 4.7 1.3 - - + -
165C SER 2.9 22.0 + - - +
168C VAL* 1.3 73.2 - - + +
170C ARG* 1.3 67.5 + - - +
171C HIS 2.9 1.0 + - - -
172C LEU* 3.1 23.3 + - + +
173C ALA* 3.1 13.7 + - - +
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Residues in contact with ARG 170 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 3.7 16.1 - - + +
166C TYR* 2.7 59.0 + - + +
167C ARG* 3.2 43.1 + - - +
169C LEU* 1.3 73.1 - - - +
171C HIS* 1.3 60.9 + - - +
173C ALA* 3.5 1.0 + - - +
174C GLN* 3.3 23.4 + - - -
175C PRO* 4.6 8.4 - - + +
145D GLU* 4.5 12.1 + - - -
----------------------------------------------------------
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Residues in contact with HIS 171 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C PRO* 5.5 12.6 + - + +
167C ARG 3.0 11.8 + - - +
168C VAL* 3.4 10.3 - - - +
169C LEU 3.0 0.8 - - - -
170C ARG* 1.3 73.6 - - - +
172C LEU* 1.3 82.7 + - + +
173C ALA 2.9 2.8 + - - -
174C GLN* 3.0 39.2 + - + +
----------------------------------------------------------
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Residues in contact with LEU 172 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C SER* 4.3 13.3 + - - +
10C LEU* 4.3 3.6 - - + -
12C GLN* 4.7 1.0 - - - +
15C LEU* 3.7 33.1 - - + +
65C CYS 6.1 0.2 - - - +
66C PRO* 4.6 11.4 - - + +
72C LEU* 3.6 46.4 - - + -
75C CYS* 5.3 1.3 - - - -
76C LEU* 5.4 2.5 - - + -
168C VAL* 3.7 19.7 - - + +
169C LEU* 3.1 20.0 + - + +
171C HIS* 1.3 91.4 - - + +
173C ALA* 1.3 61.2 + - - +
174C GLN* 4.7 1.2 - - - +
----------------------------------------------------------
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Residues in contact with ALA 173 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C GLN* 3.2 24.9 + - - +
15C LEU* 3.7 22.9 - - + -
16C LEU* 4.5 2.2 - - + -
19C LEU* 4.5 11.9 - - + -
169C LEU 3.1 13.6 + - - +
170C ARG 3.8 4.3 - - - +
171C HIS 2.9 2.6 + - - -
172C LEU* 1.3 79.0 - - - +
174C GLN* 1.3 74.6 + - - +
175C PRO* 4.1 12.8 - - + -
----------------------------------------------------------
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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).
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