Contacts of the helix formed by residues 155 - 182 (chain D) in PDB entry 4CNI
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 155 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A PHE* 5.6 2.2 - - - -
52A ARG* 5.7 0.2 - - - +
101A GLU* 4.6 1.8 - - - +
103A TYR 4.0 0.2 - - - +
104A TYR 3.3 22.3 + - - +
105A GLY* 3.9 4.3 - - - -
32B SER* 3.3 18.4 + - - -
91B HIS 3.0 21.5 + - - +
92B ASN 3.0 10.1 + - - -
96B TYR* 3.6 23.7 + - - +
153D ALA 3.9 0.2 + - - -
154D GLN* 1.3 75.9 - - - +
156D GLN* 1.3 63.3 + - - +
157D TRP* 3.1 14.3 + - - +
158D LEU* 3.0 35.5 + - - +
159D GLN* 3.0 19.3 + - - +
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Residues in contact with GLN 156 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ASP 4.8 3.6 - - - +
33A PHE* 3.4 60.9 - - + +
53A ASN* 4.4 8.1 + - - -
56A TYR* 3.7 23.8 + - + +
101A GLU* 4.6 1.2 + - - -
102A SER 3.7 20.8 + - - -
103A TYR* 3.4 33.8 + - + +
155D ASN* 1.3 74.2 - - - +
157D TRP* 1.3 57.7 + - - +
159D GLN* 3.3 1.8 + - - +
160D ASP* 2.9 34.2 + - - +
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Residues in contact with TRP 157 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A TYR* 3.3 41.8 + + + +
104A TYR* 3.6 34.4 + + + -
31B ILE* 4.0 17.9 - - + -
32B SER* 4.5 9.0 - - - -
50B ASN* 4.6 8.7 - - - -
48D ASN* 4.4 13.8 - - + +
51D GLU* 5.5 5.5 + - - -
54D LYS* 3.8 26.5 - - + -
57D LEU* 3.7 29.6 - - + -
155D ASN* 3.1 10.6 + - - +
156D GLN* 1.3 78.3 - - - +
158D LEU* 1.3 77.5 + - + +
160D ASP* 3.3 2.9 + - - +
161D MET* 3.1 53.1 + - + +
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Residues in contact with LEU 158 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B SER* 4.0 4.9 - - - +
92B ASN* 3.4 37.5 - - - +
57D LEU* 4.4 15.7 - - + +
58D ALA* 4.0 10.6 - - + +
154D GLN* 3.8 23.6 - - + +
155D ASN* 3.0 36.3 + - - +
157D TRP* 1.3 89.5 - - + +
159D GLN* 1.3 53.2 + - - +
161D MET* 3.4 25.9 + - + +
162D THR* 2.7 38.1 + - - -
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Residues in contact with GLN 159 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ARG* 3.8 10.1 - - - +
56A TYR* 3.6 28.4 - - - +
100D TYR* 2.7 35.9 + - - +
104D ARG* 3.7 13.7 - - - -
151D LEU 3.6 8.1 - - - +
152D GLN* 2.7 32.0 + - - +
154D GLN* 2.8 25.4 + - + +
155D ASN 3.0 18.2 + - - +
156D GLN 3.7 0.4 - - - +
157D TRP 3.2 0.2 - - - -
158D LEU* 1.3 75.2 - - - +
160D ASP* 1.3 56.0 + - - +
162D THR* 4.2 2.7 - - - -
163D THR* 2.7 39.4 + - - -
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Residues in contact with ASP 160 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A TYR* 4.3 7.5 + - - -
103A TYR* 2.7 33.4 + - - +
43D THR* 4.6 11.1 - - + +
47D SER* 2.8 31.0 + - - -
48D ASN* 3.8 14.3 - - - +
104D ARG* 4.7 9.7 + - - -
156D GLN* 2.9 15.9 + - - +
157D TRP 3.3 2.7 + - - +
159D GLN* 1.3 74.9 - - - +
161D MET* 1.3 57.8 + - - +
163D THR* 3.4 7.5 + - - -
164D HIS* 3.1 26.5 + - - +
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Residues in contact with MET 161 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48D ASN* 4.0 17.7 - - - +
51D GLU* 4.7 6.3 - - - +
54D LYS* 3.7 21.1 - - - +
55D GLU* 3.8 38.7 - - + +
57D LEU* 4.5 0.7 - - + -
58D ALA* 3.9 15.5 - - + +
157D TRP* 3.1 47.5 + - + +
158D LEU* 3.7 28.9 - - + +
159D GLN 3.2 0.2 - - - -
160D ASP* 1.3 74.4 - - - +
162D THR* 1.3 64.5 + - - +
164D HIS* 3.3 2.6 + - - +
165D LEU* 3.0 28.2 + - - +
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Residues in contact with THR 162 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58D ALA* 3.7 16.9 + - - +
62D LEU* 3.9 22.2 - - + -
100D TYR* 4.0 12.3 - - + -
151D LEU* 4.2 12.6 - - + +
154D GLN* 3.3 15.3 + - - -
158D LEU 2.7 24.4 + - - -
159D GLN* 3.4 8.5 + - - -
161D MET* 1.3 75.2 - - - +
163D THR* 1.3 63.6 + - - +
165D LEU* 3.3 6.5 + - - +
166D ILE* 3.0 46.4 + - + +
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Residues in contact with THR 163 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43D THR* 4.0 15.7 - - + +
100D TYR* 3.7 14.4 - - - -
101D LEU* 3.8 22.6 - - + +
104D ARG* 3.8 16.1 + - + +
105D PHE* 4.0 23.8 - - + -
159D GLN 2.7 22.8 + - - -
160D ASP* 3.5 9.0 + - - -
162D THR* 1.3 77.1 - - - +
164D HIS* 1.3 62.8 + - - +
166D ILE* 3.4 2.4 + - - +
167D LEU* 3.1 26.3 + - + +
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Residues in contact with HIS 164 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D ARG* 4.7 8.3 - - + -
43D THR* 4.8 3.3 - - + +
44D CYS* 4.2 4.4 - - - -
50D CYS* 3.6 53.5 + - + +
52D SER* 4.6 4.3 - - - -
55D GLU* 2.8 32.8 + - - +
160D ASP 3.1 15.4 + - - +
161D MET* 3.8 1.1 - - - +
162D THR 3.3 0.4 - - - -
163D THR* 1.3 76.2 - - - +
165D LEU* 1.3 58.5 + - - +
167D LEU* 3.4 6.9 + - + +
168D ARG* 3.0 38.9 + - + +
1185D SO4 2.9 37.1 + - - -
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Residues in contact with LEU 165 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55D GLU* 3.5 47.8 - - + +
58D ALA* 3.8 16.2 - - + -
59D GLU* 3.8 28.5 - - + +
62D LEU* 3.8 19.5 - - + -
64D LEU* 4.0 5.8 - - + -
161D MET 3.0 21.2 + - - +
162D THR 3.3 4.0 + - - +
164D HIS* 1.3 76.8 - - - +
166D ILE* 1.3 56.6 + - - +
168D ARG* 3.8 24.5 - - - +
169D SER* 3.0 34.1 + - - -
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Residues in contact with ILE 166 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62D LEU* 4.8 2.0 - - + -
64D LEU* 4.3 14.1 - - + -
94D PHE* 4.4 4.8 - - + -
97D TYR* 3.8 47.3 - - + +
98D LEU* 4.7 6.7 - - + -
100D TYR* 3.6 31.9 - - + -
101D LEU* 4.0 24.5 - - + -
151D LEU* 4.9 0.2 - - + -
162D THR* 3.0 31.8 + - + +
163D THR 3.7 3.4 - - - +
164D HIS 3.3 0.2 - - - -
165D LEU* 1.3 76.3 - - - +
167D LEU* 1.3 57.7 + - - +
169D SER* 3.9 0.7 - - - -
170D PHE* 2.9 37.0 + - + +
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Residues in contact with LEU 167 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D ILE* 3.7 24.7 - - + +
39D LEU* 3.9 23.3 - - + -
40D ARG* 3.7 32.8 - - + +
43D THR* 3.6 25.6 - - - +
101D LEU* 3.7 28.3 - - + -
105D PHE* 4.1 7.4 - - + -
163D THR* 3.1 23.5 + - + +
164D HIS* 3.8 7.0 - - + +
166D ILE* 1.3 77.3 - - - +
168D ARG* 1.3 56.9 + - - +
170D PHE* 4.0 4.1 - - + +
171D LYS* 3.0 29.7 + - - +
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Residues in contact with ARG 168 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D ARG* 6.3 2.2 - - - +
52D SER* 5.4 2.0 - - - -
55D GLU* 3.3 24.5 + - - -
59D GLU* 5.1 5.7 + - - -
164D HIS* 3.0 28.3 + - + +
165D LEU* 3.8 22.4 + - - +
167D LEU* 1.3 74.8 - - - +
169D SER* 1.3 60.9 + - - +
171D LYS* 3.3 19.9 + - - +
172D GLU* 2.9 59.6 + - - +
1185D SO4 4.1 32.5 - - - +
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Residues in contact with SER 169 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64D LEU* 3.4 33.7 - - - +
65D PRO 3.7 6.9 + - - +
66D LYS* 5.8 0.5 - - - +
94D PHE* 3.4 9.1 - - - -
165D LEU 3.0 19.5 + - - -
166D ILE 3.9 1.1 - - - -
168D ARG* 1.3 80.9 - - - +
170D PHE* 1.3 56.6 + - - +
172D GLU* 3.6 14.5 + - - +
173D PHE* 3.1 27.5 + - - +
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Residues in contact with PHE 170 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32D ILE* 3.8 7.9 - - + -
36D ILE* 3.2 32.5 - - + -
91D LEU* 3.9 22.4 - - + -
94D PHE* 3.5 44.1 - + + -
98D LEU* 3.8 26.9 - - + -
101D LEU* 6.1 0.4 - - + -
115D VAL* 4.1 3.4 - - + -
119D THR* 3.4 26.2 - - + -
166D ILE* 2.9 22.2 + - + +
167D LEU* 4.0 5.4 - - + +
169D SER* 1.3 73.1 - - - +
171D LYS* 1.3 67.0 + - - +
173D PHE* 3.2 1.8 + - + +
174D LEU* 3.0 40.9 + - + +
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Residues in contact with LYS 171 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33D LEU* 3.8 18.6 - - + +
36D ILE* 4.1 17.6 - - + +
40D ARG* 5.9 8.1 - - - +
167D LEU 3.0 18.6 + - - +
168D ARG* 3.4 21.6 - - - +
170D PHE* 1.3 75.2 - - - +
172D GLU* 1.3 67.2 + - - +
174D LEU* 3.2 3.5 + - - +
175D GLN* 2.9 62.5 + - - +
1185D SO4 3.9 20.4 + - - -
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Residues in contact with GLU 172 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168D ARG* 2.9 51.6 + - - +
169D SER* 3.8 13.7 - - - +
170D PHE 3.3 0.2 - - - -
171D LYS* 1.3 88.4 + - - +
173D PHE* 1.3 62.2 + - - +
175D GLN* 3.4 10.7 + - - +
176D SER* 3.1 27.2 + - - -
179D ARG* 5.2 0.2 + - - -
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Residues in contact with PHE 173 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65D PRO* 3.9 28.3 - - + +
66D LYS* 4.0 8.3 - - - +
67D MET* 3.8 31.4 - - + +
86D LYS* 3.7 22.9 - - - -
87D ILE* 3.7 17.7 - - - -
90D GLY* 3.6 23.1 - - - -
91D LEU* 4.0 18.2 - - + -
94D PHE* 3.7 18.6 - + + -
169D SER 3.1 17.7 + - - +
170D PHE* 3.2 5.1 + + + +
172D GLU* 1.3 77.0 - - - +
174D LEU* 1.3 58.9 + - - +
176D SER* 3.6 4.2 + - - -
177D SER* 2.8 42.6 + - - -
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Residues in contact with LEU 174 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29D ILE* 3.7 19.3 - - + +
32D ILE* 3.5 23.1 - - + -
33D LEU* 3.9 13.2 - - + -
36D ILE* 3.4 32.5 - - + -
91D LEU* 3.9 26.2 - - + -
122D LEU* 4.1 18.8 - - + -
170D PHE* 3.0 27.8 + - + +
171D LYS 3.7 3.6 - - - +
173D PHE* 1.3 77.1 - - + +
175D GLN* 1.3 59.5 + - - +
177D SER* 3.6 6.9 - - - -
178D LEU* 2.8 31.4 + - - +
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Residues in contact with GLN 175 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33D LEU* 4.2 19.4 - - + +
171D LYS* 2.9 53.8 + - - +
172D GLU* 3.8 9.9 - - - +
174D LEU* 1.3 77.3 - - - +
176D SER* 1.3 61.4 + - - +
178D LEU* 3.5 8.4 + - + +
179D ARG* 3.2 51.2 + - - +
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Residues in contact with SER 176 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67D MET* 3.7 31.6 - - - +
73D CYS* 4.7 4.6 - - - +
74D PHE* 4.4 15.7 - - - -
172D GLU 3.1 14.0 + - - -
173D PHE 3.9 1.1 - - - -
175D GLN* 1.3 76.2 - - - +
177D SER* 1.3 64.5 + - - +
179D ARG* 3.4 23.0 + - - +
180D ALA* 3.1 24.3 + - - +
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Residues in contact with SER 177 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29D ILE* 4.6 4.5 - - - -
67D MET* 3.5 14.9 - - - +
87D ILE* 3.6 34.5 - - - +
91D LEU* 5.5 0.2 - - - +
173D PHE* 2.8 31.4 + - - -
174D LEU* 3.6 11.7 - - - -
175D GLN 3.3 0.4 - - - -
176D SER* 1.3 73.9 - - - +
178D LEU* 1.3 59.9 + - - +
180D ALA* 3.2 2.3 + - - +
181D LEU* 2.9 40.7 + - - +
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Residues in contact with LEU 178 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26D ASP* 3.4 47.8 - - - +
29D ILE* 3.9 22.4 - - + +
30D ARG* 4.3 13.9 - - + -
33D LEU* 4.6 12.8 - - + -
174D LEU 2.8 18.7 + - - +
175D GLN* 3.6 7.9 - - + +
177D SER* 1.3 76.3 - - - +
179D ARG* 1.3 64.3 + - + +
181D LEU* 3.3 2.6 + - + +
182D ARG* 3.1 50.3 + - - +
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Residues in contact with ARG 179 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73D CYS 5.7 1.1 - - - +
175D GLN* 3.2 33.0 + - - +
176D SER* 3.4 38.4 + - - +
177D SER 3.3 0.2 - - - -
178D LEU* 1.3 80.2 - - + +
180D ALA* 1.3 62.5 + - - +
182D ARG* 3.4 20.1 + - - +
183D GLN* 3.8 11.0 + - - +
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Residues in contact with ALA 180 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73D CYS* 3.4 26.9 + - + +
78D PHE* 3.6 8.9 - - + -
83D CYS* 3.6 27.6 - - - -
87D ILE* 4.5 1.8 - - + -
176D SER 3.1 15.2 + - - +
177D SER 3.7 3.8 - - - +
179D ARG* 1.3 78.2 - - - +
181D LEU* 1.3 58.3 + - - +
183D GLN* 3.1 24.7 + - - +
184D MET* 3.5 12.9 - - + +
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Residues in contact with LEU 181 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22D SER* 5.0 8.5 + - - -
25D ILE* 3.8 18.6 - - + -
26D ASP* 6.5 0.4 - - - -
29D ILE* 3.6 25.4 - - + -
84D LEU* 4.1 8.7 - - + -
87D ILE* 3.8 19.3 - - + -
126D LEU* 3.9 25.6 - - + -
129D LYS* 4.2 10.6 + - + -
177D SER* 2.9 23.3 + - - +
178D LEU* 3.3 4.9 + - - +
180D ALA* 1.3 74.4 - - - +
182D ARG* 1.3 60.3 + - - +
184D MET* 3.2 49.2 + - + +
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Residues in contact with ARG 182 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26D ASP* 2.7 39.6 + - - +
30D ARG* 3.9 15.8 - - - +
178D LEU* 3.1 31.4 + - - +
179D ARG* 3.6 13.5 - - - +
180D ALA 3.2 0.4 - - - -
181D LEU* 1.3 78.4 - - + +
183D GLN* 1.3 58.0 + - + +
184D MET 3.3 3.0 + - - -
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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