Contacts of the helix formed by residues 18 - 48 (chain C) in PDB entry 4J4L
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 18 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLY* 1.3 73.3 - - - -
19C LEU* 1.3 63.0 + - - +
21C SER* 3.4 4.3 + - - -
22C SER* 3.0 33.0 + - - -
129C LYS* 5.7 2.6 + - - -
55D GLU* 6.5 0.4 - - - -
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Residues in contact with LEU 19 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A GLN* 4.5 10.5 - - - +
82A ILE* 3.2 37.2 - - + -
102A TYR* 4.2 20.4 - - + -
103A LEU 4.0 16.4 - - - +
104A ALA* 4.0 20.2 - - + +
124A TYR* 5.0 7.6 - - + +
126A THR* 5.4 1.8 - - - +
18C SER* 1.3 77.9 - - - +
20C THR* 1.3 67.4 + - - +
22C SER* 4.3 5.2 - - - +
23C GLU* 3.0 54.4 + - + +
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Residues in contact with THR 20 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A TYR* 4.1 11.3 - - - +
125A LEU 5.4 1.2 + - - -
126A THR* 4.6 4.0 + - - -
148A GLU* 2.7 36.3 + - - +
150A GLN* 3.3 22.9 + - + +
172A TYR* 3.4 36.1 - - + +
17C GLY* 4.0 7.8 - - - +
18C SER 3.3 1.6 - - - +
19C LEU* 1.3 80.5 - - - +
21C SER* 1.3 58.6 + - - +
24C ARG* 2.8 27.1 + - + +
52D SER* 4.8 4.3 - - - -
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Residues in contact with SER 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLY 2.9 22.0 + - - -
18C SER* 3.4 5.8 + - - -
19C LEU 3.3 0.2 - - - -
20C THR* 1.3 79.1 - - - +
22C SER* 1.3 58.2 + - - +
24C ARG* 3.4 8.0 + - - +
25C ILE* 3.1 39.2 + - - +
129C LYS* 6.5 0.9 - - - -
52D SER* 3.0 15.6 + - - -
53D SER* 3.3 19.0 - - - -
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Residues in contact with SER 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C SER 3.0 19.3 + - - -
19C LEU* 3.9 7.9 - - - +
21C SER* 1.3 76.9 - - - +
23C GLU* 1.3 62.5 + - - +
25C ILE* 3.2 11.7 + - - +
26C ASP* 2.9 29.5 + - - +
129C LYS* 5.3 10.6 + - - +
181C LEU* 4.4 13.5 + - - +
182C ARG* 5.7 1.2 - - - -
184C MET 5.7 1.4 + - - -
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Residues in contact with GLU 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ILE* 4.7 7.4 - - - +
84A ASN* 2.9 37.9 + - - +
104A ALA* 3.7 14.1 - - + +
126A THR* 3.7 22.4 - - + +
150A GLN* 3.5 16.6 - - - +
152A TRP* 3.5 4.4 - - + -
19C LEU* 3.0 42.1 + - + +
22C SER* 1.3 76.7 + - - +
24C ARG* 1.3 57.6 + - - +
26C ASP* 3.3 10.3 + - - +
27C LYS* 2.9 30.8 + - - +
30C ARG* 4.9 0.3 + - - -
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Residues in contact with ARG 24 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A GLN* 3.4 6.1 - - - +
152A TRP* 3.7 13.0 - - + -
172A TYR* 3.3 27.0 + - - -
174A ASN* 3.5 21.5 - - - +
177A PHE* 5.9 1.4 - - - -
196A GLU* 4.3 7.7 + - - -
198A ASP* 3.0 30.2 + - - +
220A ASP* 5.3 0.6 + - - -
222A ARG* 4.1 22.4 - - - +
20C THR* 2.8 21.9 + - + +
21C SER* 3.7 8.4 - - - +
22C SER 3.2 0.4 - - - -
23C GLU* 1.3 73.8 - - - +
25C ILE* 1.3 57.6 + - + +
27C LYS* 3.6 2.9 + - - +
28C GLN* 3.1 27.9 + - - +
125C PHE* 3.8 44.1 - - + -
52D SER* 4.6 3.8 + - - -
53D SER* 6.1 2.8 - - - -
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Residues in contact with ILE 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C SER* 3.1 23.0 + - - +
22C SER* 3.2 10.1 + - - +
24C ARG* 1.3 73.2 - - - +
26C ASP* 1.3 68.7 + - - +
28C GLN* 2.9 16.6 + - - +
29C ILE* 3.0 16.7 + - + +
122C LEU* 4.2 14.6 - - + -
125C PHE* 3.8 33.7 - - + +
126C LEU* 4.2 11.9 - - + -
129C LYS* 4.2 26.2 - - + -
181C LEU* 4.0 31.6 - - + -
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Residues in contact with ASP 26 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ASN* 6.3 0.2 - - - -
85A ASN* 3.5 5.5 - - - +
22C SER 2.9 17.1 + - - +
23C GLU* 3.5 14.9 - - - +
25C ILE* 1.3 77.2 - - - +
27C LYS* 1.3 65.2 + - - +
29C ILE* 3.3 3.5 + - - +
30C ARG* 2.9 44.2 + - - +
178C LEU* 3.5 15.1 - - + +
181C LEU* 6.5 0.9 - - - -
182C ARG* 2.5 57.0 + - - +
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Residues in contact with LYS 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A GLU* 3.0 21.7 + - - +
152A TRP* 3.5 37.4 - - + +
154A ASN* 6.0 0.2 + - - -
177A PHE* 3.6 52.9 - - + +
23C GLU 2.9 18.2 + - - +
24C ARG 3.7 4.0 - - - +
26C ASP* 1.3 78.6 - - - +
28C GLN* 1.3 59.5 + - - +
30C ARG* 3.4 26.2 + - + +
31C TYR* 3.1 23.7 + - - +
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Residues in contact with GLN 28 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A PHE* 3.3 27.5 - - - -
201A TYR* 2.9 27.3 + - - -
224A TYR* 5.0 0.6 + - - -
24C ARG* 3.1 16.9 + - - +
25C ILE* 2.9 7.5 + - - +
27C LYS* 1.3 74.0 - - - +
29C ILE* 1.3 64.8 + - - +
31C TYR* 3.4 6.6 + - - +
32C ILE* 3.2 27.3 + - - +
118C SER* 3.2 30.0 - - - +
121C VAL* 3.7 8.4 - - - +
122C LEU* 4.2 13.7 - - + -
125C PHE* 4.1 28.1 - - + -
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Residues in contact with ILE 29 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ILE* 3.0 19.8 + - + +
26C ASP 3.6 7.0 - - - +
28C GLN* 1.3 76.9 - - - +
30C ARG* 1.3 64.0 + - - +
32C ILE* 3.2 10.1 + - - +
33C LEU* 3.0 38.2 + - + +
87C ILE* 6.4 0.2 - - + -
122C LEU* 3.9 24.9 - - + -
126C LEU* 5.9 0.4 - - + -
174C LEU* 4.1 19.3 - - + -
177C SER* 4.6 6.7 - - - -
178C LEU* 4.2 33.0 - - + +
181C LEU* 3.8 29.2 - - + -
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Residues in contact with ARG 30 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ASN* 4.1 6.1 - - - +
85A ASN* 3.3 31.5 + - - +
128A GLU* 2.8 39.0 + - - -
152A TRP* 4.7 0.4 - - - -
23C GLU 4.9 0.2 + - - -
26C ASP* 2.9 35.4 + - - +
27C LYS* 3.5 36.2 - - + +
28C GLN 3.3 0.2 - - - -
29C ILE* 1.3 77.3 - - - +
31C TYR* 1.3 61.7 + - - +
33C LEU* 3.2 11.9 + - + +
34C ASP* 3.0 30.2 + - - +
178C LEU* 4.1 15.0 - - + -
182C ARG* 3.9 6.3 - - - +
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Residues in contact with TYR 31 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A PHE* 3.4 30.5 - + + -
201A TYR* 3.4 41.3 - + + -
225A GLN* 4.5 5.0 + - - +
27C LYS* 3.1 17.0 + - - +
28C GLN* 3.5 9.9 - - - +
29C ILE 3.2 0.2 - - - -
30C ARG* 1.3 78.8 - - - +
32C ILE* 1.3 63.7 + - - +
34C ASP* 3.5 14.4 + - + +
35C GLY* 3.2 18.4 + - - -
114C ALA* 3.7 23.8 - - + +
115C VAL* 5.9 1.8 - - + -
118C SER* 3.5 20.4 - - - -
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Residues in contact with ILE 32 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C GLN 3.2 19.6 + - - +
29C ILE* 3.6 6.7 - - - +
31C TYR* 1.3 73.8 - - - +
33C LEU* 1.3 59.3 + - - +
35C GLY* 2.9 2.8 + - - +
36C ILE* 2.9 34.8 + - + +
115C VAL* 4.1 19.8 - - + +
118C SER* 3.5 45.3 - - - +
119C THR* 4.1 6.3 - - - +
122C LEU* 3.8 25.4 - - + -
170C PHE* 4.1 12.1 - - + -
174C LEU* 3.8 23.3 - - + -
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Residues in contact with LEU 33 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ILE* 3.0 35.2 + - + +
30C ARG* 3.2 12.5 + - + +
32C ILE* 1.3 75.3 - - - +
34C ASP* 1.3 65.5 + - - +
36C ILE* 3.2 13.4 + - + +
37C SER* 3.0 23.0 + - - -
171C LYS* 4.2 21.6 - - + +
174C LEU* 3.6 28.9 - - + -
175C GLN* 4.2 23.3 - - + +
178C LEU* 4.6 12.6 - - + -
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Residues in contact with ASP 34 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C ARG* 3.0 19.5 + - - +
31C TYR* 3.6 16.7 - - + +
33C LEU* 1.3 76.2 - - - +
35C GLY* 1.3 62.3 + - - +
37C SER* 3.3 15.9 + - - -
38C ALA* 3.3 11.8 + - - +
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Residues in contact with GLY 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C TYR* 3.2 8.2 + - - -
32C ILE 2.9 7.7 + - - -
34C ASP* 1.3 77.0 - - - +
36C ILE* 1.3 56.4 + - - +
38C ALA* 2.7 29.6 + - - +
39C LEU* 3.1 15.2 + - - +
111C GLN* 4.7 10.0 - - - +
115C VAL* 4.0 17.0 - - - -
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Residues in contact with ILE 36 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ILE* 2.9 19.3 + - + +
33C LEU* 3.6 15.0 - - + +
35C GLY* 1.3 74.5 - - - +
37C SER* 1.3 63.7 + - - +
39C LEU* 3.3 11.1 + - + +
40C ARG* 2.9 27.0 + - - +
115C VAL* 4.0 8.4 - - + +
167C LEU* 4.0 34.4 - - + +
170C PHE* 3.5 35.0 - - + -
171C LYS* 4.2 19.5 - - + +
174C LEU* 3.7 21.5 - - + -
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Residues in contact with SER 37 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU 3.0 12.5 + - - -
34C ASP* 3.5 12.7 + - - -
35C GLY 3.0 1.0 - - - -
36C ILE* 1.3 78.6 - - - +
38C ALA* 1.3 61.9 + - - +
40C ARG* 3.4 11.1 - - - +
41C LYS* 3.1 22.2 + - - +
171C LYS* 6.6 0.9 - - - +
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Residues in contact with ALA 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ASP 3.3 7.8 + - - +
35C GLY* 2.7 12.3 + - - +
37C SER* 1.3 81.2 - - - +
39C LEU* 1.3 60.1 + - - +
41C LYS* 3.3 18.5 + - - +
42C GLU* 3.1 21.5 + - - +
108C SER* 4.0 7.3 + - - -
111C GLN* 4.4 26.2 - - + +
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Residues in contact with LEU 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C GLY 3.1 12.9 + - - +
36C ILE* 3.8 8.7 - - - +
38C ALA* 1.3 72.7 - - - +
40C ARG* 1.3 65.4 + - - +
42C GLU 3.4 0.3 + - - -
43C THR* 2.9 21.7 + - - -
101C LEU* 4.6 9.0 - - + -
105C PHE* 3.4 33.7 - - + -
108C SER* 3.2 37.5 - - - +
111C GLN* 4.2 4.7 - - + -
112C ALA* 3.7 30.1 - - + +
115C VAL* 4.8 12.6 - - + -
167C LEU* 3.8 25.8 - - + -
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Residues in contact with ARG 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C ILE* 2.9 20.9 + - + +
37C SER* 3.4 10.3 - - - +
39C LEU* 1.3 75.5 - - - +
41C LYS* 1.3 66.4 + - - +
43C THR* 2.9 16.0 + - - +
44C CYS* 3.0 24.9 + - - -
50C CYS* 3.8 16.5 - - - +
164C HIS* 3.8 24.4 + - - +
167C LEU* 3.6 21.8 + - + +
168C ARG* 3.1 45.9 - - - +
171C LYS* 4.5 20.1 - - - +
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Residues in contact with LYS 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C SER 3.1 9.1 + - - +
38C ALA* 3.5 20.3 + - - +
40C ARG* 1.3 80.0 - - - +
42C GLU* 1.3 63.9 + - - +
44C CYS* 3.7 2.7 + - - -
45C ASN* 3.1 41.2 + - - +
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Residues in contact with GLU 42 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ALA 3.1 7.5 + - - +
39C LEU 3.8 2.7 - - - +
41C LYS* 1.3 80.8 - - - +
43C THR* 1.3 63.6 + - - +
45C ASN* 3.5 13.4 - - - +
46C LYS* 3.7 12.7 - - + +
104C ARG 5.7 0.4 - - - +
105C PHE* 3.4 16.0 - - + -
106C GLU* 2.7 33.1 + - - +
107C SER* 2.7 32.5 + - - +
108C SER* 2.9 30.6 + - - +
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Residues in contact with THR 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C LEU 2.9 15.1 + - - +
40C ARG* 2.9 14.2 + - + +
42C GLU* 1.3 75.8 - - - +
44C CYS* 1.3 69.9 + - + +
45C ASN 3.0 3.8 - - - -
46C LYS* 2.8 24.1 + - - +
47C SER* 3.1 15.6 + - - +
104C ARG 5.4 1.6 + - - -
105C PHE* 4.0 10.9 - - - -
160C ASP* 4.8 12.6 + - - +
163C THR* 3.6 21.3 - - + +
164C HIS* 4.9 13.0 - - + -
167C LEU* 4.3 13.0 - - + -
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Residues in contact with CYS 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C ARG* 3.0 30.9 + - - -
41C LYS* 4.1 2.0 - - - -
43C THR* 1.3 82.9 - - + +
45C ASN* 1.3 57.4 + - - +
46C LYS 3.0 4.5 - - - -
47C SER* 3.3 16.6 - - - +
48C ASN* 2.9 30.5 + - - -
49C MET* 3.5 10.5 - - + +
50C CYS* 2.1 50.9 - - - +
164C HIS* 5.3 1.1 - - + -
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Residues in contact with ASN 45 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C LYS* 3.1 35.0 + - - +
42C GLU* 3.5 11.2 - - - +
43C THR 3.0 0.2 - - - -
44C CYS* 1.3 78.4 - - - +
46C LYS* 1.3 60.8 + - + +
48C ASN* 5.8 0.7 - - - -
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Residues in contact with LYS 46 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C GLU* 3.7 18.4 - - + +
43C THR* 2.8 7.4 + - - +
45C ASN* 1.3 84.2 - - + +
47C SER* 1.3 61.9 + - - +
48C ASN 3.6 0.7 - - - -
106C GLU* 6.0 6.0 - - - +
160C ASP* 5.0 9.2 - - - +
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Residues in contact with SER 47 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C THR* 3.1 12.4 + - - +
44C CYS* 3.3 13.0 - - - +
46C LYS* 1.3 79.6 - - - +
48C ASN* 1.3 70.4 + - - +
49C MET* 3.1 46.7 + - - +
160C ASP* 4.2 19.8 + - - -
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Residues in contact with ASN 48 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C CYS* 2.9 26.1 + - - -
45C ASN 5.8 0.8 - - - -
46C LYS 3.6 0.8 - - - -
47C SER* 1.3 78.3 + - - +
49C MET* 1.3 61.4 + - - +
50C CYS* 3.4 12.5 + - - +
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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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