Contacts of the helix formed by residues 45 - 72 (chain C) 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 GLU 45 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C PHE 4.9 0.4 - - - -
38C ASP* 6.3 0.4 - - - +
43C ALA 3.8 3.2 + - - -
44C LEU* 1.3 74.1 - - - +
46C GLY* 1.3 58.0 + - - +
48C CYS* 3.3 9.2 + - - +
49C HIS* 2.8 36.2 + - + +
167C GLU* 3.5 6.7 + - - +
168C ARG* 4.2 6.4 + - - +
172C LYS* 3.1 36.1 + - + +
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Residues in contact with GLY 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C GLU* 1.3 72.7 - - - +
47C VAL* 1.3 55.7 + - - +
49C HIS* 3.3 9.0 - - - +
50C PHE* 2.9 27.0 + - - +
167C GLU* 2.8 25.7 + - - -
171C LEU* 3.9 27.4 - - - +
172C LYS* 4.9 4.9 - - - +
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Residues in contact with VAL 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C PHE* 3.5 35.7 - - + -
44C LEU* 3.0 21.4 + - + +
46C GLY* 1.3 74.1 - - - +
48C CYS* 1.3 67.1 + - - +
50C PHE* 3.0 5.1 + - + +
51C PHE* 3.0 40.9 + - + -
92C THR* 3.9 26.9 - - + +
96C MET* 5.6 1.1 - - + -
166C PHE* 5.5 0.2 - - + -
167C GLU* 4.1 8.7 - - + -
171C LEU* 3.7 23.8 - - + -
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Residues in contact with CYS 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C GLY* 3.3 29.8 - - - +
35C PHE* 5.2 1.6 - - - -
37C PHE* 3.7 15.1 - - + +
38C ASP* 4.2 15.3 - - + +
44C LEU 3.0 12.4 + - - +
45C GLU* 3.5 11.7 - - - +
47C VAL* 1.3 75.2 - - - +
49C HIS* 1.3 70.6 + - - +
51C PHE 3.3 0.3 + - - -
52C ARG* 2.9 46.0 + - - +
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Residues in contact with HIS 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C GLU* 2.8 20.3 + - + +
46C GLY* 3.3 13.7 - - - +
48C CYS* 1.3 83.5 - - - +
50C PHE* 1.3 63.2 + - - +
52C ARG* 3.2 9.1 + - + +
53C GLU* 3.0 60.2 + - + +
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Residues in contact with PHE 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C GLY 2.9 17.0 + - - +
47C VAL* 3.0 10.5 + - - +
49C HIS* 1.3 73.0 - - - +
51C PHE* 1.3 90.5 + + - +
53C GLU* 3.4 11.5 + - - +
54C LEU* 3.2 38.9 + - + +
96C MET* 3.5 29.4 - - + -
140C LEU* 4.9 1.8 - - + -
143C LYS* 4.1 22.2 - - + -
144C MET* 4.2 16.6 - - + -
147C HIS* 3.8 30.1 - + - -
171C LEU* 4.5 13.5 - - + -
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Residues in contact with PHE 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 3.5 34.5 - + + +
33C LEU* 3.8 15.7 - - + -
34C GLY* 3.6 20.9 - - - +
37C PHE* 4.2 5.8 - + - -
47C VAL* 3.0 41.4 + - + +
50C PHE* 1.3 103.9 - + - +
52C ARG* 1.3 62.5 + - - +
54C LEU* 3.1 7.2 + - + +
55C ALA 2.9 18.5 + - - -
95C ALA* 3.8 33.9 - - + -
96C MET* 4.2 9.9 - - + -
99C ALA* 3.8 20.6 - - + -
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Residues in contact with ARG 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR 5.0 0.9 - - - -
31C LEU* 4.8 12.4 - - - +
34C GLY* 4.0 8.7 - - - -
35C PHE* 3.4 50.2 - - - -
48C CYS* 2.9 34.8 + - - +
49C HIS* 3.7 9.9 - - + +
51C PHE* 1.3 76.4 - - - +
53C GLU* 1.3 62.5 + - + +
55C ALA* 3.1 18.1 + - - +
56C GLU* 3.1 12.5 + - - +
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Residues in contact with GLU 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C HIS* 3.0 51.3 + - + +
50C PHE* 3.8 8.4 + - - +
52C ARG* 1.3 74.0 - - - +
54C LEU* 1.3 63.0 + - + +
56C GLU* 3.2 9.6 + - - +
57C GLU* 3.0 30.0 + - - +
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Residues in contact with LEU 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 3.8 27.8 - - + -
50C PHE* 3.2 32.6 + - + +
51C PHE* 3.1 10.8 + - + +
53C GLU* 1.3 73.9 - - + +
55C ALA* 1.3 66.3 + - - +
57C GLU* 3.2 17.9 + - - +
58C LYS* 2.9 33.8 + - - +
140C LEU* 3.6 35.0 - - + -
143C LYS* 5.9 0.7 - - - +
144C MET* 3.6 26.5 - - + -
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Residues in contact with ALA 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C SER* 3.0 41.7 + - - +
30C TYR* 3.7 11.6 - - + +
31C LEU* 3.9 18.8 - - + +
51C PHE 2.9 12.3 + - - +
52C ARG* 3.1 13.4 + - - +
54C LEU* 1.3 76.8 - - - +
56C GLU* 1.3 63.0 + - - +
58C LYS 3.2 0.5 + - - -
59C ARG* 3.1 9.1 + - - +
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Residues in contact with GLU 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C ARG 3.1 9.3 + - - +
53C GLU* 3.5 11.2 - - - +
55C ALA* 1.3 76.3 - - - +
57C GLU* 1.3 64.7 + - + +
59C ARG* 3.0 36.9 + - - +
60C GLU* 2.9 40.3 + - - +
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Residues in contact with GLU 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR* 5.4 0.5 - - - -
53C GLU* 3.0 19.1 + - - +
54C LEU* 3.2 26.2 + - + +
56C GLU* 1.3 78.2 - - + +
58C LYS* 1.3 62.6 + - + +
60C GLU* 3.3 14.5 + - - +
61C GLY* 3.0 23.9 + - - -
136C GLU* 4.2 27.7 - - - +
140C LEU* 4.8 7.4 - - - +
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Residues in contact with LYS 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR* 3.5 41.9 - - + +
26C ALA* 4.0 10.8 - - + -
27C SER* 3.8 9.4 - - - +
30C TYR* 4.1 10.5 - - + -
54C LEU* 2.9 27.2 + - - +
55C ALA 3.9 1.6 - - - +
57C GLU* 1.3 73.2 + - - +
59C ARG* 1.3 66.5 + - - +
61C GLY 3.1 1.0 + - - -
62C ALA* 3.0 19.6 + - - +
103C GLU* 2.9 41.1 + - - -
106C LEU* 3.7 19.1 - - + +
136C GLU* 4.7 9.5 + - - -
137C GLU* 3.3 16.0 + - - -
140C LEU* 4.1 11.7 - - - +
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Residues in contact with ARG 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU* 4.6 10.9 - - + +
27C SER* 3.5 18.7 + - - +
55C ALA 3.1 7.6 + - - +
56C GLU* 3.0 42.7 + - - +
58C LYS* 1.3 75.5 - - - +
60C GLU* 1.3 86.3 + - - +
62C ALA* 3.4 6.7 + - - +
63C GLU* 2.9 52.8 + - + +
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Residues in contact with GLU 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLU* 2.9 32.8 + - - +
57C GLU* 3.6 14.5 - - - +
59C ARG* 1.3 102.4 + - - +
61C GLY* 1.3 65.2 + - - +
63C GLU* 3.1 8.5 + - - +
64C ARG* 3.0 25.3 + - - +
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Residues in contact with GLY 61 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR* 3.9 13.0 - - - -
57C GLU 3.0 15.5 + - - -
58C LYS 3.1 3.7 + - - -
60C GLU* 1.3 74.0 - - - +
62C ALA* 1.3 60.9 + - - +
64C ARG* 3.3 6.8 + - - +
65C LEU* 3.1 20.8 + - - +
133C PHE* 3.5 25.7 - - - -
136C GLU* 6.0 1.8 - - - -
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Residues in contact with ALA 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL* 4.1 14.3 - - + +
23C TYR* 3.8 20.9 - - + +
24C LEU* 3.4 33.7 - - + -
58C LYS 3.0 7.5 + - - +
59C ARG 3.6 4.7 - - - +
61C GLY* 1.3 75.8 - - - +
63C GLU* 1.3 61.8 + - + +
65C LEU* 3.4 9.3 + - - +
66C LEU* 3.0 26.7 + - + +
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Residues in contact with GLU 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU* 6.2 0.9 - - + -
59C ARG* 2.9 52.0 + - + +
60C GLU* 3.1 9.7 + - - +
62C ALA* 1.3 76.0 - - + +
64C ARG* 1.3 57.8 + - - +
66C LEU* 3.3 14.5 + - + +
67C LYS* 2.9 31.7 + - - +
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Residues in contact with ARG 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C GLU* 3.0 12.8 + - - +
61C GLY* 3.5 11.5 - - - +
63C GLU* 1.3 76.3 - - - +
65C LEU* 1.3 61.1 + - - +
67C LYS* 3.4 10.5 + - + +
68C MET* 3.2 22.0 + - - +
128C PHE* 3.7 13.5 - - + -
132C HIS* 3.3 56.8 + - - +
133C PHE* 3.8 11.4 - - + -
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Residues in contact with LEU 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C VAL* 4.0 15.6 - - + +
19C LEU* 3.9 47.1 - - + -
20C VAL* 3.8 11.9 - - + +
23C TYR* 4.2 14.4 - - + -
61C GLY 3.1 17.1 + - - +
62C ALA* 3.4 8.7 + - - +
64C ARG* 1.3 75.8 - - - +
66C LEU* 1.3 61.7 + - - +
68C MET* 3.2 14.6 + - + +
69C GLN* 2.9 23.2 + - - +
113C LEU* 5.1 0.2 - - + -
128C PHE* 3.7 24.7 - - + -
129C LEU* 4.7 5.2 - - + -
133C PHE* 3.8 14.4 - - + -
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Residues in contact with LEU 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ASN* 5.0 2.7 - - - +
20C VAL* 3.6 33.0 - - + -
24C LEU* 5.2 3.4 - - + -
62C ALA* 3.0 22.4 + - + +
63C GLU* 3.3 17.0 + - + +
65C LEU* 1.3 74.4 - - - +
67C LYS* 1.3 62.6 + - - +
69C GLN* 3.4 8.2 - - + +
70C ASN* 3.3 24.8 + - - +
76C ALA* 4.1 18.2 - - + -
78C PHE* 3.9 34.8 - - + -
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Residues in contact with LYS 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A LYS* 5.6 3.9 - - - +
63C GLU 2.9 17.5 + - - +
64C ARG* 3.7 8.7 - - + +
66C LEU* 1.3 77.3 - - - +
68C MET* 1.3 55.1 + - - +
70C ASN* 3.5 10.1 + - - +
71C GLN* 3.0 46.8 + - + +
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Residues in contact with MET 68 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C TYR* 4.1 10.8 - - - -
16C VAL* 3.9 20.0 - - + -
64C ARG 3.2 13.4 + - - +
65C LEU* 3.2 13.0 + - + +
67C LYS* 1.3 70.8 - - - +
69C GLN* 1.3 59.0 + - - +
71C GLN* 2.8 31.1 + - - +
72C ARG* 2.9 38.3 + - + +
124C HIS* 4.5 12.3 - - + -
125C LEU* 3.7 25.1 - - + -
128C PHE* 3.5 51.8 - - + -
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Residues in contact with GLN 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C TYR* 2.7 42.9 + - - -
13C GLU* 3.2 16.7 + - - +
16C VAL* 3.8 13.1 - - + +
17C ASN* 3.0 36.6 + - - +
65C LEU 2.9 12.7 + - - +
66C LEU* 3.4 15.5 - - + +
68C MET* 1.3 75.8 - - - +
70C ASN* 1.3 64.2 + - - +
72C ARG* 3.3 1.7 + - - +
73C GLY 3.2 3.1 + - - -
74C GLY* 2.8 37.7 + - - -
75C ARG 3.8 6.7 + - - -
76C ALA* 3.9 17.3 - - + +
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Residues in contact with ASN 70 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LYS* 3.3 26.0 - - - +
4C ILE* 3.9 4.7 - - - +
66C LEU 3.3 9.9 + - - +
67C LYS* 3.6 11.8 - - - +
69C GLN* 1.3 84.3 - - - +
71C GLN* 1.3 60.6 + - - +
72C ARG 3.5 0.2 + - - -
73C GLY* 3.6 7.6 + - - -
74C GLY 3.9 13.4 - - - +
75C ARG* 4.4 11.6 + - - +
76C ALA* 5.1 7.9 + - - +
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Residues in contact with GLN 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ASP* 4.5 4.2 + - - -
138A VAL* 3.9 30.2 - - + +
139A LYS* 3.4 42.0 + - - +
142A LYS* 3.5 24.9 - - + +
4C ILE* 3.4 14.7 - - - +
67C LYS* 3.0 33.3 + - + +
68C MET* 2.8 19.8 + - - +
70C ASN* 1.3 73.1 - - - +
72C ARG* 1.3 60.7 + - + +
124C HIS* 5.0 4.8 - - + -
128C PHE* 6.2 1.4 - - - -
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Residues in contact with ARG 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A ASN* 5.8 0.8 + - - -
138A VAL* 4.0 21.2 - - + +
4C ILE* 4.4 2.1 - - - +
5C ARG* 3.3 27.0 - - - +
6C GLN 2.8 28.3 + - - +
7C ASN* 3.1 17.2 + - - +
8C TYR* 3.6 41.8 - - + +
68C MET* 2.9 33.3 + - + +
69C GLN 3.9 0.4 - - - +
71C GLN* 1.3 77.6 - - + +
73C GLY* 1.3 58.4 + - - +
74C GLY 3.5 0.4 - - - -
122C ASP* 2.7 38.5 + - - -
124C HIS* 3.6 33.0 + - + +
125C LEU* 5.2 1.2 - - - +
----------------------------------------------------------
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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