Contacts of the helix formed by residues 2 - 33 (chain C) in PDB entry 1CE0
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 LEU 2 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A LEU* 3.6 29.6 - - + +
3A LEU* 3.1 53.4 - - + +
6A ILE* 3.9 10.0 - - + +
2B LEU* 3.4 35.1 - - + +
6B ILE* 5.7 3.4 - - + -
1C ARG* 1.3 73.8 - - - +
3C LEU* 1.3 60.3 + - - +
5C ARG* 4.1 8.9 - - - +
6C ILE* 3.4 23.4 + - + +
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Residues in contact with LEU 3 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B ARG* 3.0 40.6 - - - +
2B LEU* 3.2 31.0 - - + -
5B ARG* 4.4 1.9 + - - -
1C ARG* 3.6 31.4 - - + +
2C LEU* 1.3 78.8 - - - +
4C GLN* 1.3 62.9 + - - +
6C ILE* 3.5 7.1 + - - +
7C LYS* 3.2 22.3 + - - +
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Residues in contact with GLN 4 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1C ARG* 3.0 43.6 - - + +
3C LEU* 1.3 72.9 - - - +
5C ARG* 1.3 59.6 + - + +
7C LYS* 3.4 6.8 + - - +
8C GLN* 2.9 33.7 + - - +
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Residues in contact with ARG 5 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A LEU* 3.2 28.1 + - - +
6A ILE* 3.2 35.6 - - + +
7A LYS* 3.8 16.6 - - - +
10A GLU* 2.9 38.8 + - - +
1C ARG* 2.9 33.5 + - + +
2C LEU* 4.5 1.3 - - - +
4C GLN* 1.3 77.7 - - + +
6C ILE* 1.3 56.3 + - - +
8C GLN* 3.1 16.7 - - - +
9C GLN* 2.9 30.5 + - - +
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Residues in contact with ILE 6 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ILE* 3.5 8.2 - - + +
2B LEU* 5.0 7.6 - - + +
5B ARG* 2.9 45.8 - - + +
6B ILE* 3.5 39.9 - - + +
9B GLN* 3.9 20.0 - - + -
2C LEU* 3.4 15.2 + - + +
3C LEU* 3.6 7.6 - - - +
4C GLN 3.2 0.4 - - - -
5C ARG* 1.3 75.7 - - - +
7C LYS* 1.3 59.3 + - - +
8C GLN 3.1 1.8 - - - -
9C GLN* 3.2 8.2 + - + +
10C GLU* 2.8 44.9 + - - +
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Residues in contact with LYS 7 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ARG* 4.0 13.9 - - - +
3C LEU 3.2 13.2 + - - +
4C GLN* 3.8 7.6 - - - +
6C ILE* 1.3 81.0 - - - +
8C GLN* 1.3 57.7 + - - +
10C GLU* 3.4 16.8 + - + +
11C ASP* 3.0 64.1 + - - +
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Residues in contact with GLN 8 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A GLU* 4.9 3.8 - - - +
4C GLN* 2.9 18.7 + - - +
5C ARG* 3.1 20.4 - - - +
7C LYS* 1.3 75.7 - - - +
9C GLN* 1.3 60.1 + - - +
11C ASP* 3.4 7.3 + - - +
12C LYS* 2.9 34.7 + - + +
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Residues in contact with GLN 9 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ILE* 4.8 5.4 - - + -
9A GLN* 3.1 33.6 + - + +
10A GLU* 3.5 43.1 - - + +
13A LEU* 3.2 36.1 - - - +
9B GLN* 4.1 7.6 - - + +
5C ARG 2.9 17.7 + - - +
6C ILE* 3.2 13.7 + - + +
8C GLN* 1.3 73.1 - - - +
10C GLU* 1.3 57.2 + - - +
12C LYS* 3.3 13.1 + - - +
13C LEU* 2.8 36.0 + - - +
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Residues in contact with GLU 10 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ARG* 3.2 55.2 + - - +
8B GLN* 5.1 3.6 - - - +
9B GLN* 3.3 36.6 + - + +
6C ILE* 2.8 19.2 + - - +
7C LYS* 3.4 16.8 - - - +
9C GLN* 1.3 77.1 - - - +
11C ASP* 1.3 65.6 + - - +
13C LEU* 3.4 2.9 + - - +
14C GLU* 3.0 28.4 + - + +
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Residues in contact with ASP 11 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C LYS* 3.0 57.1 + - - +
8C GLN* 3.6 6.7 - - - +
10C GLU* 1.3 75.6 - - - +
12C LYS* 1.3 68.0 + - - +
14C GLU* 3.1 8.5 + - - +
15C GLU* 3.0 23.2 + - - +
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Residues in contact with LYS 12 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A GLU 5.4 0.7 - - - -
13A LEU* 3.4 27.8 - - + -
14A GLU* 2.5 33.3 + - - -
17A LEU* 3.8 21.9 - - + +
8C GLN* 2.9 21.8 + - + +
9C GLN* 3.4 17.3 - - - +
11C ASP* 1.3 77.9 - - - +
13C LEU* 1.3 56.6 + - - +
15C GLU* 3.2 7.5 + - - +
16C THR* 2.9 31.6 + - - +
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Residues in contact with LEU 13 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A GLN* 4.7 2.7 - - - +
13A LEU* 3.8 24.1 - - + +
9B GLN* 3.0 32.5 - - - +
12B LYS* 3.3 36.1 - - + -
13B LEU* 4.0 9.6 - - + +
16B THR* 3.6 29.4 - - + +
9C GLN* 2.8 20.6 + - - +
10C GLU 3.6 3.8 - - - +
12C LYS* 1.3 73.8 - - - +
14C GLU* 1.3 59.8 + - - +
16C THR* 3.2 4.2 + - - -
17C LEU* 2.9 29.8 + - + +
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Residues in contact with GLU 14 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B LYS* 5.3 3.5 + - - +
10C GLU* 3.0 17.4 + - + +
11C ASP* 3.1 12.5 + - - +
13C LEU* 1.3 75.3 - - - +
15C GLU* 1.3 62.9 + - - +
17C LEU* 3.2 24.8 + - - +
18C SER* 3.0 21.1 + - - -
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Residues in contact with GLU 15 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C ASP 3.0 11.7 + - - +
12C LYS* 3.6 10.1 - - - +
14C GLU* 1.3 77.1 - - - +
16C THR* 1.3 58.0 + - - +
18C SER* 3.1 16.2 + - - -
19C LYS* 2.9 55.3 + - - +
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Residues in contact with THR 16 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 3.9 9.7 - - + +
16A THR* 4.2 22.2 - - + -
17A LEU* 3.4 26.6 - - + +
20A ILE* 4.3 5.8 - - + -
16B THR* 4.2 6.3 - - + -
12C LYS* 2.9 22.2 + - - +
13C LEU* 3.4 13.5 - - - -
15C GLU* 1.3 76.5 - - - +
17C LEU* 1.3 57.8 + - - +
19C LYS* 3.2 13.3 + - - +
20C ILE* 2.9 42.8 + - + +
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Residues in contact with LEU 17 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B LYS* 3.4 39.7 - - + +
16B THR* 3.3 29.4 - - + +
19B LYS* 4.1 28.5 - - + -
13C LEU* 2.9 17.3 + - + +
14C GLU* 3.2 28.7 + - - +
16C THR* 1.3 73.8 - - - +
18C SER* 1.3 60.0 + - - +
20C ILE* 3.7 5.9 - - + +
21C TYR* 3.0 26.9 + - - +
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Residues in contact with SER 18 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C GLU 3.0 11.8 + - - -
15C GLU* 3.1 25.6 + - - -
17C LEU* 1.3 74.2 - - - +
19C LYS* 1.3 65.6 + - - +
21C TYR* 3.3 13.5 + - - +
22C HIS* 3.2 22.0 + - - +
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Residues in contact with LYS 19 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LEU* 4.7 12.8 - - + -
20A ILE* 4.0 26.0 - - + -
24A GLU* 4.0 17.4 - - - +
15C GLU* 2.9 49.6 + - - +
16C THR* 3.3 15.5 - - - +
18C SER* 1.3 78.2 - - - +
20C ILE* 1.3 57.5 + - - +
22C HIS* 3.2 9.4 + - - +
23C LEU* 3.0 32.5 + - - +
----------------------------------------------------------
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Residues in contact with ILE 20 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A ILE* 3.4 20.9 - - + -
16B THR* 3.3 36.8 - - + +
19B LYS* 4.0 19.1 - - + -
20B ILE* 3.7 16.2 - - + -
23B LEU* 4.0 13.4 - - + +
16C THR* 2.9 27.3 + - + +
17C LEU* 3.7 10.5 - - + +
18C SER 3.3 0.2 - - - -
19C LYS* 1.3 73.2 - - - +
21C TYR* 1.3 60.5 + - - +
23C LEU* 3.2 9.0 + - - +
24C GLU* 2.8 46.8 + - - +
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Residues in contact with TYR 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C LEU 3.0 18.1 + - - +
18C SER* 3.5 14.6 - - - +
19C LYS 3.2 0.2 - - - -
20C ILE* 1.3 75.1 - - - +
22C HIS* 1.3 84.2 + - + +
24C GLU* 3.2 26.2 + - - +
25C ASN* 3.2 41.4 + - - +
----------------------------------------------------------
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Residues in contact with HIS 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A GLU* 6.0 2.0 - - + -
18C SER 3.2 9.6 + - - +
19C LYS* 3.2 10.5 + - - +
21C TYR* 1.3 92.4 - - + +
23C LEU* 1.3 65.8 + - + +
25C ASN* 3.2 14.0 + - + +
26C GLU* 3.0 58.1 + - + +
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Residues in contact with LEU 23 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A ILE* 4.1 23.6 - - + -
23A LEU* 4.1 25.8 - - + -
24A GLU* 3.6 35.7 - - + +
27A ILE* 3.5 24.2 - - + -
23B LEU* 4.0 9.9 - - + -
19C LYS 3.0 17.2 + - - +
20C ILE* 3.6 8.7 - - - +
22C HIS* 1.3 84.4 - - + +
24C GLU* 1.3 66.6 + - - +
26C GLU* 3.2 8.0 + - + +
27C ILE* 3.0 30.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 24 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LYS* 4.0 21.8 + - - +
22B HIS* 5.4 7.4 + - + +
23B LEU* 3.7 26.0 - - + +
20C ILE* 2.8 27.6 + - - +
21C TYR* 3.3 21.8 - - - +
23C LEU* 1.3 75.7 - - - +
25C ASN* 1.3 61.6 + - - +
27C ILE* 4.1 1.6 - - - +
28C ALA* 3.0 30.9 + - - +
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Residues in contact with ASN 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C TYR* 3.3 53.5 + - - +
22C HIS* 3.2 13.1 + - + +
23C LEU 3.2 0.4 - - - -
24C GLU* 1.3 77.2 - - - +
26C GLU* 1.3 65.8 + - + +
28C ALA* 3.3 6.1 + - - +
29C ARG* 3.0 24.4 + - - +
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Residues in contact with GLU 26 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A ILE* 4.1 17.7 - - + +
31A LYS* 3.1 35.3 + - + +
22C HIS* 3.0 48.8 + - + +
23C LEU* 3.2 14.3 + - + +
25C ASN* 1.3 78.2 - - - +
27C ILE* 1.3 56.4 + - - +
29C ARG* 3.2 18.9 + - - +
30C VAL* 2.9 31.5 + - - +
----------------------------------------------------------
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Residues in contact with ILE 27 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A LEU* 5.0 1.1 - - + -
27A ILE* 3.6 35.4 - - + -
23B LEU* 3.6 43.3 - - + +
26B GLU* 3.6 32.8 - - + +
27B ILE* 4.1 9.0 - - + +
30B VAL* 4.7 5.2 - - + -
23C LEU 3.0 21.7 + - - +
24C GLU 4.1 2.7 - - - +
26C GLU* 1.3 72.4 - - - +
28C ALA* 1.3 60.2 + - - +
30C VAL* 3.7 7.8 - - + +
31C LYS* 2.8 35.3 + - + +
----------------------------------------------------------
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Residues in contact with ALA 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLU 3.0 19.6 + - - +
25C ASN* 3.6 7.0 - - - +
27C ILE* 1.3 77.3 - - - +
29C ARG* 1.3 58.6 + - - +
31C LYS* 3.4 11.1 + - - +
32C LYS* 3.0 29.1 + - - +
----------------------------------------------------------
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Residues in contact with ARG 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LYS* 3.2 38.8 - - - +
32A LYS* 3.7 17.9 - - - +
34A LEU* 5.8 0.4 - - - +
25C ASN 3.0 13.9 + - - +
26C GLU* 3.4 20.3 + - - +
28C ALA* 1.3 74.7 - - - +
30C VAL* 1.3 63.1 + - - +
32C LYS* 3.3 7.9 + - + +
33C LEU* 2.9 58.9 + - + +
----------------------------------------------------------
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Residues in contact with VAL 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A ILE* 4.8 4.7 - - + -
30A VAL* 4.0 9.4 - - + -
31A LYS* 3.2 43.3 - - + -
34A LEU* 4.8 6.3 - - + -
27B ILE* 6.1 1.8 - - + -
30B VAL* 3.6 34.1 - - + -
26C GLU 2.9 18.5 + - - +
27C ILE* 3.7 10.3 - - + +
29C ARG* 1.3 80.3 - - - +
31C LYS* 1.3 59.1 + - - +
33C LEU* 3.3 6.7 + - + +
34C LEU* 3.0 39.6 + - + +
----------------------------------------------------------
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Residues in contact with LYS 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B GLU* 2.8 32.1 + - - +
29B ARG* 5.0 12.6 - - + +
30B VAL* 3.4 28.3 - - + -
33B LEU* 5.4 4.5 - - + +
27C ILE* 2.8 19.9 + - + +
28C ALA* 3.6 11.0 - - - +
30C VAL* 1.3 78.3 - - - +
32C LYS* 1.3 61.6 + - - +
34C LEU* 3.3 5.9 + - - +
35C GLY* 3.1 21.3 + - - -
----------------------------------------------------------
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Residues in contact with LYS 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ALA 3.0 17.6 + - - +
29C ARG* 3.3 7.8 + - + +
31C LYS* 1.3 76.1 - - - +
33C LEU* 1.3 64.4 + - - +
35C GLY* 3.1 14.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LYS* 5.5 4.3 - - - +
34A LEU* 5.3 14.8 - - + +
29C ARG* 2.9 43.1 + - + +
30C VAL* 3.4 12.8 - - + +
31C LYS 3.2 0.2 - - - -
32C LYS* 1.3 78.7 - - - +
34C LEU* 1.3 67.2 + - + +
35C GLY* 3.2 1.4 + - - -
----------------------------------------------------------
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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