Contacts of the helix formed by residues 30 - 60 (chain C) in PDB entry 1S0V
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 30 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C PHE* 5.5 6.2 - - + -
25C ALA* 4.4 19.9 - - + +
29C GLY* 1.3 75.7 - - - -
31C ARG* 1.3 54.2 + - - +
32C LEU 3.4 1.1 - - - -
33C ALA* 4.1 1.1 - - - +
34C ARG* 2.6 57.4 + - - +
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Residues in contact with ARG 31 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C GLY* 6.0 0.2 - - - -
30C GLU* 1.3 80.5 - - - +
32C LEU* 1.3 86.0 + - + +
34C ARG* 3.1 19.0 + - - +
35C GLU* 2.9 29.0 + - + +
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Residues in contact with LEU 32 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 3.8 25.6 - - + +
29C GLY* 4.7 0.4 - - - -
30C GLU 3.4 0.8 - - - +
31C ARG* 1.3 107.2 - - + +
33C ALA* 1.3 54.5 + - - +
35C GLU* 3.0 22.4 + - - +
36C GLN* 2.6 37.6 + - - +
272C VAL* 3.9 28.5 - - + +
273C VAL* 4.1 11.9 - - + +
411C HIS* 5.6 1.3 - - + -
415C TRP* 6.5 0.2 - - + -
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Residues in contact with ALA 33 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C PHE* 4.4 10.1 - - + -
24C LEU* 3.4 32.7 + - + +
25C ALA* 3.6 8.5 - - - +
28C TYR 5.4 0.2 - - - -
29C GLY 3.5 18.4 + - - +
30C GLU* 3.5 4.0 + - - +
31C ARG 3.3 0.4 - - - -
32C LEU* 1.3 73.2 - - - +
34C ARG* 1.3 68.0 + - - +
35C GLU 2.9 2.8 + - - -
36C GLN* 3.1 9.8 + - - +
37C LEU* 3.1 28.1 + - + +
273C VAL* 4.7 2.4 - - - +
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Residues in contact with ARG 34 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C LEU* 3.7 30.4 - - + +
21C PHE* 5.3 6.1 - - + -
30C GLU* 2.6 40.6 + - - +
31C ARG* 3.2 15.6 - - - +
33C ALA* 1.3 72.4 - - - +
35C GLU* 1.3 54.5 + - - +
37C LEU* 4.9 2.0 - - - -
38C ALA* 3.2 24.6 + - + +
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Residues in contact with GLU 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C ARG* 2.9 14.6 + - + +
32C LEU* 3.2 20.1 - - - +
33C ALA 2.9 1.0 - - - -
34C ARG* 1.3 74.3 - - - +
36C GLN* 1.3 52.8 + - - +
37C LEU 2.8 4.5 - - - -
38C ALA* 2.7 9.2 + - + +
39C LEU* 2.6 47.0 + - + +
272C VAL* 3.2 29.3 - - + +
411C HIS* 2.5 35.7 + - - -
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Residues in contact with GLN 36 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU* 3.7 15.3 - - + -
32C LEU 2.6 16.4 + - - +
33C ALA 3.1 5.4 + - - +
35C GLU* 1.3 71.8 - - - +
37C LEU* 1.3 58.2 + - + +
39C LEU* 3.3 11.5 - - - +
40C GLU* 3.3 34.2 + - - +
270C PRO 4.4 0.2 - - - +
271C CYS* 3.3 23.1 - - - +
272C VAL* 3.3 23.5 + - + +
273C VAL* 3.2 50.1 + - + +
286C TYR* 5.4 0.5 - - - -
287C TRP* 3.5 18.3 - - - +
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Residues in contact with LEU 37 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ILE* 4.5 17.1 - - + +
15C GLU 4.3 8.7 - - - +
16C LEU* 3.6 23.9 - - + +
19C ILE* 4.8 3.4 - - + -
21C PHE* 3.6 43.7 - - + -
24C LEU* 3.7 24.9 - - + -
33C ALA 3.1 15.4 + - - +
34C ARG 4.1 0.4 - - - +
35C GLU 2.7 1.4 + - - -
36C GLN* 1.3 83.2 - - + +
38C ALA* 1.3 57.7 + - - +
39C LEU 3.0 1.3 - - - -
40C GLU* 3.8 5.5 - - - +
41C HIS* 2.8 28.6 + - - +
287C TRP* 4.4 14.6 - - + -
288C ALA* 4.6 8.5 - - + +
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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
----------------------------------------------------------
16C LEU* 3.5 27.8 - - + +
34C ARG* 3.2 20.3 + - + +
35C GLU* 2.7 13.5 + - + +
37C LEU* 1.3 71.3 - - - +
39C LEU* 1.3 60.4 + - - +
41C HIS* 3.5 2.3 - - - +
42C GLU* 2.9 28.4 + - - +
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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 GLU* 2.6 24.9 + - + +
36C GLN* 3.3 12.6 - - - +
38C ALA* 1.3 75.7 - - - +
40C GLU* 1.4 56.8 + - - +
42C GLU* 2.8 26.5 + - + +
43C SER* 3.0 15.0 + - - -
269C GLN* 4.3 23.4 - - + +
270C PRO 2.9 30.3 - - - +
272C VAL* 3.5 30.3 - - + -
286C TYR* 6.1 0.7 - - + -
407C LYS* 4.8 9.6 - - - +
408C PHE* 4.3 13.7 - - + -
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Residues in contact with GLU 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ILE* 4.7 3.4 - - + +
36C GLN* 3.3 27.5 + - - +
37C LEU* 3.5 5.5 + - - +
39C LEU* 1.4 74.8 - - - +
41C HIS* 1.3 68.6 + - - +
43C SER* 3.5 8.8 + - - -
44C TYR* 3.3 35.0 + - + -
268C PHE* 6.1 1.8 - - + -
286C TYR* 2.6 48.3 - - + +
287C TRP* 2.8 10.1 + - - -
288C ALA* 2.6 51.0 + - + +
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Residues in contact with HIS 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C PHE* 4.0 34.4 + - + +
12C SER* 4.7 6.3 - - - -
14C ILE* 4.5 12.1 + - - +
16C LEU* 3.0 28.9 - - + +
37C LEU 2.8 19.0 + - - +
38C ALA 3.5 4.9 - - - +
39C LEU 3.1 0.2 - - - -
40C GLU* 1.3 81.5 - - - +
42C GLU* 1.3 64.3 + - - +
44C TYR* 3.0 12.9 + - - +
45C GLU* 3.3 42.0 + - + +
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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 2.9 13.5 + - - +
39C LEU* 2.8 11.8 + - + +
41C HIS* 1.3 73.8 - - - +
43C SER* 1.3 66.7 + - - +
45C GLU* 3.1 19.4 + - + +
46C MET* 2.9 61.0 + - + +
269C GLN* 4.4 1.6 - - - +
407C LYS* 3.0 28.8 + - - +
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Residues in contact with SER 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C LEU 3.0 11.0 + - - -
40C GLU* 3.8 14.2 - - - -
41C HIS 3.2 0.4 - - - -
42C GLU* 1.3 75.4 - - - +
44C TYR* 1.3 66.6 + - - +
46C MET* 3.1 9.3 + - - +
47C GLY 2.8 24.9 + - - -
266C PRO* 4.5 1.8 - - - -
267C MET 2.6 36.5 + - - -
268C PHE* 4.3 4.5 - - - -
269C GLN* 3.1 24.1 + - - +
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Residues in contact with TYR 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C PHE* 3.5 41.6 - + + -
14C ILE* 4.7 12.1 - - + -
40C GLU* 3.3 25.8 - - + +
41C HIS* 3.0 9.5 + - - +
43C SER* 1.3 77.3 - - - +
45C GLU* 1.3 66.8 + - - +
47C GLY* 3.2 0.7 + - - +
48C GLU* 2.9 23.2 + - - +
263C GLY 4.6 10.3 - - - -
265C SER 4.9 0.2 - - - +
266C PRO* 3.2 33.1 - - + +
268C PHE* 4.5 9.5 - + - -
290C GLY* 4.1 11.3 - - - -
291C ARG* 3.9 20.6 - - + -
292C ARG* 3.3 38.1 + - + +
294C LEU* 5.4 0.5 - - - +
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Residues in contact with GLU 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C ALA* 4.7 11.7 - - + +
11C PHE* 4.5 10.3 - - + +
41C HIS* 3.3 39.7 + - + +
42C GLU* 3.1 19.7 + - + +
44C TYR* 1.3 78.0 - - - +
46C MET* 1.3 57.9 + - + +
48C GLU* 3.0 21.8 - - - +
49C ALA* 2.8 26.3 + - - +
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Residues in contact with MET 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C GLU* 2.9 65.7 + - + +
43C SER* 3.5 7.6 - - - +
45C GLU* 1.3 76.1 - - + +
47C GLY* 1.3 60.6 + - - +
48C GLU 3.0 1.3 - - - -
49C ALA* 3.7 7.9 - - + +
50C ARG* 2.8 29.5 + - - +
267C MET* 3.7 22.0 - - + +
269C GLN* 3.0 23.1 - - + +
407C LYS* 5.3 0.9 - - - -
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Residues in contact with GLY 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C SER 2.8 14.8 + - - -
44C TYR 3.2 1.5 + - - -
46C MET* 1.3 76.8 - - - +
48C GLU* 1.3 63.0 + - - +
50C ARG* 3.3 9.8 + - - +
51C PHE* 3.2 14.6 + - - +
262C ALA 3.7 6.8 - - - +
265C SER* 2.6 32.3 - - - +
267C MET* 3.6 13.4 - - - +
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Residues in contact with GLU 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ASN* 3.1 13.3 - - - +
6C ILE* 3.5 6.6 + - + +
7C ALA* 3.1 40.0 + - - +
11C PHE* 3.5 17.9 - - + -
44C TYR 2.9 13.0 + - - +
45C GLU* 3.0 22.3 - - - +
47C GLY* 1.3 73.8 - - - +
49C ALA* 1.3 59.6 + - - +
50C ARG 2.9 1.3 - - - -
51C PHE* 2.7 28.1 + - - +
52C ARG* 3.1 18.8 + - + +
262C ALA* 3.4 23.6 + - + +
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Residues in contact with ALA 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 19.1 + - - +
46C MET* 3.7 9.2 - - + +
48C GLU* 1.3 75.7 - - - +
50C ARG* 1.3 62.8 + - - +
52C ARG* 3.1 11.5 + - - +
53C LYS* 3.1 25.3 + - - +
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Residues in contact with ARG 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C MET 2.8 17.7 + - - +
47C GLY* 3.3 18.1 + - - +
49C ALA* 1.3 77.2 - - - +
51C PHE* 1.3 65.2 + - + +
53C LYS* 3.8 4.0 + - - +
54C MET* 3.4 24.9 + - + +
265C SER* 3.8 21.7 + - - -
266C PRO 5.5 2.6 + - - -
267C MET* 3.2 37.3 - - - +
15K C 4.3 16.6 + - - -
16K C 3.2 35.4 + - - -
17K G 5.8 3.1 - - - -
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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
----------------------------------------------------------
3C THR* 5.8 1.3 - - + -
47C GLY 3.2 5.3 + - - +
48C GLU 2.7 14.9 + - - +
50C ARG* 1.3 77.4 - - + +
52C ARG* 1.3 58.5 + - + +
54C MET* 3.5 30.6 - - + -
55C PHE* 2.8 57.5 + + + +
67C ASN* 4.4 8.7 - - - -
258C ALA* 3.5 22.0 - - + -
261C LEU* 3.4 33.7 - - + -
262C ALA* 3.5 36.3 - - + +
265C SER* 5.8 7.0 - - - -
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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
----------------------------------------------------------
2C ASN* 5.1 1.6 - - - +
3C THR* 2.6 65.3 + - - +
4C ILE 4.3 0.6 + - - -
5C ASN* 4.0 21.4 + - - +
48C GLU* 3.1 21.6 + - + +
49C ALA* 3.1 16.5 + - - +
51C PHE* 1.3 74.7 - - - +
53C LYS* 1.3 60.8 + - - +
54C MET 3.0 1.1 - - - -
55C PHE* 3.1 6.6 + - - +
56C GLU* 2.8 31.9 + - - +
262C ALA* 5.8 3.6 - - + -
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Residues in contact with LYS 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C ALA 3.1 11.8 + - - +
50C ARG* 4.3 5.2 - - - +
52C ARG* 1.3 78.7 - - - +
54C MET* 1.3 61.1 + - - +
56C GLU* 2.9 34.7 - - - +
57C ARG* 3.3 40.3 + - - +
17K G 4.7 8.0 + - - -
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Residues in contact with MET 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C ARG* 3.4 18.9 + - + +
51C PHE* 3.5 38.8 - - + +
52C ARG 3.0 0.4 - - - -
53C LYS* 1.3 81.0 - - + +
55C PHE* 1.3 55.6 + - - +
57C ARG* 3.7 9.2 + - - +
58C GLN* 2.5 57.2 + - - +
67C ASN* 4.7 3.8 - - - +
17K G 5.1 11.9 - - - +
18K C 6.0 1.8 - - - +
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Residues in contact with PHE 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2C ASN 6.1 1.1 - - - -
3C THR* 4.1 19.1 - - + -
51C PHE* 2.8 35.8 + + + +
52C ARG* 3.1 9.4 + - - +
54C MET* 1.3 76.5 - - - +
56C GLU* 1.3 64.4 + - - +
58C GLN* 2.7 26.0 + - - +
59C LEU* 3.0 46.2 + - + +
64C VAL* 4.9 1.1 - - + -
67C ASN* 3.1 40.6 - - - -
69C ALA* 3.8 5.8 - - + -
254C ILE* 4.4 11.4 - - + -
255C ALA* 5.8 1.3 - - - -
258C ALA* 3.7 24.9 - - + -
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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 2.8 17.0 + - - +
53C LYS* 2.9 34.0 - - - +
55C PHE* 1.3 78.3 - - - +
57C ARG* 1.3 84.4 + - - +
59C LEU* 3.0 6.6 + - - +
60C LYS* 2.8 43.2 + - + +
----------------------------------------------------------
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Residues in contact with ARG 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C LYS* 3.3 34.0 + - - +
54C MET* 4.2 8.8 - - - +
55C PHE 3.3 0.2 - - - -
56C GLU* 1.3 100.0 + - - +
58C GLN* 1.3 66.9 + - - +
60C LYS* 3.1 33.6 + - - +
61C ALA* 3.3 15.8 + - - +
63C GLU* 4.4 3.4 - - - +
17K G 3.1 32.3 + - - -
18K C 3.5 41.0 + - - +
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Residues in contact with GLN 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C MET* 2.5 43.4 + - - +
55C PHE* 2.7 15.8 + - - +
57C ARG* 1.3 83.6 - - - +
59C LEU* 1.3 62.4 + - + -
62C GLY 3.6 0.5 + - - -
63C GLU* 2.9 58.2 + - - +
64C VAL 3.3 4.3 + - - -
66C ASP* 3.3 25.3 - - - +
67C ASN* 3.7 17.6 + - + +
18K C 5.0 14.7 + - - -
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Residues in contact with LEU 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2C ASN 5.9 4.9 - - - +
55C PHE* 3.0 52.4 + - + +
56C GLU* 3.9 4.7 - - - +
58C GLN* 1.3 78.2 - - + +
60C LYS* 1.3 55.3 + - - +
61C ALA 2.7 16.9 + - - -
62C GLY 3.1 8.7 + - - -
64C VAL* 3.1 40.2 - - + -
127C THR* 3.6 31.0 + - + +
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Residues in contact with LYS 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLU* 2.8 33.7 + - + +
57C ARG* 3.1 24.3 + - - +
59C LEU* 1.3 77.8 - - - +
61C ALA* 1.3 65.1 + - - +
18K C 5.7 1.8 + - - -
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il