Contacts of the helix formed by residues 43 - 74 (chain M) in PDB entry 6CP3
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 ILE 43 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36M GLY 4.1 15.3 - - - +
37M VAL* 4.4 1.3 - - - -
40M ASN* 3.3 35.0 - - + +
41M PRO 3.2 2.0 - - - -
42M SER* 1.3 82.6 - - - +
44M LYS* 1.3 67.0 + - - +
45M ASP 3.5 1.6 - - - -
46M THR* 2.9 33.8 + - + +
47M VAL* 3.0 38.5 + - + -
37N VAL 3.3 27.1 - - - +
38N SER* 3.8 9.0 - - - -
41N PRO* 3.8 24.5 - - + -
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Residues in contact with LYS 44 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46L THR* 3.5 32.8 + - - +
50L MET* 3.9 30.7 - - + +
37M VAL* 4.3 16.6 - - + -
41M PRO 4.0 8.6 + - - +
42M SER 3.6 1.4 - - - -
43M ILE* 1.3 77.6 - - - +
45M ASP* 1.3 72.8 + - - +
47M VAL* 2.9 10.4 + - - -
48M PHE* 2.7 40.0 + - + +
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Residues in contact with ASP 45 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43M ILE 3.5 0.2 - - - -
44M LYS* 1.3 92.9 - - - +
46M THR* 1.3 59.0 + - - +
48M PHE* 5.0 4.6 - - - +
49M PRO* 3.3 23.8 - - - +
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Residues in contact with THR 46 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42M SER 4.8 2.8 + - - -
43M ILE* 2.9 31.8 + - + +
45M ASP* 1.3 80.9 - - - +
47M VAL* 1.3 67.0 + - + +
49M PRO* 3.9 6.3 - - - +
50M MET* 3.4 31.2 - - + +
37N VAL* 4.5 1.8 - - + -
41N PRO* 6.1 0.2 - - - +
44N LYS* 3.4 37.9 + - - +
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Residues in contact with VAL 47 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33M LEU* 3.8 20.0 - - + +
36M GLY* 5.3 1.1 - - - -
37M VAL* 5.6 1.8 - - + +
43M ILE* 3.0 36.5 + - + +
44M LYS* 2.9 8.2 + - - +
46M THR* 1.3 80.0 - - + +
48M PHE* 1.3 59.7 + - - +
49M PRO 3.3 2.2 - - - -
50M MET* 2.7 14.3 + - + -
51M ALA* 2.4 37.8 + - + +
34N ILE* 4.4 21.8 - - + +
37N VAL* 3.7 30.5 - - + -
38N SER 5.2 0.7 - - - +
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Residues in contact with PHE 48 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50L MET* 3.7 42.6 - - + -
53L LEU* 5.1 15.5 - - + -
30M PHE* 6.2 2.7 - + - -
33M LEU* 4.4 11.7 - - + -
44M LYS* 2.7 27.8 + - + +
45M ASP* 5.0 4.0 - - - -
47M VAL* 1.3 70.4 - - - +
49M PRO* 1.3 70.6 - - + +
51M ALA* 4.5 4.9 - - - -
52M ILE* 3.5 38.4 + - + +
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Residues in contact with PRO 49 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45M ASP* 3.3 28.9 - - - +
46M THR 3.9 4.3 - - - +
47M VAL 3.8 1.8 - - - -
48M PHE* 1.3 95.2 - - + +
50M MET* 1.3 54.3 + - + +
52M ILE* 3.0 12.2 + - + +
53M LEU* 2.8 33.2 + - - +
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Residues in contact with MET 50 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46M THR* 3.4 38.6 - - + +
47M VAL* 2.7 23.6 + - + +
49M PRO* 1.3 78.0 - - + +
51M ALA* 1.3 50.3 + - - +
53M LEU* 2.8 15.8 - - + +
54M GLY* 2.5 32.6 + - - -
30N PHE* 5.2 1.9 - - - -
33N LEU* 4.3 22.4 - - + -
34N ILE* 6.1 2.2 - - + -
37N VAL* 4.1 14.8 - - + -
44N LYS* 5.3 9.9 - - + -
48N PHE* 4.2 28.9 - - + -
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Residues in contact with ALA 51 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29M VAL* 3.7 15.0 - - + +
30M PHE* 5.6 3.6 - - + -
33M LEU* 3.9 27.4 - - + -
47M VAL* 2.4 26.2 + - - +
48M PHE* 4.5 1.6 - - - -
50M MET* 1.3 71.5 - - - +
52M ILE* 1.3 50.4 + - - +
54M GLY* 2.9 5.0 + - - +
55M PHE* 2.6 31.0 + - - +
30N PHE* 6.4 0.4 - - - -
34N ILE* 3.8 28.0 - - + +
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Residues in contact with ILE 52 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53L LEU* 4.9 14.1 - - + -
57L LEU* 4.9 12.6 - - + -
30M PHE* 5.3 8.3 - - + -
48M PHE* 3.5 29.3 + - + +
49M PRO* 3.0 20.5 + - + +
51M ALA* 1.3 74.8 - - - +
53M LEU* 1.3 64.5 + - - +
55M PHE* 2.9 38.5 - - + +
56M ALA* 3.2 8.0 + - - +
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Residues in contact with LEU 53 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49M PRO 2.8 13.8 + - - +
50M MET* 2.8 19.1 - - + +
52M ILE* 1.3 75.7 - - - +
54M GLY* 1.3 56.1 + - - +
56M ALA* 3.0 23.4 + - + +
57M LEU* 3.2 28.5 + - + +
30N PHE* 4.1 21.1 - - + -
48N PHE* 4.9 19.5 - - + -
52N ILE* 5.6 5.8 - - + -
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Residues in contact with GLY 54 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26M ILE* 5.2 0.2 - - - +
29M VAL* 4.2 13.4 - - - +
50M MET 2.5 17.3 + - - -
51M ALA* 2.9 8.9 + - - -
53M LEU* 1.3 69.0 - - - +
55M PHE* 1.3 60.9 + - - +
57M LEU* 3.7 10.5 - - - -
58M SER* 2.9 26.0 + - - -
30N PHE* 4.0 23.6 - - - -
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Residues in contact with PHE 55 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57L LEU* 3.3 54.5 - - + -
61L THR* 6.1 0.4 - - + -
26M ILE* 3.6 24.1 - - + +
29M VAL* 5.2 3.1 - - - -
30M PHE* 3.9 25.8 - + + -
51M ALA 2.6 10.3 + - - +
52M ILE* 2.9 29.8 + - + +
54M GLY* 1.3 74.9 - - - +
56M ALA* 1.3 72.1 + - + +
58M SER* 3.0 14.5 + - - -
59M GLU* 3.1 43.0 + - + +
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Residues in contact with ALA 56 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52M ILE 3.2 5.8 + - - +
53M LEU* 3.0 11.8 + - + +
55M PHE* 1.3 89.5 - - + +
57M LEU* 1.3 59.5 + - - +
58M SER 3.0 2.6 + - - -
59M GLU* 3.0 9.0 + - - +
60M ALA* 3.0 33.1 + - - +
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Residues in contact with LEU 57 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53M LEU* 3.2 38.8 + - + +
54M GLY* 3.7 10.1 - - - +
56M ALA* 1.3 76.4 - - - +
58M SER* 1.3 65.9 + - - +
60M ALA* 4.5 6.8 - - - +
61M THR* 3.6 15.6 + - - +
30N PHE* 3.6 33.7 - - + -
52N ILE* 5.2 8.7 - - + -
55N PHE* 3.5 46.8 - - + -
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Residues in contact with SER 58 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22M ALA* 6.1 0.2 - - - -
26M ILE* 3.7 15.9 - - - -
54M GLY 2.9 18.0 + - - -
55M PHE 3.0 11.5 + - - -
56M ALA 3.0 0.8 + - - -
57M LEU* 1.3 82.8 - - - +
59M GLU* 1.3 57.1 + - - -
61M THR* 2.3 39.5 + - - +
23N GLY 4.6 4.3 - - - -
26N ILE* 3.8 14.1 - - - +
27N ALA* 4.0 25.7 + - - +
30N PHE* 4.5 2.6 - - - -
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Residues in contact with GLU 59 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61L THR* 5.0 8.9 - - + +
22M ALA* 4.6 12.8 - - + +
26M ILE* 3.7 28.9 - - + -
55M PHE* 3.1 39.8 + - + +
56M ALA* 3.0 13.3 + - - +
58M SER* 1.3 75.7 - - - +
60M ALA* 1.3 63.3 + - - +
61M THR 3.1 0.2 - - - -
62M GLY* 3.0 7.9 + - - +
63M LEU* 2.8 64.5 + - - +
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Residues in contact with ALA 60 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56M ALA 3.0 18.2 + - - +
57M LEU* 4.7 6.3 - - - +
58M SER 3.2 0.2 + - - -
59M GLU* 1.3 76.0 - - - +
61M THR* 1.3 54.7 + - + +
63M LEU* 3.0 21.2 + - + +
64M PHE* 2.8 47.8 + - + -
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Residues in contact with THR 61 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21M GLY 5.6 1.2 + - - -
22M ALA* 6.0 0.5 - - - -
57M LEU 3.6 13.0 - - - +
58M SER 2.3 27.2 + - - +
59M GLU* 4.5 0.2 - - - -
60M ALA* 1.3 75.4 - - + +
62M GLY* 1.3 63.3 + - - +
64M PHE* 2.9 39.1 - - + +
65M CYS 3.4 0.3 + - - -
19N LEU* 3.4 20.4 - - - +
23N GLY* 3.8 21.3 + - - -
26N ILE* 3.9 2.7 - - + -
55N PHE* 5.6 0.2 - - + -
59N GLU* 3.3 39.0 - - - +
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Residues in contact with GLY 62 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18M GLY 4.6 5.8 - - - -
19M LEU* 4.7 7.1 + - - -
21M GLY 5.5 0.2 - - - -
22M ALA* 4.5 19.2 - - - +
59M GLU* 3.0 9.0 + - - +
61M THR* 1.3 83.1 + - - +
63M LEU* 1.3 61.6 + - - +
65M CYS* 3.0 18.9 + - - +
66M LEU* 3.4 11.7 + - - +
19N LEU* 3.8 13.2 - - - +
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Residues in contact with LEU 63 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61L THR* 6.2 1.8 - - + -
64L PHE* 5.0 14.6 - - + -
59M GLU* 2.8 48.1 + - - +
60M ALA* 3.0 20.2 + - + +
62M GLY* 1.3 75.9 - - - +
64M PHE* 1.4 61.4 + - + +
66M LEU* 3.1 25.5 + - + +
67M MET* 2.9 24.8 + - - +
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Residues in contact with PHE 64 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60M ALA* 2.8 22.5 + - + -
61M THR* 2.9 32.3 - - + +
63M LEU* 1.4 74.6 - - + +
65M CYS* 1.3 54.9 + - - +
67M MET* 3.1 21.8 + - + +
68M VAL* 2.9 34.1 + - - +
19N LEU* 4.7 2.7 - - + -
59N GLU* 5.0 2.7 - - - -
63N LEU* 4.4 19.5 - - + -
66N LEU* 3.8 32.1 - - + -
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Residues in contact with CYS 65 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15M SER 3.2 23.9 - - - +
16M THR 4.8 1.3 - - - +
18M GLY* 3.6 29.8 - - - -
19M LEU 4.7 0.4 - - - +
61M THR 3.4 1.6 + - - -
62M GLY 3.0 11.8 + - - +
64M PHE* 1.3 77.8 - - - +
66M LEU* 1.3 62.6 + - - +
68M VAL* 3.1 12.2 + - - +
69M SER 3.0 15.9 + - - -
16N THR* 3.7 22.0 - - - -
17N ILE* 4.6 2.5 - - - -
19N LEU* 3.8 26.9 - - + +
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Residues in contact with LEU 66 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64L PHE* 4.7 27.4 - - + -
67L MET* 5.4 2.9 - - + -
68L VAL* 5.3 9.0 - - + -
15M SER 4.6 2.7 - - - +
16M THR* 5.4 4.0 + - + +
19M LEU* 5.0 21.3 - - + +
62M GLY 3.4 7.3 + - - +
63M LEU* 3.1 44.7 + - + +
65M CYS* 1.3 79.3 - - - +
67M MET* 1.3 61.1 + - + +
69M SER* 3.0 30.3 + - - -
70M PHE* 3.0 38.0 + - + -
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Residues in contact with MET 67 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63M LEU 2.9 16.2 + - - +
64M PHE* 3.2 42.2 - - + +
66M LEU* 1.3 74.9 - - + +
68M VAL* 1.3 81.3 + - + +
70M PHE* 3.1 25.4 + - + +
71M LEU* 3.1 33.1 + - + +
66N LEU* 4.7 5.6 - - + -
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Residues in contact with VAL 68 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15M SER* 4.8 4.9 - - - -
64M PHE 2.9 19.7 + - - +
65M CYS* 3.2 12.6 - - - +
67M MET* 1.3 90.6 - - + +
69M SER* 1.3 49.1 + - - +
71M LEU* 3.0 22.1 + - + +
72M LEU* 2.6 41.3 + - + +
12N ALA* 5.7 0.4 - - + +
16N THR* 4.5 15.0 - - + +
66N LEU* 4.3 17.0 - - + +
69N SER* 4.5 17.0 - - - +
73N LEU* 5.4 5.2 - - + -
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Residues in contact with SER 69 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68L VAL* 4.8 9.9 - - - +
12M ALA* 3.5 22.8 + - - +
15M SER* 3.4 27.8 + - - -
16M THR* 4.2 4.7 + - - -
65M CYS 3.0 4.9 + - - -
66M LEU* 3.0 24.6 + - - -
68M VAL* 1.3 76.5 - - - +
70M PHE* 1.3 54.8 + - - +
72M LEU* 3.0 3.8 + - - +
73M LEU* 2.6 36.1 + - - +
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Residues in contact with PHE 70 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67L MET* 5.3 9.4 - - + -
68L VAL* 4.9 13.9 - - + -
71L LEU* 5.6 8.7 - - + -
66M LEU* 3.0 43.0 + - + -
67M MET* 3.1 18.3 + - + +
69M SER* 1.3 81.0 - - - +
71M LEU* 1.3 58.6 + - - +
73M LEU* 3.0 27.4 + - + -
74M PHE* 3.0 29.1 + + + +
----------------------------------------------------------
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Residues in contact with LEU 71 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67M MET* 3.1 37.4 + - + +
68M VAL* 3.0 26.4 + - + +
70M PHE* 1.3 75.4 - - - +
72M LEU* 1.3 57.7 + - - +
73M LEU 3.4 0.2 - - - -
75M GLY* 3.2 38.5 - - - +
70N PHE* 5.1 9.4 - - + -
73N LEU* 3.7 28.3 - - + +
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Residues in contact with LEU 72 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8M LYS* 3.3 46.8 - - + +
11M GLY* 3.3 28.3 - - - +
12M ALA* 3.8 11.0 - - - +
15M SER* 3.6 14.8 - - - +
68M VAL* 2.6 25.0 + - + +
69M SER* 3.2 7.4 - - - +
71M LEU* 1.3 72.6 - - + +
73M LEU* 1.3 62.7 + - - +
74M PHE 3.5 0.7 - - - -
9N TYR* 4.2 12.3 - - + +
12N ALA* 4.8 4.0 - - + +
13N GLY* 4.3 13.0 - - - +
73N LEU* 3.7 29.2 - - + -
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Residues in contact with LEU 73 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71L LEU* 3.7 30.7 - - + +
72L LEU* 5.1 7.9 - - + -
8M LYS* 4.5 6.9 + - - +
9M TYR* 3.7 39.0 - - + -
12M ALA* 4.4 15.7 - - + -
69M SER* 2.6 18.4 + - - +
70M PHE* 3.0 14.3 + - + +
72M LEU* 1.3 77.2 - - - +
74M PHE* 1.3 88.4 + - + +
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Residues in contact with PHE 74 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8M LYS* 3.0 16.2 + - - -
70M PHE* 3.0 24.3 + + + +
71M LEU* 5.3 0.2 - - - -
73M LEU* 1.3 110.1 - - + +
75M GLY* 1.3 61.3 + - - +
----------------------------------------------------------
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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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