Contacts of the helix formed by residues 45 - 75 (chain L) in PDB entry 1C17
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 45 (chain L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39L ALA 3.0 19.2 + - - +
42L GLN* 2.7 45.8 + - + +
43L PRO* 3.9 7.5 - - + -
44L ASP* 1.3 91.4 - - + +
46L ILE* 1.3 57.7 + - - +
47L PRO* 3.2 4.3 - - - -
48L LEU* 2.6 59.0 + - + +
49L LEU* 3.0 6.9 + - - +
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Residues in contact with ILE 46 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46K ILE* 6.5 1.3 - - + -
39L ALA 4.1 1.2 + - - -
40L ALA* 4.5 15.7 - - + +
42L GLN 5.3 0.2 - - - +
43L PRO 4.4 4.7 - - - +
44L ASP* 3.7 31.2 - - - +
45L LEU* 1.3 75.7 - - - +
47L PRO* 1.4 65.9 - - + +
49L LEU* 2.7 53.2 + - + +
50L ARG* 3.8 6.6 + - - +
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Residues in contact with PRO 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44L ASP* 3.9 17.7 - - - +
45L LEU* 3.2 1.6 - - - -
46L ILE* 1.4 101.7 - - + +
48L LEU* 1.3 66.4 + - - +
49L LEU 3.1 0.3 + - - -
50L ARG* 3.3 10.4 + - + +
51L THR* 2.9 31.4 + - - +
199M SER* 6.2 3.6 - - - -
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Residues in contact with LEU 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L PHE* 4.6 2.7 - - + -
39L ALA* 3.8 19.7 - - + -
42L GLN* 4.3 0.4 - - - +
45L LEU* 2.6 56.0 + - + +
47L PRO* 1.3 75.3 - - - +
49L LEU* 1.3 61.2 + - - +
51L THR* 4.3 7.2 - - + -
52L GLN* 2.7 72.0 + - + +
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Residues in contact with LEU 49 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50K ARG* 4.7 0.9 - - - -
35L PHE* 5.3 6.5 - - + -
36L LEU* 3.2 42.0 - - + +
39L ALA* 3.3 19.1 - - + -
40L ALA* 3.0 48.2 - - + +
45L LEU 3.0 4.4 + - - +
46L ILE* 2.7 42.5 + - + +
48L LEU* 1.3 77.7 - - - +
50L ARG* 1.3 54.8 + - + +
52L GLN* 3.6 1.7 - - - +
53L PHE* 2.7 37.0 + - - +
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Residues in contact with ARG 50 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46K ILE* 3.9 28.5 + - - +
49K LEU* 4.1 22.1 - - - +
50K ARG* 3.7 39.1 - - - +
46L ILE* 4.8 6.2 - - - +
47L PRO* 3.3 9.2 + - + +
49L LEU* 1.3 81.8 - - + +
51L THR* 1.3 55.2 + - - +
53L PHE* 2.7 27.1 + - - +
54L PHE* 2.7 40.4 + - + -
199M SER* 4.1 10.3 - - - +
203M LYS* 3.2 34.8 - - - +
263M TYR* 5.4 3.2 + - - -
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Residues in contact with THR 51 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47L PRO* 2.9 22.8 + - - +
48L LEU* 3.9 7.4 - - + -
50L ARG* 1.3 77.2 - - - +
52L GLN* 1.3 62.9 + - + +
54L PHE* 3.8 11.7 - - - +
55L ILE* 3.9 15.1 + - - +
199M SER* 4.6 6.2 - - - -
202M SER* 3.5 20.3 + - - +
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Residues in contact with GLN 52 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L PHE* 3.2 38.2 - - + -
48L LEU* 2.7 53.1 + - + +
49L LEU 4.2 1.1 - - - +
51L THR* 1.3 78.4 - - + +
53L PHE* 1.3 54.2 + - - +
54L PHE 3.3 0.7 - - - -
55L ILE* 3.4 12.8 - - + -
56L VAL* 2.7 49.0 + - + +
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Residues in contact with PHE 53 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50K ARG* 3.1 22.0 - - - +
53K PHE* 3.6 24.7 - + - -
54K PHE* 3.1 32.3 - + - -
57K MET* 3.0 41.5 - - + -
28L ILE* 4.1 28.5 - - + -
32L GLY* 5.1 8.7 - - - -
35L PHE* 6.5 0.4 - - - -
49L LEU 2.7 24.2 + - - +
50L ARG* 2.7 10.6 + - - +
52L GLN* 1.3 75.6 - - - +
54L PHE* 1.3 60.4 + + - +
56L VAL* 4.0 3.0 - - - +
57L MET* 2.8 34.2 + - - +
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Residues in contact with PHE 54 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K PHE* 3.3 35.0 - + - -
50L ARG* 2.7 44.6 + - + -
51L THR* 3.9 5.8 - - - +
53L PHE* 1.3 80.3 - + - +
55L ILE* 1.3 57.1 + - - +
57L MET* 3.8 4.2 - - - +
58L GLY* 3.0 25.8 + - - -
199M SER 3.9 0.2 - - - -
202M SER* 3.2 37.2 - - - +
203M LYS* 3.5 33.7 - - + -
205M VAL* 6.0 1.3 - - + -
206M SER* 3.1 39.0 + - - +
209M LEU* 4.5 5.5 - - - +
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Residues in contact with ILE 55 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51L THR 3.9 6.3 + - - +
52L GLN* 2.9 32.9 - - + +
54L PHE* 1.3 78.6 - - - +
56L VAL* 1.3 78.0 + - + +
58L GLY* 3.9 0.4 - - - -
59L LEU* 2.9 56.0 + - + +
209M LEU* 5.6 2.9 - - - +
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Residues in contact with VAL 56 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L ILE* 3.6 15.3 - - + -
31L LEU* 4.7 20.6 - - + -
32L GLY* 6.1 1.8 - - - +
35L PHE* 5.4 8.3 - - + -
52L GLN* 2.7 42.6 + - + +
53L PHE* 4.0 3.8 - - - +
55L ILE* 1.3 81.7 - - + +
57L MET* 1.3 52.9 + - - +
59L LEU* 3.8 8.2 + - + +
60L VAL* 2.6 43.6 + - + +
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Residues in contact with MET 57 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K PHE* 5.5 0.4 - - - -
57K MET* 3.3 54.1 - - + +
28L ILE* 3.2 27.6 - - + +
53L PHE* 2.8 21.3 + - + +
54L PHE* 3.8 4.9 - - - +
56L VAL* 1.3 75.3 - - - +
58L GLY* 1.3 68.3 + - - +
60L VAL* 2.9 14.2 + - - +
61L ASP* 2.9 24.4 + - - +
206M SER* 4.7 13.2 - - - -
210M ARG* 3.8 30.3 - - - +
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Residues in contact with GLY 58 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54L PHE 3.0 9.1 + - - -
55L ILE 4.0 0.2 - - - -
57L MET* 1.3 81.6 - - - +
59L LEU* 1.3 53.4 + - - +
61L ASP* 3.2 8.7 + - - +
62L ALA* 2.7 36.8 + - - +
209M LEU* 3.4 33.5 - - - +
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Residues in contact with LEU 59 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55L ILE* 2.9 50.2 + - + +
56L VAL* 4.0 7.6 - - + +
58L GLY* 1.3 76.4 - - - +
60L VAL* 1.3 62.0 + - + +
62L ALA* 3.7 19.3 - - + +
63L ILE* 4.1 11.1 + - - +
209M LEU* 4.9 0.4 - - + +
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Residues in contact with VAL 60 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L ALA* 3.0 55.0 - - + +
27L GLY* 5.7 1.1 - - - -
28L ILE* 4.0 15.9 - - + +
56L VAL* 2.6 31.9 - - + +
57L MET* 2.9 8.7 + - - +
59L LEU* 1.3 79.2 - - + +
61L ASP* 1.3 61.9 + - - +
63L ILE* 3.7 22.6 + - + +
64L PRO* 3.9 0.3 - - - +
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Residues in contact with ASP 61 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61K ASP* 5.6 0.3 - - - +
21L ALA* 4.9 5.4 - - - +
24L ALA* 4.3 13.5 - - - +
25L ALA* 4.9 7.0 + - - +
57L MET* 2.9 32.7 + - - +
58L GLY* 3.8 8.3 + - - +
60L VAL* 1.3 74.2 - - - +
62L ALA* 1.3 64.4 + - - +
63L ILE 2.8 7.6 + - - -
64L PRO* 3.5 6.0 - - - +
65L MET* 3.0 29.0 + - + +
210M ARG* 2.7 39.2 + - - +
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Residues in contact with ALA 62 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58L GLY 2.7 21.7 + - - +
59L LEU* 3.7 18.6 - - + +
60L VAL 3.3 0.6 - - - -
61L ASP* 1.3 72.9 - - - +
63L ILE* 1.3 53.7 + - + +
65L MET* 3.7 10.5 - - - -
66L ILE* 2.7 46.2 + - + +
209M LEU* 6.6 0.2 - - + -
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Residues in contact with ILE 63 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ILE* 6.2 3.6 - - + -
66A ILE* 6.1 7.0 - - + -
16L MET* 5.9 2.7 - - + -
20L ALA* 4.6 10.8 - - + -
24L ALA* 6.3 0.2 - - + -
59L LEU 4.2 10.1 - - - +
60L VAL* 3.7 14.1 + - + +
61L ASP 2.8 2.2 + - - -
62L ALA* 1.3 73.7 - - - +
64L PRO* 1.4 69.3 - - + +
66L ILE* 2.6 30.7 + - - +
67L ALA* 2.9 11.7 + - + +
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Residues in contact with PRO 64 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L MET* 2.9 42.0 - - + +
20L ALA* 3.5 14.6 - - + +
21L ALA* 3.3 38.4 - - + +
60L VAL 3.9 7.4 - - - +
61L ASP* 3.5 11.7 - - - +
63L ILE* 1.4 94.6 - - + +
65L MET* 1.3 50.5 + - - +
67L ALA* 4.0 1.3 - - + -
68L VAL* 2.6 35.9 + - + +
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Residues in contact with MET 65 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61L ASP* 3.0 25.8 + - + +
62L ALA* 3.6 11.2 - - - +
63L ILE 2.8 0.8 + - - -
64L PRO* 1.3 76.9 - - - +
66L ILE* 1.3 58.6 + - + +
68L VAL* 3.7 6.1 - - + +
69L GLY* 3.1 23.9 + - - -
209M LEU 5.9 0.2 - - - +
210M ARG* 4.8 7.9 - - - +
213M GLY* 3.0 46.4 - - - +
214M ASN* 3.9 20.6 - - - +
216M TYR* 6.0 0.9 - - - -
217M ALA* 4.8 7.6 - - - +
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Residues in contact with ILE 66 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62L ALA* 2.7 30.9 + - + +
63L ILE* 2.6 14.7 + - - +
65L MET* 1.3 73.2 - - + +
67L ALA* 1.3 57.6 + - - +
69L GLY* 5.2 0.4 - - - -
70L LEU* 2.8 50.9 + - + +
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Residues in contact with ALA 67 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16L MET* 3.8 13.2 - - + -
17L MET* 3.3 31.2 - - + -
63L ILE* 2.9 11.6 + - + +
64L PRO* 3.6 1.8 - - + +
66L ILE* 1.3 77.8 - - - +
68L VAL* 1.3 56.3 + - - +
70L LEU* 4.5 2.7 - - - -
71L GLY* 2.5 32.8 + - - +
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Residues in contact with VAL 68 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13L ALA* 6.4 0.2 - - + -
17L MET* 3.1 28.0 - - + -
64L PRO* 2.6 30.2 + - + +
65L MET* 3.7 9.6 - - + +
66L ILE 3.2 0.2 - - - -
67L ALA* 1.3 71.3 - - - +
69L GLY* 1.3 62.1 + - - +
71L GLY* 4.7 0.2 - - - -
72L LEU* 2.7 44.0 + - + +
217M ALA* 3.5 25.4 - - + -
221M ILE* 6.4 0.4 - - + -
----------------------------------------------------------
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Residues in contact with GLY 69 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65L MET 3.1 12.6 + - - -
66L ILE* 4.0 0.9 - - - -
68L VAL* 1.3 78.6 - - - +
70L LEU* 1.3 57.5 + - - +
72L LEU* 3.4 13.1 - - - +
73L TYR* 2.9 31.6 + - - +
216M TYR* 4.7 22.1 - - - -
217M ALA* 4.7 6.3 - - - +
220M LEU* 5.5 1.7 - - - +
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Residues in contact with LEU 70 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66L ILE* 2.8 35.8 + - + +
67L ALA* 4.4 2.7 - - - +
69L GLY* 1.3 69.4 - - - -
71L GLY* 1.3 68.8 + - - +
73L TYR* 3.3 22.8 - - + +
74L VAL* 3.5 15.0 + - + +
75L MET* 6.5 0.2 - - + -
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Residues in contact with GLY 71 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67L ALA* 2.5 27.5 + - - +
70L LEU* 1.3 77.6 - - - +
72L LEU* 1.3 49.9 + - - +
75L MET* 2.6 58.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 72 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68L VAL* 2.7 46.2 + - + +
69L GLY* 3.4 6.1 - - - +
71L GLY* 1.3 69.8 - - - -
73L TYR* 1.3 73.6 + - - +
74L VAL 3.1 0.7 + - - -
75L MET* 3.3 0.8 + - - -
76L PHE* 3.5 35.2 - - + +
77L ALA* 2.9 26.9 + - + +
217M ALA* 3.2 28.5 - - - +
220M LEU* 3.4 30.5 - - + -
221M ILE* 3.6 20.0 - - + +
224M LEU* 3.9 1.5 - - + +
----------------------------------------------------------
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Residues in contact with TYR 73 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69L GLY 2.9 22.0 + - - +
70L LEU* 3.3 18.6 - - + +
71L GLY 3.1 0.2 - - - -
72L LEU* 1.3 84.2 - - + +
74L VAL* 1.3 66.3 + - + +
77L ALA* 2.8 21.7 - - - +
78L VAL* 4.0 6.8 - - + +
142M VAL* 4.2 25.6 - - + -
146M ASP* 4.8 11.0 - - - -
216M TYR* 5.4 3.6 - - - -
220M LEU* 5.2 7.2 - - + -
----------------------------------------------------------
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Residues in contact with VAL 74 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70L LEU* 3.6 18.6 - - + +
71L GLY 3.5 2.0 - - - +
73L TYR* 1.3 84.7 - - + +
75L MET* 1.3 89.5 + - + +
78L VAL* 3.2 38.4 - - + +
79L ALA* 3.4 6.6 + - - +
----------------------------------------------------------
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Residues in contact with MET 75 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A TYR* 3.4 33.0 - - + +
9L LEU* 3.3 39.9 - - + +
71L GLY* 2.6 42.4 + - - +
72L LEU* 3.3 1.8 + - - -
74L VAL* 1.3 90.3 - - + +
76L PHE* 1.3 67.1 + - + +
77L ALA 3.0 0.2 - - - -
79L ALA* 2.5 37.6 + - - +
----------------------------------------------------------
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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