Contacts of the helix formed by residues 39 - 66 (chain H) in PDB entry 1QGH
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 PHE 39 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31H HIS 4.6 0.4 - - - -
32H TRP 5.3 0.4 - - - -
34H MET* 3.5 43.2 - - + +
36H GLY 2.8 18.7 + - - +
37H HIS 3.2 1.6 - - - -
38H ASN* 1.3 77.5 - - - +
40H PHE* 1.3 79.1 + + - +
43H HIS* 2.7 57.1 + + + +
95H MET* 3.7 9.4 - - - +
144K TRP* 4.0 15.9 - + - -
145K MET* 3.4 54.3 - - + -
148K ALA* 3.6 15.7 - - + -
149K PHE* 4.0 12.1 - - + -
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Residues in contact with PHE 40 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H HIS 4.8 1.5 + - - -
38H ASN 3.3 0.8 - - - -
39H PHE* 1.3 89.1 - + - +
41H THR* 1.3 63.9 + - - +
43H HIS* 3.6 3.1 - + - +
44H GLU* 3.2 38.0 + - - +
41K THR* 3.9 14.6 - - - +
42K LEU* 3.7 22.7 - - + -
45K LYS* 3.4 37.2 - - + -
145K MET* 3.8 32.8 - - + -
146K PHE* 3.5 42.8 - + - -
149K PHE* 3.9 23.6 - + + -
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Residues in contact with THR 41 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A HIS 5.7 1.6 - - - +
40A PHE* 4.1 21.0 - - - +
41A THR* 4.7 16.7 + - + +
37H HIS 5.0 1.6 - - - +
38H ASN* 3.4 34.3 - - + +
40H PHE* 1.3 76.7 - - - +
42H LEU* 1.3 66.4 + - + +
44H GLU* 3.2 10.5 + - - +
45H LYS* 3.0 21.8 + - - +
149H PHE* 6.4 0.2 - - + -
38K ASN* 6.2 0.2 - - - +
41K THR* 4.6 22.9 + - + +
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Residues in contact with LEU 42 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A PHE* 3.9 33.7 - - + -
34H MET* 3.5 17.7 - - + -
38H ASN* 2.8 33.6 + - + +
41H THR* 1.3 79.4 - - + +
43H HIS* 1.3 67.5 + - - +
45H LYS* 3.6 9.3 - - + +
46H MET* 2.9 31.2 + - + +
95H MET* 3.7 15.0 - - + -
99H MET* 4.2 14.8 - - - -
146H PHE* 4.6 5.2 - - + -
149H PHE* 3.4 33.2 - - + -
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Residues in contact with HIS 43 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62F GLU* 3.7 7.5 + - - -
31H HIS* 2.9 78.0 + + - -
34H MET* 3.4 11.6 - - - -
39H PHE* 2.7 46.7 + + + +
40H PHE* 3.6 4.7 - + - +
42H LEU* 1.3 74.3 - - - +
44H GLU* 1.3 69.8 + - + +
46H MET 3.5 4.2 + - - -
47H ASP* 3.5 4.5 + - - +
141K LYS* 5.4 1.8 + - - -
144K TRP* 3.6 27.7 - + - -
145K MET* 4.7 9.8 - - - -
157K FE 4.2 1.6 - - - -
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Residues in contact with GLU 44 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40H PHE* 3.2 32.7 + - - +
41H THR* 3.8 5.7 - - - +
42H LEU 3.1 0.2 - - - -
43H HIS* 1.3 84.8 - - + +
45H LYS* 1.3 64.0 + - - +
47H ASP* 3.0 21.5 + - - +
48H ASP* 3.2 18.0 + - - +
45K LYS* 5.2 8.1 - - - +
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Residues in contact with LYS 45 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A PHE* 3.4 38.2 - - + -
44A GLU* 5.3 7.6 - - - +
41H THR* 3.0 17.5 + - - +
42H LEU* 3.2 13.7 + - + +
44H GLU* 1.3 74.8 - - - +
46H MET* 1.3 63.5 + - + +
48H ASP* 3.0 24.4 + - - +
49H LEU* 2.9 30.5 + - + +
142H HIS* 4.5 8.8 + - - -
145H MET* 3.9 17.4 - - - +
146H PHE* 3.8 28.5 - - + -
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Residues in contact with MET 46 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H ILE* 3.2 23.2 - - + +
30H ILE* 4.1 20.6 - - + -
31H HIS* 3.8 22.4 - - + +
34H MET* 3.7 17.7 - - + -
42H LEU* 2.9 21.0 + - + +
43H HIS 3.7 5.6 - - - +
45H LYS* 1.3 82.6 - - + +
47H ASP* 1.3 57.6 + - - +
49H LEU* 3.5 21.5 - - + -
50H TYR* 2.8 26.0 + - - +
99H MET* 4.4 5.6 - - + -
102H LEU* 3.8 11.7 - - + -
146H PHE* 3.5 38.4 - - + -
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Residues in contact with ASP 47 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58F ASP* 4.8 0.9 - - - +
28H HIS* 4.9 8.0 - - - -
31H HIS* 3.4 34.2 + - - -
43H HIS* 3.5 5.7 + - - +
44H GLU* 3.0 15.8 + - - +
46H MET* 1.3 77.7 - - - +
48H ASP* 1.3 65.5 - - - +
50H TYR* 3.6 6.6 - - - +
51H SER* 3.1 28.6 + - - -
157K FE 3.9 7.1 - - - -
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Residues in contact with ASP 48 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44H GLU* 3.5 15.3 - - - +
45H LYS* 3.0 29.7 + - - +
47H ASP* 1.3 80.1 - - - +
49H LEU* 1.3 68.2 + - + +
51H SER* 3.2 6.1 + - - -
52H GLU* 3.0 23.4 + - - +
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Residues in contact with LEU 49 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H PHE* 5.3 0.2 - - + -
27H ILE* 3.9 14.8 - - + -
45H LYS* 2.9 19.8 + - - +
46H MET* 3.3 37.4 + - + +
48H ASP* 1.3 74.6 - - + +
50H TYR* 1.3 57.3 + - - +
52H GLU* 3.1 3.3 + - - +
53H PHE* 2.8 56.2 + - + +
102H LEU* 3.7 27.1 - - + -
106H LEU* 5.4 2.7 - - + -
142H HIS* 3.7 34.1 - - + +
146H PHE* 3.9 12.1 - - + -
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Residues in contact with TYR 50 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21F ASN* 5.5 1.0 + - - -
24F THR* 5.8 3.1 - - - +
50F TYR* 4.6 17.6 + + - -
54F GLY* 5.7 4.8 - - - -
57F MET* 4.4 6.8 - - - +
24H THR* 3.5 45.5 + - + +
25H VAL* 5.2 0.2 - - - -
27H ILE* 3.9 10.3 - - + +
28H HIS* 3.0 56.0 + + + +
46H MET 2.8 17.8 + - - +
47H ASP* 3.6 10.5 - - - +
49H LEU* 1.3 77.0 - - - +
51H SER* 1.3 69.8 + - - +
54H GLY* 3.0 22.0 + - - -
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Residues in contact with SER 51 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47H ASP 3.1 16.8 + - - -
48H ASP* 3.7 5.2 - - - -
50H TYR* 1.3 87.3 - - - +
52H GLU* 1.3 65.2 + - - +
54H GLY* 3.3 1.6 + - - -
55H GLU* 3.0 30.4 + - - +
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Residues in contact with GLU 52 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48H ASP 3.0 16.2 + - - +
49H LEU* 3.1 7.2 + - - +
51H SER* 1.3 78.8 - - - +
53H PHE* 1.3 70.9 + - + +
55H GLU* 2.9 26.5 + - - +
56H GLN* 3.0 22.1 + - + +
138H SER* 2.6 27.8 + - - -
142H HIS* 2.8 30.7 + - - -
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Residues in contact with PHE 53 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H LEU* 4.2 14.7 - - + +
23H PHE* 3.8 35.7 - + + -
24H THR* 4.7 7.9 - - - +
27H ILE* 4.5 5.2 - - + -
49H LEU* 2.8 47.3 + - + +
50H TYR 4.6 0.9 - - - +
52H GLU* 1.3 83.9 - - + +
54H GLY* 1.3 57.3 + - - +
56H GLN* 3.1 36.6 + - - +
57H MET* 2.9 29.2 + - - +
106H LEU* 3.7 20.9 - - + -
109H LEU* 4.7 3.6 - - + -
138H SER* 5.3 0.2 - - - -
139H ILE* 4.0 17.3 - - + -
142H HIS* 3.9 25.8 - + - -
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Residues in contact with GLY 54 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F HIS* 5.3 1.4 + - - -
50F TYR* 5.9 3.6 - - - -
24H THR* 4.3 8.7 + - - -
50H TYR* 3.0 21.2 + - - -
51H SER 3.7 2.0 - - - -
52H GLU 3.1 0.2 - - - -
53H PHE* 1.3 76.9 - - - +
55H GLU* 1.3 62.1 + - - +
57H MET* 3.4 14.8 - - - +
58H ASP* 3.1 21.1 + - - +
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Residues in contact with GLU 55 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51H SER* 3.0 19.2 + - - +
52H GLU* 2.9 12.3 + - - +
54H GLY* 1.3 75.1 - - - +
56H GLN* 1.3 65.7 + - - +
57H MET 3.0 1.8 - - - -
58H ASP* 3.2 6.0 + - - +
59H GLU* 2.9 38.8 + - + +
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Residues in contact with GLN 56 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H LEU* 4.2 6.4 - - + +
52H GLU* 3.0 29.2 + - + +
53H PHE* 3.1 39.6 + - + +
55H GLU* 1.3 75.5 - - - +
57H MET* 1.3 58.9 + - - +
59H GLU* 3.2 2.7 + - - +
60H VAL* 2.8 36.0 + - - +
113H TYR* 2.9 26.7 + - - -
135H PHE* 3.5 58.9 + - + +
138H SER* 5.0 1.6 - - - -
139H ILE* 4.5 1.2 - - - +
----------------------------------------------------------
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Residues in contact with MET 57 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F HIS* 3.5 33.4 - - + +
32F TRP* 3.8 19.7 - - + -
50F TYR* 4.3 7.2 - - - +
17H VAL* 4.2 8.3 - - - +
20H LEU* 3.5 33.0 - - + +
21H ASN* 3.3 37.2 - - - +
24H THR* 6.1 4.7 - - + -
53H PHE 2.9 12.8 + - - +
54H GLY* 3.4 15.9 - - - +
56H GLN* 1.3 79.3 - - - +
58H ASP* 1.3 65.0 + - - +
60H VAL* 3.6 1.9 - - - +
61H ALA* 2.9 24.1 + - - +
----------------------------------------------------------
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Residues in contact with ASP 58 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F HIS* 3.8 14.1 - - + -
31F HIS* 3.6 6.4 - - - -
32F TRP* 2.6 32.6 + - - -
47F ASP* 5.2 0.9 - - - -
157F FE 1.8 31.7 - - - -
54H GLY 3.1 10.8 + - - +
55H GLU* 3.2 7.4 + - - +
57H MET* 1.3 86.5 - - - +
59H GLU* 1.3 50.8 + - + +
61H ALA* 3.3 1.0 + - - +
62H GLU* 2.5 51.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 59 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55H GLU* 2.9 32.9 + - + +
56H GLN* 3.6 3.9 + - - +
58H ASP* 1.3 74.2 - - + +
60H VAL* 1.3 61.6 + - - +
62H GLU* 4.2 5.5 - - - +
63H ARG* 2.9 30.7 + - - +
131H MET* 4.0 11.2 - - - +
135H PHE* 3.8 27.9 - - + -
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Residues in contact with VAL 60 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H LEU* 3.5 40.2 - - + +
16H GLN* 4.3 6.3 - - + -
17H VAL* 3.8 14.4 - - + +
20H LEU* 4.1 12.3 - - + -
56H GLN 2.8 21.5 + - - +
57H MET 3.6 4.3 - - - +
59H GLU* 1.3 74.6 - - - +
61H ALA* 1.3 59.5 + - - +
63H ARG* 3.0 3.6 + - - +
64H LEU* 2.8 28.6 + - - +
113H TYR* 4.8 1.6 - - - +
131H MET* 4.1 13.0 - - + -
132H LEU* 5.1 4.3 - - + -
135H PHE* 3.4 25.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 61 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32F TRP* 3.5 42.6 - - + -
17H VAL* 3.9 20.2 - - + -
57H MET 2.9 13.3 + - - +
58H ASP 3.7 1.1 - - - +
60H VAL* 1.3 78.6 - - - +
62H GLU* 1.3 58.4 + - - +
64H LEU* 3.3 6.2 + - - +
65H LEU* 3.0 30.2 + - - +
71H PRO* 4.1 8.7 - - + +
----------------------------------------------------------
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Residues in contact with GLU 62 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F HIS* 3.0 10.7 + - - -
32F TRP* 3.9 13.5 - - + -
43F HIS* 3.8 4.5 + - - -
157F FE 1.9 33.5 - - - -
58H ASP* 2.5 29.8 + - - +
59H GLU* 4.2 5.0 - - - +
61H ALA* 1.3 71.7 - - - +
63H ARG* 1.3 59.8 + - - +
65H LEU* 3.3 6.9 - - + +
66H ALA* 2.9 29.0 + - - +
141J LYS* 3.1 28.5 + - + +
144J TRP* 3.6 32.7 - - + -
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Residues in contact with ARG 63 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H LEU* 4.2 6.3 - - + -
59H GLU 2.9 18.3 + - - +
60H VAL 3.4 3.8 - - - +
62H GLU* 1.3 77.3 - - - +
64H LEU* 1.3 66.3 + - - +
66H ALA* 3.1 9.7 + - - +
67H ILE* 3.0 42.2 + - + +
125H ASP* 2.8 30.5 + - - -
127H VAL* 3.2 29.9 - - - +
128H THR* 2.8 21.6 + - - +
131H MET* 3.9 26.9 - - + -
136J LYS* 4.6 4.8 - - - +
137J ALA 5.2 0.6 + - - -
140J ASP* 3.0 39.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 64 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H LYS* 3.7 37.5 - - + +
13H LEU* 4.1 13.2 - - + +
14H ASN* 3.6 43.7 - - + +
17H VAL* 4.9 2.2 - - + -
60H VAL 2.8 12.7 + - - +
61H ALA 3.4 8.5 - - - +
63H ARG* 1.3 78.2 - - - +
65H LEU* 1.3 56.4 + - - +
67H ILE* 3.1 15.1 + - + +
69H GLY* 2.7 47.3 + - - -
70H SER 3.9 3.8 - - - +
71H PRO* 3.7 19.7 - - + -
----------------------------------------------------------
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Residues in contact with LEU 65 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32F TRP* 3.4 44.2 - - + +
33F TYR* 4.8 7.4 - - + -
61H ALA 3.0 15.9 + - - +
62H GLU* 3.3 14.4 - - - +
64H LEU* 1.3 74.2 - - - +
66H ALA* 1.3 59.3 + - - +
68H GLY* 3.0 18.5 + - - -
69H GLY 3.6 11.2 + - - +
70H SER* 4.7 0.7 - - - -
71H PRO* 3.4 25.4 - - + -
144J TRP* 3.7 35.2 - - + +
154J PRO* 3.1 17.7 - - - +
----------------------------------------------------------
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Residues in contact with ALA 66 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62H GLU 2.9 18.1 + - - +
63H ARG* 3.1 22.7 + - - +
65H LEU* 1.3 78.6 - - - +
67H ILE* 1.3 59.7 + - - +
68H GLY 3.1 1.8 + - - -
140J ASP* 4.1 18.9 - - + +
141J LYS* 4.7 5.2 - - - +
144J TRP* 4.0 23.6 - - + -
154J PRO* 4.0 11.5 - - - +
155J LEU* 4.2 9.4 - - - +
----------------------------------------------------------
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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