Contacts of the helix formed by residues 42 - 70 (chain H) in PDB entry 1NF6
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 TYR 42 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B HIS* 4.7 2.9 - + - -
148B ASN* 5.6 3.3 - - - +
149B LEU* 4.3 14.4 - - + +
37H LEU* 3.1 19.4 + - + +
40H MET* 3.7 45.8 - - + -
41H ASP* 1.3 75.3 - - - +
43H GLY* 1.3 64.1 + - - +
44H GLU 3.3 2.5 - - - -
45H LEU* 2.9 22.7 + - + -
46H ALA* 3.0 11.0 + - - +
88H VAL* 4.4 5.6 - - + -
154H LEU* 3.6 53.7 - - + +
157H ILE* 3.5 17.9 - - + -
158H ALA* 3.6 28.9 - - + -
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Residues in contact with GLY 43 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38H ASP* 5.7 0.6 - - - +
41H ASP* 3.5 5.8 + - - +
42H TYR* 1.3 72.9 - - - +
44H GLU* 1.3 52.4 + - - +
46H ALA* 3.2 3.1 + - - +
47H ALA* 2.8 36.9 + - - +
160H THR* 3.2 27.4 + - - -
161H PRO 3.2 10.2 - - - +
162H SER* 3.6 17.0 - - - -
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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
----------------------------------------------------------
42H TYR 3.1 0.6 + - - -
43H GLY* 1.3 71.1 - - - +
45H LEU* 1.3 66.0 + - + +
47H ALA* 3.8 3.9 - - - +
48H ASN* 3.1 44.3 + - - +
156H LYS* 4.9 6.4 - - - -
157H ILE* 3.3 29.3 - - + +
160H THR* 2.9 28.1 + - - +
161H PRO 3.5 5.5 + - - +
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Residues in contact with LEU 45 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H LEU* 3.7 18.1 - - + +
42H TYR* 2.9 15.7 + - + +
44H GLU* 1.3 80.7 - - + +
46H ALA* 1.3 58.1 + - - +
48H ASN* 4.1 1.4 - - - +
49H MET* 3.1 29.8 + - - +
88H VAL* 4.7 2.9 - - + -
92H TYR* 3.3 35.1 + - + +
138H TYR* 3.9 16.2 + - - +
142H ILE* 4.0 26.2 - - + -
153H TYR* 4.4 7.9 - - + +
154H LEU* 4.3 23.1 - - + -
157H ILE* 4.0 18.4 - - + -
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Residues in contact with ALA 46 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H HIS* 2.6 36.6 + - + +
37H LEU* 3.8 10.7 - - + +
38H ASP* 3.6 36.6 - - + +
42H TYR 3.0 11.3 + - - +
43H GLY* 3.6 11.0 - - - +
45H LEU* 1.3 74.2 - - - +
47H ALA* 1.3 64.1 + - - +
49H MET* 3.5 1.1 + - - +
50H LYS 3.2 8.5 + - - -
162H SER* 4.6 2.5 - - - -
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Residues in contact with ALA 47 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H HIS* 4.9 0.4 - - - -
43H GLY 2.8 20.6 + - - +
44H GLU* 3.8 5.8 - - - +
46H ALA* 1.3 73.6 - - - +
48H ASN* 1.3 59.5 - - - +
50H LYS* 3.2 1.3 + - - -
51H LEU* 2.9 36.1 + - + +
161H PRO 4.7 1.6 - - - +
162H SER* 3.4 23.6 + - - +
163H SER 4.1 5.6 - - - +
164H THR* 3.5 18.7 - - + +
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Residues in contact with ASN 48 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171G PHE* 3.8 17.8 - - + -
44H GLU* 3.1 35.5 + - - +
45H LEU* 4.1 0.4 - - - +
47H ALA* 1.3 80.7 - - - +
49H MET* 1.3 56.7 + - - +
51H LEU* 3.3 14.5 + - - +
52H ILE* 2.8 35.7 + - - +
138H TYR* 3.0 42.5 + - + +
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Residues in contact with MET 49 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30H TYR* 3.2 32.7 - - - +
33H GLN* 3.4 13.5 - - + +
34H HIS* 3.9 11.4 - - + +
37H LEU* 4.1 11.0 - - + -
45H LEU 3.1 17.7 + - - +
46H ALA 3.8 4.3 - - - +
47H ALA 3.3 0.2 - - - -
48H ASN* 1.3 76.5 - - - +
50H LYS* 1.3 60.0 + - - +
52H ILE* 3.3 7.1 + - - +
53H ALA* 3.0 25.5 + - - +
91H ILE* 3.6 17.7 - - + -
92H TYR* 4.0 9.6 - - + -
95H ASP* 3.2 23.1 - - - +
138H TYR* 4.8 1.3 + - + -
139H TYR* 3.2 34.8 - - + -
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Residues in contact with LYS 50 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G GLU* 2.6 29.4 + - - +
1704G FEC 2.9 50.1 + - - -
31H MET* 4.1 18.2 - - + -
34H HIS* 3.4 29.3 + - + +
46H ALA 3.2 5.6 + - - +
47H ALA 3.7 3.1 - - - +
49H MET* 1.3 76.4 - - - +
51H LEU* 1.3 61.5 + - - +
53H ALA* 3.1 4.0 + - - +
54H ILE* 2.9 37.6 + - + +
164H THR* 3.8 13.2 - - + -
1801H SO4 3.1 28.1 + - - +
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Residues in contact with LEU 51 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169G LYS* 3.2 29.2 - - + +
170G GLY 3.4 22.7 - - - +
171G PHE* 3.4 18.6 + - + +
47H ALA* 2.9 23.2 + - + +
48H ASN* 3.6 20.2 - - - +
50H LYS* 1.3 77.7 - - - +
52H ILE* 1.3 62.2 + - - +
54H ILE* 3.2 8.5 + - + +
55H ASP 3.2 16.1 + - - -
164H THR* 4.0 31.9 - - + +
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Residues in contact with ILE 52 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171G PHE* 3.6 26.0 - - + -
30H TYR* 4.1 6.3 - - + -
48H ASN 2.8 23.0 + - - +
49H MET* 3.8 4.0 - - - +
51H LEU* 1.3 75.7 - - - +
53H ALA* 1.3 63.0 + - - +
55H ASP* 3.1 14.3 + - - +
56H GLU* 3.1 20.3 + - - +
135H HIS* 3.7 31.2 - - + +
138H TYR* 3.5 35.9 - - + -
139H TYR* 3.5 33.0 - - + +
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Residues in contact with ALA 53 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H ILE* 4.0 6.0 - - - +
30H TYR* 4.0 15.2 - - + -
31H MET* 3.8 31.6 - - + -
49H MET 3.0 13.8 + - - +
50H LYS 3.3 8.7 - - - +
52H ILE* 1.3 77.0 - - - +
54H ILE* 1.3 58.0 + - - +
56H GLU* 3.0 14.3 + - - +
57H MET* 2.8 33.5 + - + +
----------------------------------------------------------
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Residues in contact with ILE 54 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168G SER* 3.7 26.6 + - - +
169G LYS 3.4 30.3 - - - +
170G GLY* 4.1 2.5 - - - -
1704G FEC 4.3 24.2 - - + +
50H LYS* 2.9 41.6 + - + +
51H LEU* 3.5 11.9 - - + +
52H ILE 3.2 0.4 - - - -
53H ALA* 1.3 76.6 - - - +
55H ASP* 1.3 63.7 - - - +
57H MET* 3.2 28.5 + - + +
58H ARG* 3.1 21.2 + - - +
164H THR* 5.3 3.4 - - - +
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Residues in contact with ASP 55 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170G GLY* 3.3 4.9 - - - -
171G PHE* 3.1 23.2 + - - +
172G VAL* 3.0 25.2 + - - +
51H LEU 3.2 6.7 + - - -
52H ILE 3.1 11.1 + - - +
54H ILE* 1.3 77.6 - - - +
56H GLU* 1.3 57.2 + - - +
58H ARG* 2.7 37.3 + - - +
59H HIS* 2.9 36.8 + - - +
135H HIS* 2.7 33.6 + - + -
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Residues in contact with GLU 56 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H GLU* 3.6 18.9 - - - +
26H ALA* 4.0 9.5 - - + +
27H ILE* 3.8 15.5 - - + -
30H TYR* 3.4 19.8 - - + -
52H ILE 3.2 16.4 - - - +
53H ALA* 3.0 12.5 + - - +
55H ASP* 1.3 73.2 - - - +
57H MET* 1.3 60.5 + - - +
59H HIS* 2.8 27.5 + - - +
60H ALA* 2.8 30.0 + - - +
99H GLU* 3.3 10.7 - - - +
132H GLU* 3.4 1.1 - - - +
135H HIS* 3.5 2.5 + - - -
200H FE 2.1 30.8 - - - -
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Residues in contact with MET 57 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1704G FEC 2.4 112.3 - - + +
27H ILE* 3.6 26.4 - - + +
31H MET* 4.4 6.7 - - + -
53H ALA* 2.8 28.4 + - + +
54H ILE* 3.2 21.3 + - + +
56H GLU* 1.3 75.2 - - - +
58H ARG* 1.3 56.2 + - - +
60H ALA* 3.3 5.2 + - - +
61H GLU 2.9 22.5 + - - -
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Residues in contact with ARG 58 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167G ALA* 6.1 3.4 - - - +
168G SER* 3.9 25.2 + - - +
170G GLY* 4.8 5.1 - - - -
172G VAL* 3.6 12.1 + - - +
1704G FEC 5.1 2.9 - - + +
54H ILE 3.1 11.0 + - - +
55H ASP* 2.7 37.9 + - - +
57H MET* 1.3 72.5 - - - +
59H HIS* 1.3 76.8 + - - +
61H GLU* 3.1 19.3 + - - +
62H ASN* 2.8 47.7 + - - +
131H GLU* 2.7 35.9 + - - -
----------------------------------------------------------
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Residues in contact with HIS 59 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H GLU* 3.3 25.8 + - - +
55H ASP* 2.9 24.6 + - - +
56H GLU* 2.8 32.5 + - - +
58H ARG* 1.3 81.7 - - - +
60H ALA* 1.3 58.1 + - - +
62H ASN* 3.2 4.3 + - - +
63H PHE* 2.9 38.4 + - + -
128H ILE* 3.7 33.3 - - + +
131H GLU* 2.7 35.4 + - + +
132H GLU* 3.2 16.1 + - - -
135H HIS* 4.1 8.1 - + - -
----------------------------------------------------------
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Residues in contact with ALA 60 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1704G FEC 4.5 4.5 - - + -
20H ARG* 2.9 37.5 + - + +
23H GLU* 4.0 18.8 - - + +
24H LEU* 4.3 8.1 - - + -
27H ILE* 4.2 12.1 - - + -
56H GLU 2.8 13.0 + - - +
57H MET 3.3 10.1 - - - +
59H HIS* 1.3 76.1 - - - +
61H GLU* 1.3 56.3 + - - +
63H PHE* 3.5 3.6 + - - +
64H ALA 3.1 18.0 + - - -
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Residues in contact with GLU 61 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G MET* 4.2 4.2 - - - +
34G HIS* 4.2 6.3 + - - +
35G TYR* 3.4 21.3 + - + +
50G LYS* 2.5 40.0 + - - +
1701G SO4 5.0 2.6 + - - -
1704G FEC 3.4 25.9 - - + +
57H MET 2.9 6.6 + - - +
58H ARG* 3.1 23.2 + - - +
60H ALA* 1.3 74.7 - - - +
62H ASN* 1.3 67.4 + - - +
64H ALA* 3.3 3.3 + - - +
65H GLU* 3.0 45.6 + - - +
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Residues in contact with ASN 62 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58H ARG* 2.8 48.2 + - - +
59H HIS* 3.7 6.3 - - - +
61H GLU* 1.3 76.3 - - - +
63H PHE* 1.3 64.9 + - - +
65H GLU* 3.3 19.2 + - - +
66H ARG* 3.1 24.4 + - - +
124H LEU* 3.9 29.6 - - + +
128H ILE* 4.7 6.4 - - + +
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Residues in contact with PHE 63 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H LEU* 3.8 22.8 - - + +
19H ALA* 3.7 20.9 - - + -
20H ARG* 3.8 33.0 - - + -
23H GLU* 3.7 24.0 - - + -
59H HIS* 2.9 23.9 + - + +
60H ALA 3.7 4.9 - - - +
62H ASN* 1.3 78.2 - - - +
64H ALA* 1.3 61.7 + - - +
66H ARG* 3.4 2.8 + - - +
67H ILE* 3.0 28.5 + - - +
106H TYR* 3.9 8.5 - + - -
124H LEU* 4.0 13.5 - - + -
125H PHE* 3.8 29.2 - + - -
128H ILE* 3.4 27.4 - - + -
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Residues in contact with ALA 64 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G TYR* 3.4 44.4 - - + -
20H ARG* 3.8 8.0 - - - +
60H ALA 3.1 12.0 + - - +
61H GLU 3.6 3.4 - - - +
63H PHE* 1.3 76.6 - - - +
65H GLU* 1.3 56.8 + - - +
67H ILE* 3.3 6.9 + - - +
68H LYS* 2.9 32.4 + - - +
74H PRO* 3.9 14.5 - - + +
----------------------------------------------------------
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Residues in contact with GLU 65 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G HIS* 5.0 3.8 + - - -
35G TYR* 4.4 11.4 - - + -
38G ASP* 4.0 17.5 - - - +
61H GLU* 3.0 32.5 + - + +
62H ASN* 3.3 26.8 + - - +
64H ALA* 1.3 76.0 - - - +
66H ARG* 1.3 64.4 + - - +
68H LYS* 3.1 8.6 + - - +
69H GLU* 2.9 32.2 + - + +
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Residues in contact with ARG 66 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H LEU* 3.9 13.5 - - + -
62H ASN 3.1 15.7 + - - +
63H PHE 3.9 3.4 - - - +
65H GLU* 1.3 75.8 - - - +
67H ILE* 1.3 64.6 + - - +
69H GLU* 2.8 48.6 + - - +
70H LEU* 3.0 39.3 + - + +
118H ASP* 3.0 29.9 + - - -
120H VAL* 3.6 26.8 - - - +
121H THR* 2.7 27.5 + - + +
124H LEU* 3.8 15.9 - - + -
133I GLN* 3.1 25.3 + - - +
----------------------------------------------------------
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Residues in contact with ILE 67 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ILE* 4.3 11.9 - - + +
16H LEU* 3.6 32.1 - - + +
17H ASN* 3.2 33.9 - - - +
20H ARG* 4.1 11.4 - - - -
63H PHE 3.0 20.5 + - - +
64H ALA* 3.4 6.5 - - - +
66H ARG* 1.3 75.5 - - - +
68H LYS* 1.3 61.4 + - - +
70H LEU* 3.1 11.1 + - - +
72H GLY* 2.9 50.7 + - - +
73H GLU 3.5 14.1 - - - +
74H PRO* 3.7 10.8 - - + -
----------------------------------------------------------
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Residues in contact with LYS 68 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G ASN 5.4 0.2 + - - -
35G TYR* 3.6 43.1 - - + +
36G SER* 3.4 21.6 + - - +
39G ASP* 3.9 35.9 + - + +
64H ALA 2.9 17.8 + - - +
65H GLU* 3.1 11.9 + - - +
67H ILE* 1.3 76.3 - - - +
69H GLU* 1.3 63.1 + - + +
71H GLY* 3.0 14.7 + - - -
72H GLY 3.5 15.4 + - - +
73H GLU* 3.2 24.4 + - - -
74H PRO* 3.8 10.3 - - + -
----------------------------------------------------------
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Residues in contact with GLU 69 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G ASP* 5.1 3.4 - - - +
9H LYS* 5.4 2.6 - - - -
65H GLU* 2.9 28.1 + - + +
66H ARG* 2.8 47.1 + - - +
68H LYS* 1.3 76.8 - - + +
70H LEU* 1.3 61.8 + - - +
71H GLY 3.2 1.0 + - - -
120H VAL* 5.1 1.2 - - - +
133I GLN* 4.2 19.0 + - - +
137I THR* 4.2 15.7 + - + +
140I GLU* 5.2 4.9 - - - +
----------------------------------------------------------
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Residues in contact with LEU 70 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H LYS* 3.7 47.5 - - + +
12H VAL* 3.6 35.9 - - + -
13H ILE* 3.8 21.7 - - + +
16H LEU* 3.6 18.8 - - + -
66H ARG* 3.0 37.9 + - - +
67H ILE 3.1 7.1 + - - +
69H GLU* 1.3 77.6 - - - +
71H GLY* 1.3 59.9 + - - +
72H GLY 3.3 1.2 + - - -
118H ASP* 3.9 8.7 - - - +
121H THR* 4.0 4.0 - - - +
----------------------------------------------------------
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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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