Contacts of the helix formed by residues 43 - 69 (chain A) in PDB entry 4QI1
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 ASP 43 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A VAL* 4.0 1.1 - - - +
42A GLN* 1.3 76.9 - - - +
44A PRO* 1.4 71.2 - - - +
45A ARG* 3.1 14.0 + - - +
46A GLN* 2.9 43.5 + - + +
47A LYS* 2.9 29.8 + - - +
237A ILE 4.9 1.7 - - - +
238A MET 5.5 5.3 - - - +
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Residues in contact with PRO 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A GLN 3.7 7.0 - - - +
43A ASP* 1.4 92.8 - - - +
45A ARG* 1.3 56.0 + - - +
47A LYS* 3.5 12.5 + - + +
48A GLU* 3.0 25.6 + - - +
114B ARG* 3.8 32.6 - - - +
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Residues in contact with ARG 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ASP* 3.1 10.1 + - - +
44A PRO* 1.3 76.6 - - - +
46A GLN* 1.3 66.2 + - - +
48A GLU* 3.2 14.1 + - - +
49A PHE* 3.1 44.5 + - + -
107A LEU* 3.3 25.0 + - + +
108A LEU* 3.9 16.0 + - - +
110A GLY* 6.0 0.4 - - - -
175A THR* 5.7 1.4 - - - +
236A ALA 3.8 19.8 + - - -
237A ILE* 4.4 7.3 + - - +
238A MET 5.6 1.4 + - - -
114B ARG* 4.0 19.5 - - - +
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Residues in contact with GLN 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A VAL* 3.7 32.7 - - + +
42A GLN 5.1 0.5 + - - -
43A ASP* 2.9 28.9 + - + +
45A ARG* 1.3 75.7 - - - +
47A LYS* 1.3 62.2 + - - +
49A PHE* 3.2 10.7 + - - +
50A TYR* 3.2 35.7 + - + -
237A ILE* 3.4 32.4 + - + +
238A MET* 3.8 32.1 - - - +
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Residues in contact with LYS 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A VAL* 3.4 28.3 + - + +
42A GLN* 3.0 30.9 + - - +
43A ASP 2.9 11.1 + - - +
44A PRO* 3.5 10.9 - - + +
45A ARG 3.2 0.2 - - - -
46A GLN* 1.3 75.3 - - - +
48A GLU* 1.3 64.9 + - - +
50A TYR* 3.2 6.6 + - - +
51A VAL* 3.0 29.8 + - + +
303A MPG 3.7 20.0 - - - +
115B ASP* 5.9 2.9 - - - +
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Residues in contact with GLU 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A PRO 3.0 14.7 + - - +
45A ARG* 3.2 12.7 + - + +
47A LYS* 1.3 75.5 - - - +
49A PHE* 1.3 63.6 + - + +
51A VAL* 3.2 8.3 + - + +
52A ILE* 3.1 38.7 + - + +
103A LEU* 5.2 4.3 - - - +
107A LEU* 3.7 29.2 - - + +
114B ARG* 3.4 45.4 + - + +
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Residues in contact with PHE 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A ARG* 3.1 60.0 + - + -
46A GLN* 3.2 8.1 + - - +
48A GLU* 1.3 77.2 - - + +
50A TYR* 1.4 62.4 + - - +
52A ILE* 3.6 0.6 + - - -
53A THR* 2.6 32.0 + - - -
104A ASP* 3.4 41.8 - - - +
107A LEU* 3.8 16.2 - - + -
108A LEU* 3.5 24.2 - - + -
231A LEU* 4.1 12.1 - - + -
232A LEU* 3.9 14.6 - - + -
237A ILE* 3.9 30.3 - - + -
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Residues in contact with TYR 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A PHE 3.5 19.3 - - - -
37A ASP* 2.8 31.3 + - + -
38A GLY* 3.4 28.9 - - - -
41A VAL* 3.8 22.9 - - + +
46A GLN* 3.2 33.3 + - + -
47A LYS 3.2 7.4 + - - +
49A PHE* 1.4 78.6 - - - +
51A VAL* 1.3 57.0 + - - +
53A THR* 3.1 0.7 + - - -
54A ILE* 2.8 44.4 + - + +
232A LEU* 3.7 41.1 + - + +
237A ILE* 4.3 4.5 - - + -
238A MET* 5.7 1.6 - - - +
303A MPG 3.8 15.7 - - - +
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Residues in contact with VAL 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A LYS* 3.0 30.2 + - + +
48A GLU* 3.2 9.6 + - + +
50A TYR* 1.3 72.1 - - - +
52A ILE* 1.3 66.8 + - + +
54A ILE* 3.9 1.4 - - - +
55A LEU* 3.0 28.8 + - + +
303A MPG 3.8 42.7 - - + +
118B ALA* 3.9 33.9 - - + +
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Residues in contact with ILE 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A GLU* 3.1 29.2 + - + +
49A PHE* 4.0 0.4 - - - +
51A VAL* 1.3 79.0 - - + +
53A THR* 1.3 63.1 + - - +
55A LEU* 3.4 7.1 + - - +
56A ILE* 3.2 28.2 + - + +
100A LEU* 3.5 39.5 - - + +
103A LEU* 4.0 18.4 - - + -
104A ASP* 3.6 24.7 - - - +
107A LEU* 3.4 33.4 - - + -
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Residues in contact with THR 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A PHE* 3.5 7.0 - - + -
49A PHE 2.6 23.4 + - - -
50A TYR 3.1 0.9 + - - -
52A ILE* 1.3 80.4 - - - +
54A ILE* 1.3 53.4 + - - +
56A ILE* 4.1 5.8 - - + +
57A PRO* 2.8 30.3 - - - +
104A ASP* 2.7 27.0 + - - +
224A LYS 5.2 1.8 - - - +
227A PHE* 5.6 0.9 - - + -
228A GLY* 3.5 32.5 - - - -
231A LEU* 3.6 6.4 - - + +
232A LEU* 3.7 24.7 - - + -
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Residues in contact with ILE 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A MET* 3.6 13.4 - - + +
34A PHE* 3.6 26.5 - - + +
35A ILE* 3.8 30.7 - - + +
50A TYR* 2.8 25.5 + - + +
51A VAL* 3.9 3.6 - - - +
53A THR* 1.3 77.9 - - - +
55A LEU* 1.3 63.6 + - - +
56A ILE 3.4 0.2 + - - -
57A PRO* 3.4 7.6 - - - +
58A ALA* 3.1 19.9 + - - +
303A MPG 3.4 63.3 - - + -
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Residues in contact with LEU 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A VAL* 3.0 24.6 + - + +
52A ILE* 3.7 7.2 - - - +
54A ILE* 1.3 78.1 - - - +
56A ILE* 1.3 56.6 + - - +
58A ALA* 3.3 3.6 + - - +
59A ILE* 2.9 56.3 + - + +
100A LEU* 4.0 24.9 - - + -
303A MPG 3.8 28.9 - - + +
118B ALA 5.9 0.2 - - - +
121B GLY* 4.1 37.2 - - - +
122B ILE* 4.9 1.6 - - + +
125B PHE* 4.6 7.0 - - + -
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Residues in contact with ILE 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A ILE* 3.2 27.8 + - + +
53A THR* 4.1 5.8 - - + +
54A ILE 3.3 0.6 - - - -
55A LEU* 1.3 76.8 - - - +
57A PRO* 1.3 71.2 - - + +
59A ILE 3.4 0.2 + - - -
60A ALA* 3.1 20.6 + - - +
97A THR* 3.7 21.3 - - - +
100A LEU* 3.7 31.2 - - + -
101A LEU* 4.0 27.4 - - + +
104A ASP* 4.0 12.3 - - - +
224A LYS* 3.6 35.7 - - + +
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Residues in contact with PRO 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A MET* 3.7 33.4 - - - +
31A MET* 4.0 19.5 - - + +
34A PHE* 4.1 12.3 - - + -
53A THR* 2.8 29.4 - - + +
54A ILE 3.4 7.0 - - - +
56A ILE* 1.3 86.6 - - + +
58A ALA* 1.3 56.3 + - - +
60A ALA* 4.2 7.0 - - + -
61A ALA* 2.7 37.0 + - - +
224A LYS* 5.3 4.0 - - + +
225A VAL* 4.6 6.5 - - + -
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Residues in contact with ALA 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A MET* 3.6 18.9 - - - +
54A ILE 3.1 19.7 + - - +
55A LEU* 3.3 5.8 + - + +
57A PRO* 1.3 75.7 - - - +
59A ILE* 1.3 63.2 + - - +
61A ALA* 3.3 4.7 + - - +
62A ALA* 3.0 25.3 + - - +
303A MPG 3.5 36.5 - - + +
125B PHE* 3.6 10.8 - - + -
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Residues in contact with ILE 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LEU* 2.9 36.7 + - + +
56A ILE 3.8 2.7 - - - +
58A ALA* 1.3 73.2 - - - +
60A ALA* 1.3 59.3 + - - +
62A ALA* 3.3 2.4 + - - +
63A SER* 2.9 28.1 + - - -
92A ALA 5.4 0.4 - - - +
93A ASP* 3.9 18.8 - - - +
96A PHE* 4.2 19.1 - - + -
97A THR* 3.6 17.7 - - + -
100A LEU* 3.8 27.1 - - + -
125B PHE* 4.1 22.4 - - + -
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Residues in contact with ALA 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A MET* 3.8 31.2 - - + -
56A ILE 3.1 17.0 + - - +
57A PRO 3.9 0.4 - - - +
59A ILE* 1.3 76.6 - - - +
61A ALA* 1.3 64.7 + - - +
63A SER* 3.4 0.5 + - - -
64A TYR* 2.9 31.2 + - + -
93A ASP* 3.8 22.4 - - - +
224A LYS* 3.8 13.7 - - + -
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Residues in contact with ALA 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A THR* 3.8 10.3 - - - +
27A MET* 3.7 19.5 - - + +
28A LEU* 4.0 12.8 - - - +
31A MET* 5.9 0.7 - - - -
57A PRO 2.7 22.8 + - - +
58A ALA* 3.3 2.4 + - - +
60A ALA* 1.3 72.2 - - - +
62A ALA* 1.3 56.4 + - - +
64A TYR* 3.7 4.5 - - - +
65A LEU* 2.9 29.1 + - - +
303A MPG 3.4 27.1 - - + -
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Residues in contact with ALA 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ALA 3.0 17.2 + - - +
59A ILE* 3.7 3.6 - - - +
61A ALA* 1.3 77.6 - - - +
63A SER* 1.3 56.6 + - - +
65A LEU* 3.5 4.6 + - - -
66A SER* 3.0 24.6 + - - -
303A MPG 4.0 8.7 - - + +
125B PHE* 3.9 22.7 - - + -
129B THR* 4.1 14.6 - - + -
145B PHE* 3.5 17.9 - - + -
148B ILE* 5.2 1.8 - - + -
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Residues in contact with SER 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ILE* 2.9 17.3 + - - -
60A ALA 3.6 4.3 - - - -
62A ALA* 1.3 72.2 - - - +
64A TYR* 1.3 66.8 + - - +
66A SER* 2.8 21.9 + - - -
67A MET* 3.0 25.6 + - - +
89A ALA* 3.3 23.1 + - - +
93A ASP* 3.6 22.7 + - - +
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Residues in contact with TYR 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A TRP 4.1 12.3 - - - -
20A LEU* 3.5 39.4 - - + +
23A GLY* 3.8 14.1 - - - -
24A THR* 3.3 23.4 + - - +
27A MET* 4.6 8.3 - - + -
60A ALA* 2.9 32.4 + - + +
61A ALA 3.7 2.0 - - - +
63A SER* 1.3 76.4 - - - +
65A LEU* 1.3 56.8 + - - +
67A MET* 3.2 18.4 + - + +
68A PHE* 2.9 27.9 + - - +
90A ARG* 3.4 16.1 + - - -
93A ASP* 4.6 8.1 - - - -
213A THR* 5.6 0.9 - - + -
216A PHE 3.4 0.7 + - - -
217A MET* 3.3 26.9 + - + -
220A ASP* 2.6 37.8 + - + -
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Residues in contact with LEU 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A THR* 3.3 22.1 + - + +
61A ALA 2.9 17.4 + - - +
62A ALA* 3.7 5.8 - - - +
63A SER 3.3 0.2 - - - -
64A TYR* 1.3 74.8 - - - +
66A SER* 1.3 65.7 + - - +
68A PHE* 3.2 13.7 + - + +
69A PHE* 3.1 54.6 + - + -
303A MPG 4.2 10.1 - - + -
144B ALA* 4.9 5.8 - - + -
145B PHE* 4.0 11.4 - - + -
148B ILE* 3.6 30.7 - - + -
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Residues in contact with SER 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ALA 3.0 15.3 + - - -
63A SER* 2.8 23.4 + - - -
65A LEU* 1.3 74.1 - - - +
67A MET* 1.3 55.3 + - - +
69A PHE* 3.1 14.2 + - - +
71A PHE* 3.0 43.0 + - - +
89A ALA* 4.1 9.2 - - - +
132B VAL* 4.1 19.5 - - - -
145B PHE* 3.6 18.8 - - - -
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Residues in contact with MET 67 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A LEU* 3.6 20.5 - - + +
63A SER* 3.0 37.8 + - - +
64A TYR* 3.7 25.1 - - + +
65A LEU 3.2 0.2 - - - -
66A SER* 1.3 71.9 - - - +
68A PHE* 1.4 66.9 + - - +
70A GLY* 3.0 14.4 + - - -
71A PHE 3.6 7.0 - - - +
87A TYR* 3.7 49.2 + - + -
89A ALA* 3.6 16.4 - - + -
90A ARG* 3.9 42.0 - - + +
93A ASP* 5.6 0.4 - - - +
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Residues in contact with PHE 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A LEU* 4.3 28.0 - - + -
17A GLY* 3.8 25.9 - - - -
20A LEU* 3.9 17.4 - - + +
21A ALA* 4.1 18.6 - - + -
24A THR* 4.9 1.1 - - - +
64A TYR 2.9 14.2 + - - +
65A LEU* 3.4 18.4 - - + +
67A MET* 1.4 77.6 - - - +
69A PHE* 1.3 93.0 + + - +
70A GLY 3.6 0.2 + - - -
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Residues in contact with PHE 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU* 3.1 46.9 + - + -
66A SER* 3.1 9.7 + - - +
68A PHE* 1.3 100.9 - + - +
70A GLY* 1.3 57.3 + - - +
71A PHE* 3.3 4.2 + - + +
136B THR* 4.9 3.7 + - - +
138B VAL* 3.4 38.8 - - + +
140B VAL* 3.9 31.4 - - + -
141B ALA* 3.6 32.1 - - + -
144B ALA* 4.6 7.9 - - + -
145B PHE* 4.3 5.4 - + + -
----------------------------------------------------------
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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