Contacts of the helix formed by residues 43 - 69 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B VAL* 4.2 1.2 - - - +
42B GLN* 1.3 76.7 - - - +
44B PRO* 1.4 69.7 - - - +
45B ARG* 3.0 14.4 + - - +
46B GLN* 2.9 45.1 + - + +
47B LYS* 2.8 30.0 + - - +
237B ILE 5.1 0.9 - - - +
238B MET 6.3 2.9 - - - -
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Residues in contact with PRO 44 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B GLN 3.3 7.6 - - - +
43B ASP* 1.4 91.4 - - - +
45B ARG* 1.3 57.1 + - - +
47B LYS* 3.4 11.9 + - + +
48B GLU 3.0 22.0 + - - -
114C ARG* 3.5 41.5 - - - +
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Residues in contact with ARG 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B ASP* 3.0 10.1 + - - +
44B PRO* 1.3 76.2 - - - +
46B GLN* 1.3 66.7 + - - +
48B GLU* 3.2 19.2 + - - +
49B PHE* 3.2 44.9 + - + -
107B LEU* 3.4 24.2 + - + +
108B LEU* 3.9 17.8 + - - +
110B GLY* 6.0 0.4 - - - -
175B THR* 5.6 1.6 + - - +
236B ALA 3.7 20.2 + - - -
237B ILE* 4.3 6.7 + - - +
114C ARG* 4.4 12.7 - - - +
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Residues in contact with GLN 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B VAL* 3.8 31.3 - - + +
42B GLN 5.2 0.3 + - - -
43B ASP* 2.9 28.5 + - + +
45B ARG* 1.3 74.9 - - - +
47B LYS* 1.3 63.4 + - - +
49B PHE* 3.1 18.3 + - - +
50B TYR* 3.3 33.4 + - + -
232B LEU 5.7 0.4 + - - -
237B ILE* 3.3 33.3 + - + +
238B MET* 3.7 31.4 - - - +
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Residues in contact with LYS 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B VAL* 2.9 40.3 - - + +
42B GLN* 2.7 27.3 + - - +
43B ASP 2.8 15.2 + - - +
44B PRO* 3.5 12.5 - - + +
46B GLN* 1.3 72.2 - - - +
48B GLU* 1.3 67.0 + - - +
50B TYR* 3.2 7.9 + - - +
51B VAL* 3.0 28.7 + - + +
306B MPG 5.2 8.6 + - - +
114C ARG* 5.9 0.9 - - - -
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Residues in contact with GLU 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B PRO 3.0 14.4 + - - +
45B ARG* 3.2 14.1 + - - +
47B LYS* 1.3 75.7 - - - +
49B PHE* 1.3 62.1 + - - +
51B VAL* 3.2 3.6 + - - +
52B ILE* 3.0 34.3 + - + +
103B LEU* 5.0 2.3 - - - +
107B LEU* 3.3 34.1 - - + +
302B MPG 2.8 43.9 + - - +
114C ARG* 3.6 28.0 + - - +
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Residues in contact with PHE 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B ARG* 3.2 56.0 + - + -
46B GLN* 3.1 8.5 + - - +
48B GLU* 1.3 79.3 - - + +
50B TYR* 1.3 57.1 + - - +
52B ILE* 4.8 0.4 - - - -
53B THR* 2.6 36.8 + - - -
104B ASP* 3.4 40.5 - - - +
107B LEU* 3.8 20.0 - - + -
108B LEU* 3.6 25.6 - - + -
231B LEU* 4.0 12.3 - - + -
232B LEU* 3.9 14.6 - - + -
237B ILE* 3.8 29.4 - - + -
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Residues in contact with TYR 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B PHE 3.5 19.1 - - - -
37B ASP* 2.6 29.5 + - + -
38B GLY* 3.4 29.6 - - - -
41B VAL* 3.8 23.0 - - + +
46B GLN* 3.3 31.0 + - + -
47B LYS* 3.2 9.3 + - - +
49B PHE* 1.3 75.3 - - - +
51B VAL* 1.3 65.4 + - - +
53B THR* 3.7 0.8 - - - -
54B ILE* 2.8 37.0 + - + +
232B LEU* 3.7 42.5 + - + -
237B ILE* 4.2 4.3 - - + -
306B MPG 3.8 15.7 - - - +
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Residues in contact with VAL 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B LYS* 3.0 22.8 + - + +
48B GLU* 3.2 6.2 + - - +
50B TYR* 1.3 75.4 - - - +
52B ILE* 1.3 66.5 + - - +
54B ILE* 3.9 5.4 - - - +
55B LEU* 3.0 28.6 + - + +
302B MPG 3.8 27.4 - - + +
306B MPG 4.3 29.2 - - + +
118C ALA* 4.0 25.1 - - + +
122C ILE* 5.7 3.8 - - + -
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Residues in contact with ILE 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B GLU* 3.0 25.6 + - + +
51B VAL* 1.3 81.1 - - - +
53B THR* 1.3 58.2 + - - +
55B LEU* 3.3 6.4 + - - +
56B ILE* 3.2 32.6 + - + +
100B LEU* 3.4 37.8 - - + +
103B LEU* 4.0 14.1 - - + -
104B ASP* 3.6 25.6 - - - +
107B LEU* 3.3 34.1 - - + -
302B MPG 3.9 22.2 - - - +
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Residues in contact with THR 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B PHE* 3.6 7.2 - - + -
49B PHE 2.6 23.9 + - - -
50B TYR 4.1 0.2 - - - -
52B ILE* 1.3 74.0 - - - +
54B ILE* 1.3 55.9 + - - +
56B ILE* 4.3 6.1 - - + -
57B PRO* 2.8 31.2 - - + +
104B ASP* 2.7 26.1 + - - +
224B LYS 5.1 2.2 - - - +
227B PHE* 5.7 1.1 - - + -
228B GLY* 3.5 31.9 - - - -
231B LEU* 3.5 7.9 - - + +
232B LEU* 3.8 23.7 - - + +
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Residues in contact with ILE 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B MET* 3.7 11.5 - - + +
34B PHE* 3.8 24.5 - - + +
35B ILE* 3.8 37.2 - - + +
50B TYR* 2.8 35.3 + - + +
51B VAL 3.9 2.7 - - - +
53B THR* 1.3 76.5 - - - +
55B LEU* 1.3 64.5 + - - +
56B ILE 3.3 0.2 - - - -
57B PRO* 3.3 8.5 - - - +
58B ALA* 3.1 19.6 + - - +
306B MPG 3.7 53.2 - - + +
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Residues in contact with LEU 55 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B VAL* 3.0 22.7 + - + +
52B ILE* 3.3 6.7 + - - +
54B ILE* 1.3 77.0 - - - +
56B ILE* 1.3 56.9 + - - +
58B ALA* 3.3 4.7 + - - +
59B ILE* 2.9 52.0 + - + +
100B LEU* 3.8 14.4 - - + -
302B MPG 3.7 43.5 - - + +
306B MPG 3.8 31.1 - - + +
121C GLY* 4.1 19.5 - - - +
122C ILE* 5.0 1.6 - - + +
125C PHE* 4.6 6.5 - - + -
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Residues in contact with ILE 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ILE* 3.2 23.9 + - + +
53B THR* 4.3 4.7 - - + +
54B ILE 3.3 0.4 - - - -
55B LEU* 1.3 77.0 - - - +
57B PRO* 1.4 72.0 - - + +
59B ILE* 3.3 4.2 + - - +
60B ALA* 3.1 19.9 + - - +
97B THR* 3.8 18.7 - - - +
100B LEU* 3.7 35.0 - - + +
101B LEU* 3.8 31.0 - - + +
104B ASP* 4.1 7.6 - - - +
224B LYS* 3.7 37.2 - - + +
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Residues in contact with PRO 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B MET* 3.6 35.2 - - - +
31B MET* 4.0 18.2 - - + +
34B PHE* 4.1 13.7 - - + -
53B THR* 2.8 30.3 - - + +
54B ILE 3.3 9.9 - - - +
56B ILE* 1.4 86.2 - - + +
58B ALA* 1.4 53.3 + - - +
60B ALA* 4.3 6.7 - - + -
61B ALA* 2.7 37.0 + - - +
224B LYS* 5.3 3.8 - - + +
225B VAL* 4.7 6.3 - - + -
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Residues in contact with ALA 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B MET* 3.5 25.2 - - - +
54B ILE 3.1 15.3 + - - +
55B LEU* 3.5 9.2 - - + +
56B ILE 3.3 0.2 - - - -
57B PRO* 1.4 75.7 - - - +
59B ILE* 1.3 64.4 + - - +
61B ALA* 3.2 3.9 + - - +
62B ALA* 3.0 25.3 + - - +
306B MPG 4.2 24.2 - - + +
125C PHE* 3.6 16.7 - - + -
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Residues in contact with ILE 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B LEU* 2.9 40.5 + - + +
56B ILE 3.7 3.8 - - - +
58B ALA* 1.3 74.2 - - - +
60B ALA* 1.3 60.1 + - - +
62B ALA* 3.3 2.3 + - - +
63B SER* 2.9 26.9 + - - -
92B ALA 5.5 0.2 - - - +
93B ASP* 3.9 20.2 - - - +
96B PHE* 4.5 4.7 - - + -
97B THR* 3.7 19.5 - - + -
100B LEU* 3.8 14.1 - - + -
302B MPG 3.6 64.6 - - + +
125C PHE* 4.2 3.4 - - + -
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Residues in contact with ALA 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B MET* 3.7 30.5 - - + -
56B ILE 3.1 15.5 + - - +
57B PRO 3.9 0.7 - - - +
59B ILE* 1.3 75.7 - - - +
61B ALA* 1.3 61.5 + - - +
64B TYR* 2.8 35.6 + - + -
93B ASP* 3.6 22.4 - - - +
224B LYS* 3.8 14.8 - - + -
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Residues in contact with ALA 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B THR* 3.7 14.4 - - - +
27B MET* 3.7 19.4 - - + +
28B LEU* 4.1 8.7 - - - +
31B MET* 5.9 0.4 - - - -
57B PRO 2.7 22.8 + - - +
58B ALA* 3.8 2.9 - - - +
60B ALA* 1.3 72.4 - - - +
62B ALA* 1.3 58.1 + - - +
64B TYR* 3.4 3.3 + - - -
65B LEU* 2.9 30.8 + - - +
306B MPG 3.5 26.5 - - + -
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Residues in contact with ALA 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B ALA 3.0 16.9 + - - +
59B ILE 3.7 2.9 - - - +
61B ALA* 1.3 76.8 - - - +
63B SER* 1.3 56.8 + - - +
65B LEU* 3.5 1.1 + - - -
66B SER* 3.0 25.8 + - - -
302B MPG 3.8 17.7 - - + +
306B MPG 3.9 10.9 - - + +
125C PHE* 3.8 22.2 - - + -
129C THR* 4.2 7.6 - - + -
145C PHE* 3.4 17.2 - - + -
148C ILE* 5.2 1.6 - - + -
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Residues in contact with SER 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B ILE 2.9 17.7 + - - -
60B ALA 3.7 3.4 - - - -
62B ALA* 1.3 74.7 - - - +
64B TYR* 1.3 65.4 + - - +
66B SER* 2.8 22.9 + - - -
67B MET* 3.1 23.8 + - - +
89B ALA* 3.4 22.6 + - - +
93B ASP* 3.4 24.6 + - - +
302B MPG 3.9 13.3 - - - +
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Residues in contact with TYR 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B TRP 4.1 10.3 - - - -
20B LEU* 3.7 41.8 - - + +
23B GLY* 3.9 13.0 - - - -
24B THR* 3.3 22.5 + - - +
27B MET* 4.7 7.4 - - + -
60B ALA* 2.8 33.1 + - + +
61B ALA 3.8 1.8 - - - +
63B SER* 1.3 73.1 - - - +
65B LEU* 1.3 58.0 + - - +
67B MET* 3.3 15.5 + - + +
68B PHE* 2.9 27.5 + - - +
90B ARG* 3.1 16.8 + - - -
93B ASP* 4.6 9.2 - - - -
213B THR 5.7 0.4 - - - -
216B PHE 3.5 0.2 + - - -
217B MET* 3.4 25.5 - - + -
220B ASP* 2.6 36.5 + - + -
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Residues in contact with LEU 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B THR* 3.3 21.2 + - + +
61B ALA 2.9 18.4 + - - +
62B ALA* 3.8 4.3 - - - +
63B SER 3.3 0.2 - - - -
64B TYR* 1.3 77.4 - - - +
66B SER* 1.3 62.0 + - - +
68B PHE* 3.2 15.4 + - + +
69B PHE* 3.1 56.5 + - + -
306B MPG 4.1 11.7 - - + -
144C ALA* 4.8 6.5 - - + -
145C PHE* 4.1 12.1 - - + -
148C ILE* 3.7 30.1 - - + -
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Residues in contact with SER 66 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ALA 3.0 14.8 + - - -
63B SER* 2.8 21.5 + - - -
65B LEU* 1.3 75.4 - - - +
67B MET* 1.3 57.1 + - - +
69B PHE* 3.2 8.6 + - - +
71B PHE* 2.9 53.2 + - - +
89B ALA* 4.0 2.6 - - - +
302B MPG 3.8 16.5 - - - +
132C VAL* 4.3 4.7 - - - -
145C PHE* 3.5 19.3 - - - -
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Residues in contact with MET 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B LEU* 3.6 19.9 - - + +
63B SER* 3.1 29.0 + - - +
64B TYR* 3.7 29.2 - - + +
66B SER* 1.3 76.2 + - - +
68B PHE* 1.3 60.8 + - - +
70B GLY* 2.9 19.6 + - - -
71B PHE 3.6 7.4 - - - +
72B GLY 4.6 0.2 - - - +
87B TYR* 3.7 41.0 + - + -
89B ALA* 3.9 14.4 - - + -
90B ARG* 3.8 50.9 - - + +
93B ASP* 5.7 0.2 - - - +
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Residues in contact with PHE 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B LEU* 4.6 23.1 - - + -
17B GLY* 3.6 28.3 - - - -
20B LEU* 3.8 16.5 - - + +
21B ALA* 4.0 20.6 - - + -
24B THR* 4.8 1.1 - - - +
64B TYR 2.9 15.0 + - - +
65B LEU* 3.2 20.6 + - + +
67B MET* 1.3 75.7 - - - +
69B PHE* 1.3 91.6 + + - +
70B GLY 3.5 0.5 + - - -
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Residues in contact with PHE 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B LEU* 3.1 50.7 + - + -
66B SER* 3.2 7.8 + - - +
67B MET 3.1 0.8 - - - -
68B PHE* 1.3 101.7 - + - +
70B GLY* 1.3 58.8 + - - +
71B PHE* 3.3 2.6 + - + +
136C THR* 4.8 4.0 + - - +
138C VAL* 3.5 38.5 - - + +
140C VAL* 4.1 31.4 - - + -
141C ALA* 3.5 31.0 - - + -
144C ALA* 4.5 6.5 - - + -
145C 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