Contacts of the helix formed by residues 56 - 85 (chain G) in PDB entry 3MGO
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 GLY 56 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54G GLN 3.5 4.0 + - - -
55G GLU* 1.3 77.3 + - - +
57G PRO* 1.3 76.6 - - - +
58G GLU* 3.2 3.6 - - - -
59G TYR* 3.2 12.1 + - - +
60G TRP* 3.2 19.0 + - - -
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Residues in contact with PRO 57 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G ARG* 5.9 0.4 - - - +
56G GLY* 1.3 81.8 - - - +
58G GLU* 1.3 60.8 + - + +
60G TRP* 3.2 6.6 + - + +
61G ASP* 2.8 46.0 + - - +
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Residues in contact with GLU 58 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G GLY* 3.2 1.3 - - - -
57G PRO* 1.3 81.1 - - + +
59G TYR* 1.3 65.7 + - - +
61G ASP* 3.4 6.1 + - - +
62G GLY* 2.9 21.5 + - - -
65G ARG* 3.8 19.9 + - - -
0I ARG* 4.7 7.8 + - - -
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Residues in contact with TYR 59 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G TYR* 4.6 0.5 + - - -
33G PHE* 3.9 9.7 - - - -
34G VAL* 4.5 3.4 - - + +
52G ILE* 3.6 22.4 - - + +
55G GLU* 3.7 38.1 - - + +
56G GLY* 3.2 12.4 + - - +
58G GLU* 1.3 83.6 + - - +
60G TRP* 1.3 83.9 + + - +
62G GLY* 3.8 0.7 - - - -
63G GLU* 2.9 61.9 + - + +
167G TRP* 3.8 15.7 - + - -
171G TYR* 2.9 28.2 + + - -
0I ARG* 3.5 24.8 + - + +
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Residues in contact with TRP 60 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G VAL* 3.7 26.9 - - + -
44G ARG* 3.8 16.4 - - - +
45G MET* 3.2 40.6 - - + +
46G GLU 3.8 3.1 - - - -
47G PRO* 3.5 40.6 - - + -
52G ILE* 3.5 27.0 + - + -
53G GLU* 4.5 4.8 + - - +
55G GLU* 3.2 20.5 + - - +
56G GLY 3.2 23.9 + - - -
57G PRO* 3.2 7.3 + - + +
59G TYR* 1.3 87.4 - + - +
61G ASP* 1.3 58.9 + - - +
63G GLU* 4.1 1.5 - - + +
64G THR* 2.6 39.4 + - - +
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Residues in contact with ASP 61 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G ARG* 2.5 39.7 + - - +
57G PRO* 2.8 34.8 + - - +
58G GLU* 3.8 7.1 - - - +
60G TRP* 1.3 71.8 - - - +
62G GLY* 1.3 57.4 + - - +
64G THR* 3.6 2.8 - - - -
65G ARG* 3.0 51.0 + - - +
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Residues in contact with GLY 62 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G GLU* 2.9 17.7 + - - -
59G TYR* 3.8 1.1 - - - -
61G ASP* 1.3 77.6 - - - +
63G GLU* 1.3 61.6 - - - +
65G ARG* 3.2 23.6 + - - +
66G LYS* 3.0 35.8 + - - +
0I ARG* 6.0 2.0 - - - -
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Residues in contact with GLU 63 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G TYR* 4.0 3.6 + - - -
34G VAL* 6.1 0.6 - - + +
45G MET* 4.0 24.3 - - + +
59G TYR* 2.9 47.4 + - + +
60G TRP* 4.1 4.0 - - - +
62G GLY* 1.3 74.2 - - - +
64G THR* 1.3 57.9 + - - +
66G LYS* 2.9 29.9 + - - +
67G VAL* 2.9 33.3 + - - +
0I ARG* 3.3 25.8 + - - +
1I LEU* 3.0 35.8 + - - +
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Residues in contact with THR 64 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43G GLN 3.7 23.1 - - - +
44G ARG* 3.9 26.4 + - + +
45G MET* 3.2 20.2 + - - +
60G TRP 2.6 25.5 + - - -
61G ASP* 3.6 6.3 - - - -
63G GLU* 1.3 74.3 - - - +
65G ARG* 1.3 66.1 + - + +
67G VAL* 3.1 24.1 - - + +
68G LYS* 3.1 23.7 + - + +
----------------------------------------------------------
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Residues in contact with ARG 65 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G GLU* 3.8 17.0 + - - -
61G ASP* 3.0 35.4 + - - +
62G GLY* 3.5 22.3 - - - +
64G THR* 1.3 77.9 - - + +
66G LYS* 1.3 66.2 + - + +
68G LYS* 3.2 12.6 + - + +
69G ALA* 3.1 20.0 + - - +
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Residues in contact with LYS 66 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62G GLY* 3.0 24.4 + - - +
63G GLU* 2.9 34.9 + - - +
65G ARG* 1.3 77.0 - - + +
67G VAL* 1.3 55.1 + - - +
69G ALA* 3.1 8.7 + - - +
70G HIS* 2.7 44.0 + - + -
0I ARG* 3.7 18.2 - - - +
1I LEU* 3.1 32.3 + - + +
2I TYR 4.0 2.9 - - - +
3I GLN* 3.7 35.3 - - + +
----------------------------------------------------------
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Residues in contact with VAL 67 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G PHE* 4.7 2.9 - - + -
22G PHE* 3.7 8.3 - - + -
24G ALA* 3.7 30.3 - - + -
36G PHE* 3.7 38.4 - - + -
45G MET* 3.7 11.9 - - + -
63G GLU 2.9 16.3 + - - +
64G THR* 3.1 20.4 - - - +
66G LYS* 1.3 76.9 - - - +
68G LYS* 1.3 61.1 + - - +
70G HIS* 3.4 4.9 - - - +
71G SER* 2.9 26.9 + - - -
1I LEU* 3.5 13.1 - - + +
----------------------------------------------------------
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Residues in contact with LYS 68 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36G PHE* 4.5 15.7 - - + -
43G GLN* 3.5 37.2 + - - +
64G THR* 3.1 22.8 + - + +
65G ARG* 3.2 11.0 + - - +
67G VAL* 1.3 78.8 - - + +
69G ALA* 1.3 61.1 + - - +
71G SER* 3.1 9.2 + - - -
72G GLN* 2.9 35.5 + - + +
----------------------------------------------------------
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Residues in contact with ALA 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G ARG 3.1 12.0 + - - +
66G LYS* 3.3 12.6 - - - +
68G LYS* 1.3 74.7 - - - +
70G HIS* 1.3 66.8 + - - +
72G GLN* 3.3 6.2 + - - +
73G THR* 3.1 28.5 + - - -
5I PRO* 6.4 2.0 - - + -
6I THR* 5.4 1.6 - - + -
----------------------------------------------------------
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Residues in contact with HIS 70 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G PHE* 3.6 28.5 - + + -
22G PHE* 4.1 11.4 - - + -
66G LYS* 2.7 32.7 + - + -
67G VAL* 3.4 12.1 - - - +
69G ALA* 1.3 76.9 - - + +
71G SER* 1.3 60.8 + - - +
73G THR* 3.3 4.9 + - - -
74G HIS* 2.7 34.9 + - - +
97G ARG* 3.4 26.3 + - - +
99G TYR* 3.1 21.4 + - - -
1I LEU* 4.3 7.1 - - + +
2I TYR* 3.4 25.4 + - - +
4I ASN 5.4 0.2 - - - -
6I THR* 4.1 16.0 - - + +
----------------------------------------------------------
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Residues in contact with SER 71 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G SER* 5.5 0.2 + - - -
22G PHE* 3.5 41.6 - - - +
36G PHE* 5.0 4.9 - - - -
38G SER* 5.1 3.1 - - - -
67G VAL 2.9 14.2 + - - -
68G LYS* 3.2 13.9 - - - -
70G HIS* 1.3 75.9 - - - +
72G GLN* 1.3 72.1 + - - +
74G HIS* 3.1 5.7 + - - +
75G ARG* 3.0 21.5 + - - +
----------------------------------------------------------
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Residues in contact with GLN 72 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G LYS* 2.9 20.5 + - + +
69G ALA* 3.9 6.3 - - - +
71G SER* 1.3 85.5 + - - +
73G THR* 1.3 62.2 + - - +
75G ARG* 3.0 52.0 + - - +
76G VAL* 3.2 27.1 + - - +
8I TYR* 5.1 2.0 - - - +
----------------------------------------------------------
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Residues in contact with THR 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69G ALA* 3.1 13.2 + - - +
70G HIS* 3.6 8.5 - - - -
72G GLN* 1.3 76.6 - - - +
74G HIS* 1.3 61.6 + - + +
76G VAL* 3.2 4.3 + - - +
77G ASP* 2.9 45.1 + - - +
116G TYR* 5.1 3.1 - - - +
6I THR* 3.1 31.9 + - - +
7I THR 3.9 12.8 - - - +
8I TYR* 3.8 29.8 + - + -
----------------------------------------------------------
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Residues in contact with HIS 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G PHE* 3.9 16.7 - + + +
11G SER* 3.9 24.2 - - - +
22G PHE* 4.1 12.8 - + + -
70G HIS* 2.7 31.6 + - + +
71G SER 3.5 8.1 - - - +
73G THR* 1.3 76.4 - - - +
75G ARG* 1.3 66.0 + - - +
77G ASP* 3.1 9.6 + - - +
78G LEU* 3.0 27.5 + - - +
95G VAL* 3.9 27.0 - - + +
97G ARG* 3.8 49.0 + - - +
116G TYR* 4.1 9.6 - + - -
----------------------------------------------------------
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Residues in contact with ARG 75 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G SER* 4.6 1.3 + - - -
19G GLU* 2.9 38.5 + - - -
20G PRO* 3.5 29.6 - - + -
71G SER 3.0 12.9 + - - +
72G GLN* 3.0 43.9 + - - +
74G HIS* 1.3 77.6 - - - +
76G VAL* 1.3 69.7 + - - +
78G LEU* 3.5 15.5 + - - +
79G GLY* 3.8 2.9 + - - -
----------------------------------------------------------
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Residues in contact with VAL 76 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72G GLN* 3.2 14.2 + - + +
73G THR 3.5 7.0 - - - +
74G HIS 3.2 0.4 - - - -
75G ARG* 1.3 86.2 - - + +
77G ASP* 1.3 65.0 + - - +
79G GLY* 3.1 5.0 + - - -
80G THR* 3.1 29.5 + - - +
8I TYR* 3.6 36.6 - - + +
----------------------------------------------------------
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Residues in contact with ASP 77 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73G THR* 2.9 33.2 + - - +
74G HIS* 3.1 13.8 + - - +
76G VAL* 1.3 76.2 - - - +
78G LEU* 1.3 56.4 + - - +
80G THR* 3.7 6.5 + - - -
81G LEU* 2.9 41.8 + - + +
95G VAL* 5.1 7.0 - - + -
116G TYR* 4.1 14.0 + - - -
7I THR 4.8 0.3 - - - +
8I TYR* 3.6 9.5 - - - +
9I ILE* 2.8 48.3 + - + +
----------------------------------------------------------
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Residues in contact with LEU 78 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G SER* 3.2 28.3 - - - +
13G SER* 3.9 21.1 - - - +
20G PRO* 3.6 29.6 - - + -
74G HIS 3.0 15.3 + - - +
75G ARG* 3.6 9.0 - - - +
76G VAL 3.2 0.4 - - - -
77G ASP* 1.3 75.8 - - - +
79G GLY* 1.3 61.7 + - - +
81G LEU* 3.9 3.1 - - - +
82G ARG* 3.1 22.7 + - - +
93G HIS* 3.8 29.3 - - + +
95G VAL* 3.4 26.2 - - + +
118G TYR* 4.6 4.5 + - + -
----------------------------------------------------------
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Residues in contact with GLY 79 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G ARG 3.8 4.2 + - - -
76G VAL 3.1 6.4 + - - -
78G LEU* 1.3 75.6 - - - +
80G THR* 1.3 66.1 + - - +
82G ARG* 3.0 19.0 + - - +
83G GLY* 3.0 19.1 + - - -
----------------------------------------------------------
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Residues in contact with THR 80 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76G VAL* 3.1 23.9 + - - +
77G ASP* 3.3 12.1 + - - -
79G GLY* 1.3 74.5 - - - +
81G LEU* 1.3 57.3 + - - +
83G GLY* 3.3 3.8 + - - +
84G TYR* 3.0 62.1 + - + +
146G LYS* 4.9 2.5 - - - +
8I TYR* 5.7 1.7 - - - +
9I ILE* 3.9 15.1 - - + -
----------------------------------------------------------
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Residues in contact with LEU 81 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77G ASP* 2.9 26.0 + - + +
78G LEU 3.9 1.6 - - - +
80G THR* 1.3 74.2 - - - +
82G ARG* 1.3 64.4 + - - +
84G TYR* 3.4 6.9 + - + -
85G TYR* 3.2 36.8 + - + +
95G VAL* 3.5 20.4 - - + -
116G TYR* 6.2 0.9 - - + -
117G ALA 5.8 0.2 - - - +
118G TYR* 3.5 40.4 + - + -
123G TYR* 3.5 45.5 - - + +
9I ILE* 3.7 20.4 - - + -
----------------------------------------------------------
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Residues in contact with ARG 82 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G LEU 3.1 14.1 + - - +
79G GLY* 3.0 18.5 + - - +
81G LEU* 1.3 76.8 - - - +
83G GLY* 1.3 63.4 + - - +
85G TYR 3.7 0.5 + - - -
86G ASN* 3.2 3.6 + - - -
87G GLN* 2.9 74.4 + - + +
88G SER* 3.4 17.0 - - - +
89G GLU* 3.1 45.2 + - - +
91G GLY 5.9 0.9 - - - -
93G HIS* 5.5 6.5 - - + -
118G TYR* 4.0 3.5 + - - +
----------------------------------------------------------
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Residues in contact with GLY 83 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G GLY 3.0 11.9 + - - -
80G THR* 3.3 4.2 + - - -
81G LEU 3.2 0.2 - - - -
82G ARG* 1.3 80.9 - - - +
84G TYR* 1.3 66.4 + - - +
86G ASN* 3.1 14.5 + - - +
----------------------------------------------------------
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Residues in contact with TYR 84 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G THR* 3.0 36.3 + - + +
81G LEU* 3.4 16.4 + - + +
83G GLY* 1.3 78.0 - - - +
85G TYR* 1.3 64.2 + - + +
86G ASN* 3.6 1.2 + - - +
123G TYR* 3.4 26.2 - - - -
139G ALA* 3.9 24.8 - - + +
142G THR* 3.9 26.4 - - + +
143G THR* 3.8 2.2 - - - -
146G LYS* 3.3 15.6 + - - -
9I ILE* 3.0 26.4 + - + -
----------------------------------------------------------
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Residues in contact with TYR 85 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81G LEU* 3.2 26.5 + - + +
83G GLY 3.2 0.4 - - - -
84G TYR* 1.3 78.2 - - + +
86G ASN* 1.3 73.7 + - - +
87G GLN* 3.5 26.2 + - - +
118G TYR* 3.7 29.9 - + - +
121G LYS* 5.6 4.3 + - - -
123G TYR* 3.4 25.2 - + - -
137G ASP* 2.8 36.6 + - - -
139G ALA* 3.6 19.3 - - + -
----------------------------------------------------------
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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