Contacts of the helix formed by residues 86 - 108 (chain G) in PDB entry 2POZ
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 86 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84C ASN 5.3 0.9 - - - -
85C GLY 4.9 0.7 - - - -
86C GLY* 3.9 26.6 - - - -
87C ALA 4.8 2.0 - - - +
85G GLY* 1.3 73.2 - - - -
87G ALA* 1.3 66.2 - - - -
88G ILE 3.3 2.9 - - - -
89G ILE* 3.2 9.6 - - - +
90G PHE* 3.1 24.3 + - - +
260G TYR* 4.0 13.7 - - - -
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Residues in contact with ALA 87 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C TRP* 3.6 33.7 - - + +
85C GLY* 5.7 0.8 - - - -
86C GLY 4.9 3.4 - - - +
39G ILE* 4.2 6.1 - - + -
86G GLY* 1.3 70.9 - - - -
88G ILE* 1.3 60.3 + - + +
91G ALA* 2.7 35.9 + - - +
260G TYR* 3.4 42.0 - - + +
283G THR* 4.8 1.8 - - + +
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Residues in contact with ILE 88 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ALA* 4.2 0.7 - - + -
51C MSE 5.4 2.5 - - - -
81C TRP* 5.3 7.9 - - + -
88C ILE* 3.6 46.2 - - + -
89C ILE* 4.7 10.5 - - + +
39G ILE* 4.2 22.4 - - + -
43G VAL 5.5 0.2 - - - +
44G GLY* 4.1 23.8 - - - +
47G ALA* 3.9 26.0 - - + +
48G ALA* 4.3 3.7 - - - +
51G MSE 3.7 15.0 - - + +
86G GLY 3.3 0.6 - - - -
87G ALA* 1.3 78.9 - - + +
89G ILE* 1.3 65.5 + - - +
91G ALA* 3.8 3.1 - - - +
92G GLY* 3.1 17.7 + - - -
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Residues in contact with ILE 89 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C VAL 4.6 3.1 - - - +
88C ILE* 4.6 7.6 - - + +
51G MSE 3.6 29.8 - - - +
55G LEU* 4.3 6.1 - - + -
79G SER* 3.9 25.4 - - - +
81G TRP* 3.8 19.5 - - + +
82G ALA* 3.9 21.3 - - + +
85G GLY* 3.8 4.9 - - - -
86G GLY 3.2 28.9 - - - +
88G ILE* 1.3 77.5 - - - +
90G PHE* 1.3 70.2 + - + +
92G GLY* 3.4 1.6 + - - -
93G ILE* 3.1 37.0 + - + +
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Residues in contact with PHE 90 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237C PHE* 3.8 6.7 - + - -
72G TRP* 4.2 13.5 - + - -
76G TYR* 3.8 26.0 - + - -
82G ALA* 3.1 31.9 - - + -
85G GLY* 3.5 21.3 - - - -
86G GLY 3.1 21.3 + - - +
87G ALA 4.5 0.2 - - - +
89G ILE* 1.3 80.7 - - + +
91G ALA* 1.3 56.6 + - - +
93G ILE* 3.7 22.2 - - + +
94G SER* 2.6 37.9 + - - -
260G TYR* 4.1 6.7 - - + -
261G THR* 3.5 34.5 - - + -
283G THR 3.2 20.2 - - - +
285G GLY* 4.2 3.5 - - - +
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Residues in contact with ALA 91 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G ALA* 3.4 18.8 - - + +
39G ILE* 3.5 30.1 - - + -
48G ALA* 5.2 1.3 - - + -
87G ALA 2.7 25.7 + - - +
88G ILE 3.3 3.3 + - - +
90G PHE* 1.3 73.5 - - - +
92G GLY* 1.3 63.9 + - - +
94G SER* 3.4 2.4 + - - -
95G ALA 3.1 18.2 + - - -
282G GLY 3.2 20.9 - - - +
283G THR* 4.1 3.8 + - + +
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Residues in contact with GLY 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G ALA* 4.5 0.9 - - - +
48G ALA 5.0 1.5 + - - -
51G MSE 4.3 4.7 - - - -
52G ILE* 3.7 24.8 - - - +
55G LEU* 3.9 11.7 - - - -
88G ILE 3.1 12.4 + - - -
89G ILE 3.9 3.4 - - - -
91G ALA* 1.3 80.0 - - - +
93G ILE* 1.3 60.7 + - - +
95G ALA* 3.5 2.9 + - - +
96G ILE* 3.3 26.7 + - - +
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Residues in contact with ILE 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55G LEU* 3.7 17.0 - - + -
72G TRP* 3.4 39.5 - - + +
75G MSE 4.1 38.1 - - + +
76G TYR* 4.6 3.4 - - + +
82G ALA* 4.7 2.2 - - + -
89G ILE* 3.1 32.7 + - + +
90G PHE* 3.9 26.7 - - + +
92G GLY* 1.3 73.5 - - - +
94G SER* 1.3 59.6 + - - +
96G ILE* 3.4 6.1 + - - +
97G GLU* 2.8 27.0 + - - +
285G GLY 4.2 0.9 - - - +
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Residues in contact with SER 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90G PHE 2.6 24.7 + - - -
91G ALA 3.6 4.5 - - - -
93G ILE* 1.3 75.5 - - - +
95G ALA* 1.3 57.2 + - - +
97G GLU* 3.1 1.9 + - - +
98G GLN* 2.8 40.4 + - - +
281G ILE 3.1 22.5 + - - -
282G GLY* 3.6 9.6 - - - -
283G THR 3.6 4.0 + - - -
285G GLY 2.8 35.2 + - - -
286G GLY 3.1 1.5 + - - +
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Residues in contact with ALA 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21G VAL 5.3 0.2 - - - +
23G VAL* 3.6 15.1 - - + +
35G GLY* 3.5 6.6 - - - -
36G GLU* 3.8 15.2 + - - +
37G ALA 3.6 22.2 - - - +
52G ILE* 3.8 18.8 - - + -
91G ALA 3.1 7.9 + - - +
92G GLY 3.7 8.5 - - - +
94G SER* 1.3 79.1 - - - +
96G ILE* 1.3 64.3 + - - +
98G GLN* 3.2 4.2 + - - +
99G ALA 3.1 17.0 + - - -
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Residues in contact with ILE 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G VAL* 4.6 6.3 - - + -
25G ILE* 3.9 4.2 - - + +
52G ILE* 4.3 14.8 - - + -
55G LEU* 3.8 29.6 - - + -
56G SER* 4.0 6.1 - - - +
60G LEU* 3.7 39.9 - - + -
75G MSE 3.7 29.2 - - + -
92G GLY 3.3 13.8 + - - +
93G ILE 3.6 6.3 - - - +
94G SER 3.2 0.2 - - - -
95G ALA* 1.3 80.6 - - - +
97G GLU* 1.3 62.4 + - - +
99G ALA* 3.2 9.6 + - - +
100G LEU* 3.0 28.9 + - + +
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Residues in contact with GLU 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68G ILE* 4.0 12.1 - - + -
72G TRP* 4.0 20.4 - - + -
75G MSE 5.6 1.6 - - + -
93G ILE 2.8 21.2 + - - +
94G SER 3.1 3.3 + - - +
96G ILE* 1.3 71.0 - - - +
98G GLN* 1.3 70.3 + - - +
100G LEU* 3.1 19.2 + - + +
101G TRP* 3.1 42.2 + - + +
285G GLY 4.0 7.3 - - - +
286G GLY* 3.3 5.5 - - - -
287G LEU* 2.8 24.9 + - - -
288G MSE 2.9 30.3 + - - +
289G GLU 3.8 2.6 + - - -
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Residues in contact with GLN 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34G ALA 3.7 3.4 - - - +
35G GLY* 3.6 7.2 - - - -
36G GLU* 2.8 45.0 + - - +
94G SER 2.8 20.6 + - - +
95G ALA 3.2 6.5 + - - +
97G GLU* 1.3 81.5 - - - +
99G ALA* 1.3 62.3 + - - +
101G TRP* 3.3 4.7 + - - +
102G ASP* 3.1 21.3 + - - +
281G ILE* 3.1 38.9 + - + +
282G GLY* 3.6 5.5 - - - -
287G LEU* 4.5 22.4 - - + +
313G LEU* 5.4 0.9 - - - +
314G ILE* 4.6 3.4 - - - +
317G ALA* 4.4 10.1 - - + +
366G LEU* 3.6 10.8 - - + +
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Residues in contact with ALA 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G VAL* 4.4 4.0 - - + -
25G ILE* 3.6 22.2 - - + -
33G GLY* 3.6 22.5 - - - +
34G ALA 3.4 15.7 + - - +
35G GLY 4.2 0.9 - - - +
95G ALA 3.1 9.1 + - - +
96G ILE 3.4 9.4 - - - +
97G GLU 3.2 0.2 - - - -
98G GLN* 1.3 81.0 - - - +
100G LEU* 1.3 61.8 + - - +
102G ASP* 3.2 3.3 + - - +
103G ILE* 3.0 27.4 + - - +
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Residues in contact with LEU 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5G ILE* 4.5 4.9 - - + -
25G ILE* 4.3 15.5 - - + -
65G PRO* 3.7 36.4 - - + +
68G ILE* 3.6 37.9 - - + +
71G LEU* 3.5 34.8 - - + -
75G MSE 5.1 2.0 - - + -
96G ILE* 3.0 31.6 + - + +
97G GLU* 3.1 10.7 + - + +
99G ALA* 1.3 77.6 - - - +
101G TRP* 1.3 56.8 + - - +
103G ILE* 3.4 8.9 + - + +
104G LYS* 3.1 22.0 + - - +
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Residues in contact with TRP 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115D LEU 3.6 25.4 - - - -
117D GLY* 3.6 24.9 - - - -
68G ILE* 3.5 23.2 - - + +
69G GLU* 4.9 1.1 - - - -
97G GLU* 3.1 55.9 + - + -
98G GLN 3.8 6.5 - - - +
99G ALA 3.3 0.2 - - - -
100G LEU* 1.3 73.7 - - - +
102G ASP* 1.3 60.6 + - - +
104G LYS* 3.7 9.4 - - + +
105G GLY* 2.8 29.1 + - - -
112G VAL* 3.7 24.3 - - + +
115G LEU* 3.8 27.1 - - + -
116G PHE* 3.5 33.4 - + - -
287G LEU* 4.4 11.2 - - + -
288G MSE 3.8 21.9 - - + +
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Residues in contact with ASP 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G GLY* 3.1 9.9 - - - -
34G ALA* 2.9 24.6 + - - +
98G GLN 3.1 13.5 + - - +
99G ALA 3.2 10.5 - - - +
101G TRP* 1.3 78.9 - - - +
103G ILE* 1.3 62.7 + - - +
105G GLY 3.3 0.2 + - - -
106G LYS* 3.0 55.8 + - - +
364G PRO 4.4 0.2 - - - +
365G GLY* 3.5 4.4 - - - -
366G LEU* 2.9 48.1 + - + +
367G GLY 4.5 0.9 + - - -
368G ALA 5.0 4.1 + - - +
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Residues in contact with ILE 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3G LEU* 4.3 10.8 - - + -
25G ILE* 4.1 21.1 - - + +
27G THR* 3.7 23.3 - - + -
31G ILE* 4.1 13.6 - - + +
32G THR* 3.7 5.6 - - - -
33G GLY 3.6 24.2 - - - +
65G PRO* 4.5 22.0 - - + -
99G ALA 3.0 18.1 + - - +
100G LEU* 3.7 9.6 - - + +
101G TRP 3.2 0.2 - - - -
102G ASP* 1.3 75.7 - - - +
104G LYS* 1.3 58.4 + - - +
106G LYS* 3.2 3.0 + - - +
107G CYS* 2.9 47.8 + - - -
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Residues in contact with LYS 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114D GLU* 3.0 43.8 + - - +
115D LEU* 4.8 0.4 - - - +
117D GLY* 4.1 6.1 - - - -
118D GLY 3.8 1.6 - - - +
65G PRO 6.3 0.2 - - - -
66G SER* 2.9 37.0 + - - +
68G ILE* 3.5 25.4 - - + -
100G LEU 3.1 15.8 + - - +
101G TRP* 3.8 22.2 - - + +
103G ILE* 1.3 77.9 - - - +
105G GLY* 1.3 64.0 + - - +
107G CYS* 3.3 8.1 + - + +
108G LEU* 3.1 34.9 + - + +
115G LEU* 3.9 10.8 - - + -
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Residues in contact with GLY 105 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G TRP 2.8 16.9 + - - -
104G LYS* 1.3 76.4 - - - +
106G LYS* 1.3 57.5 + - - +
108G LEU* 3.3 3.0 + - - -
109G GLY 2.8 23.9 + - - -
110G VAL 3.0 25.4 + - - -
112G VAL* 5.0 0.7 - - - -
115G LEU* 4.1 13.6 - - - +
365G GLY* 3.6 13.0 + - - -
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Residues in contact with LYS 106 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31G ILE* 4.0 20.5 - - + +
32G THR* 3.0 36.0 + - - +
34G ALA* 6.0 0.6 - - - +
102G ASP* 3.0 41.3 + - - +
103G ILE 3.6 4.3 - - - +
105G GLY* 1.3 76.5 - - - +
107G CYS* 1.3 63.4 + - - +
109G GLY* 3.2 11.4 + - - -
364G PRO* 4.1 31.5 - - + +
367G GLY 6.1 0.2 - - - +
368G ALA 4.9 10.8 + - - +
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Residues in contact with CYS 107 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3G LEU* 3.6 33.7 - - - -
31G ILE* 3.8 17.0 - - - -
103G ILE* 2.9 32.0 + - - +
104G LYS* 3.6 9.4 - - - +
105G GLY 3.3 0.2 - - - -
106G LYS* 1.3 77.8 - - - +
108G LEU* 1.3 67.7 + - + +
109G GLY 3.8 0.2 + - - -
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Residues in contact with LEU 108 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108D LEU* 3.9 24.8 - - + +
110D VAL* 3.5 34.8 - - + -
114D GLU* 5.5 4.5 - - + +
115D LEU* 4.1 14.4 - - + -
104G LYS* 3.1 29.7 + - + +
105G GLY 4.1 2.0 - - - +
107G CYS* 1.3 84.8 - - + +
109G GLY* 1.3 63.8 + - - +
110G VAL* 3.4 18.1 + - + +
115G LEU* 3.8 24.0 - - + -
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il