Contacts of the helix formed by residues 82 - 111 (chain G) in PDB entry 2X17
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 SER 82 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G TYR* 3.3 6.6 + - - -
80G TRP* 3.4 1.1 - - - +
81G GLU* 1.3 79.2 - - - +
83G PRO* 1.4 64.2 - - - +
84G LEU* 3.7 13.0 + - - +
85G LYS* 2.9 29.2 + - - +
86G ALA* 2.8 34.1 + - - +
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Residues in contact with PRO 83 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G TYR* 3.5 8.7 - - - +
31G PHE* 3.6 21.1 - - + -
34G LEU* 3.9 23.3 - - + -
36G LEU* 4.1 13.0 - - + -
39G PHE* 5.2 1.1 - - + -
82G SER* 1.4 86.9 - - - +
84G LEU* 1.3 59.6 + - - +
86G ALA* 3.8 2.8 - - + +
87G PHE* 3.3 21.1 + - - -
141G LEU* 3.4 27.5 - - + +
151G LEU* 4.3 17.7 - - + -
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Residues in contact with LEU 84 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G SER* 3.0 11.8 + - - +
83G PRO* 1.3 78.5 - - - +
85G LYS* 1.3 60.5 + - + +
87G PHE* 3.4 4.0 + - - +
88G GLU* 3.0 50.7 + - - +
138G LEU* 4.0 9.6 - - + +
141G LEU* 3.8 29.2 - - + +
142G LYS* 3.7 39.3 - - + +
145G LYS* 5.2 12.8 - - + -
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Residues in contact with LYS 85 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G TRP* 3.9 7.1 - - + -
81G GLU* 4.4 25.4 - - + +
82G SER* 2.9 29.5 + - - +
84G LEU* 1.3 80.2 - - + +
86G ALA* 1.3 60.5 + - - +
88G GLU* 3.3 32.2 + - + +
89G ALA* 3.0 27.4 + - - +
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Residues in contact with ALA 86 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G MET* 3.4 20.6 - - - +
30G TYR* 3.8 24.7 - - + -
31G PHE* 3.8 14.1 - - + -
80G TRP* 3.7 21.7 - - + +
82G SER 2.8 14.5 + - - +
83G PRO 3.8 6.5 - - - +
84G LEU 3.3 0.2 - - - -
85G LYS* 1.3 78.4 - - - +
87G PHE* 1.3 57.9 + - - +
89G ALA* 3.5 1.9 + - - +
90G ALA 3.2 17.2 + - - -
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Residues in contact with PHE 87 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G PHE* 3.6 24.2 - + - -
39G PHE* 3.7 21.1 - + - -
42G TRP* 4.2 17.3 - + - -
43G MET* 3.7 25.8 - - + -
83G PRO 3.3 22.3 + - - +
84G LEU 3.8 2.7 - - - +
86G ALA* 1.3 77.0 - - - +
88G GLU* 1.3 60.3 + - - +
89G ALA 3.2 0.4 - - - -
90G ALA* 3.6 5.1 - - + +
91G TYR* 3.0 25.3 + - - +
134G VAL* 3.8 30.8 - - + +
137G ILE* 3.7 35.9 - - + -
138G LEU* 3.4 19.3 - - + +
141G LEU* 3.6 17.0 - - + -
158G LEU* 4.8 1.6 - - + -
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Residues in contact with GLU 88 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G LEU* 3.0 40.5 + - - +
85G LYS* 3.3 44.7 + - + +
87G PHE* 1.3 77.4 - - - +
89G ALA* 1.3 59.1 + - - +
91G TYR* 4.4 1.7 - - - +
92G GLU* 3.3 23.8 + - - +
138G LEU* 3.8 22.7 - - + -
142G LYS* 4.6 9.6 - - - -
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Residues in contact with ALA 89 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G LEU* 5.5 0.2 - - - +
27G MET* 4.2 6.7 - - + -
80G TRP* 3.4 30.1 - - + +
85G LYS 3.0 10.0 + - - +
86G ALA 3.6 6.3 - - - +
87G PHE 3.2 0.2 - - - -
88G GLU* 1.3 75.7 - - - +
90G ALA* 1.3 58.5 + - - +
92G GLU* 3.5 11.1 + - - +
93G HIS* 3.0 28.6 + - - +
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Residues in contact with ALA 90 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G TYR* 3.9 14.8 + - + +
27G MET* 3.8 21.5 - - + +
43G MET* 4.9 3.1 - - + -
86G ALA 3.2 15.4 + - - +
87G PHE* 3.3 14.6 + - + +
89G ALA* 1.3 75.0 - - - +
91G TYR* 1.3 58.6 + - - +
93G HIS* 3.2 6.5 + - - +
94G GLU* 2.8 32.6 + - - +
134G VAL* 4.1 14.1 - - + -
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Residues in contact with TYR 91 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87G PHE 3.0 16.2 + - - +
88G GLU 4.4 1.8 - - - +
90G ALA* 1.3 74.2 - - - +
92G GLU* 1.3 64.6 + - - +
94G GLU* 3.6 3.7 + - + +
95G LYS* 3.3 52.8 + - + +
131G GLU* 3.8 40.8 + - + -
134G VAL* 3.9 11.4 - - + +
135G LYS* 3.6 47.8 - - + +
138G LEU* 3.6 18.2 - - + -
1I MET* 3.7 23.3 - - + +
65I ASN* 4.6 5.9 + - - +
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Residues in contact with GLU 92 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88G GLU 3.3 19.8 + - - +
89G ALA* 3.6 10.0 - - - +
90G ALA 3.3 0.4 - - - -
91G TYR* 1.3 77.2 - - - +
93G HIS* 1.3 58.9 + - - +
95G LYS* 3.5 17.8 + - - +
96G PHE* 3.1 24.6 + - - +
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Residues in contact with HIS 93 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19G TYR* 3.9 22.3 - + - -
20G SER* 3.0 32.8 + - - -
23G LEU* 3.5 34.3 - - + +
24G TYR* 4.1 15.7 - + - -
89G ALA 3.0 18.2 + - - +
90G ALA* 3.2 6.7 + - - +
92G GLU* 1.3 76.5 - - - +
94G GLU* 1.3 60.0 + - - +
96G PHE* 3.1 31.0 + + - +
97G ILE* 2.9 35.9 + - + +
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Residues in contact with GLU 94 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G SER* 5.7 0.5 + - - -
24G TYR* 2.5 32.3 + - - +
50G GLU* 4.0 4.3 - - - +
90G ALA 2.8 15.2 + - - +
91G TYR* 3.9 8.1 - - + +
92G GLU 3.3 0.4 - - - -
93G HIS* 1.3 78.7 - - - +
95G LYS* 1.3 59.2 + - - +
97G ILE* 3.5 5.8 + - - +
98G SER* 2.9 32.6 + - - -
127G GLN* 2.8 34.0 + - - +
130G GLU* 3.3 35.7 - - - +
131G GLU* 4.1 16.3 + - + -
134G VAL* 4.2 18.2 - - + -
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Residues in contact with LYS 95 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G TYR* 3.3 46.8 + - + +
92G GLU* 3.7 17.8 - - - +
93G HIS 3.3 0.4 - - - -
94G GLU* 1.3 77.1 - - - +
96G PHE* 1.3 58.1 + - - +
98G SER* 3.9 1.3 - - - -
99G LYS* 3.0 29.8 + - - +
131G GLU* 4.0 23.6 - - - +
1I MET* 4.9 17.3 - - + +
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Residues in contact with PHE 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G ARG* 4.5 23.8 - - + -
19G TYR* 5.8 3.4 - + - -
92G GLU 3.1 13.7 + - - +
93G HIS* 3.1 37.9 + + - +
95G LYS* 1.3 75.9 - - - +
97G ILE* 1.3 70.6 + - + +
99G LYS* 3.6 8.5 + - + +
100G SER* 3.2 23.5 + - - -
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Residues in contact with ILE 97 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G GLN* 3.9 15.0 - - - +
16G ARG* 4.1 25.8 - - + +
17G GLU* 4.0 11.2 - - - +
20G SER* 3.3 26.5 - - - +
50G GLU* 5.6 1.6 - - - +
93G HIS* 2.9 34.9 + - + +
94G GLU* 3.9 9.9 - - - +
96G PHE* 1.3 84.2 - - + +
98G SER* 1.3 63.1 + - - +
100G SER* 2.7 20.1 + - - +
101G ILE* 3.0 13.6 + - + +
127G GLN* 3.6 26.2 - - - +
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Residues in contact with SER 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94G GLU 2.9 9.1 + - - -
95G LYS 3.9 4.0 - - - -
97G ILE* 1.3 76.8 - - - +
99G LYS* 1.3 57.5 + - - +
101G ILE* 3.4 6.0 + - - +
102G TYR* 2.9 49.7 + - - -
127G GLN* 2.9 40.4 + - - +
131G GLU* 2.8 28.5 + - - -
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Residues in contact with LYS 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G LYS 3.0 18.2 + - - +
96G PHE* 3.8 10.8 - - + +
97G ILE 3.2 0.2 - - - -
98G SER* 1.3 74.3 - - - +
100G SER* 1.3 59.0 + - - +
102G TYR* 3.1 19.0 + - + +
103G GLU* 2.9 47.7 + - + +
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Residues in contact with SER 100 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G GLN* 2.9 24.6 + - - -
16G ARG* 3.8 26.2 + - - -
96G PHE* 3.2 16.5 + - - -
97G ILE* 2.7 24.4 + - - -
99G LYS* 1.3 77.6 - - - +
101G ILE* 1.3 56.6 + - - +
103G GLU* 3.8 14.9 - - - +
104G LEU* 3.1 30.5 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G GLN* 3.7 33.2 - - + +
17G GLU* 4.5 4.7 - - - +
57G PHE* 4.0 15.3 - - + -
97G ILE* 3.0 24.4 + - + +
98G SER* 3.5 12.3 - - - +
100G SER* 1.3 75.4 - - - +
102G TYR* 1.3 62.6 + - + +
104G LEU* 3.4 5.2 + - + +
105G ALA* 3.0 27.4 + - - +
120G LEU* 4.2 14.4 - - + +
123G PHE* 4.2 21.1 - - + +
124G ILE* 4.0 28.3 - - + +
127G GLN* 4.6 8.7 - - + -
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Residues in contact with TYR 102 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G SER* 2.9 39.3 + - - -
99G LYS* 3.1 21.1 + - + +
101G ILE* 1.3 81.3 - - + +
103G GLU* 1.3 57.8 + - + +
105G ALA* 3.3 4.6 + - - +
106G ALA* 2.9 29.9 + - - +
124G ILE* 4.7 9.0 - - + -
131G GLU* 5.1 0.4 + - - -
64I ARG* 3.3 15.2 + - - -
112I LYS 5.4 2.5 - - - -
113I ASP* 4.8 2.6 + - - -
114I TYR* 3.6 49.4 - + + -
115I SER* 2.6 30.2 + - - -
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Residues in contact with GLU 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G ARG* 5.5 4.3 + - - -
99G LYS* 2.9 38.5 + - + +
100G SER* 3.8 15.3 - - - +
102G TYR* 1.3 75.2 - - + +
104G LEU* 1.3 59.7 + - - +
106G ALA* 3.4 7.6 + - - +
107G LEU* 2.9 29.3 + - - +
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Residues in contact with LEU 104 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6G MET* 4.3 11.4 - - - +
9G ALA* 3.7 37.7 - - + +
10G LEU* 4.2 16.4 - - + -
13G GLN* 3.6 39.3 - - + +
16G ARG* 5.3 1.8 - - - +
57G PHE* 4.4 3.4 - - + -
100G SER 3.1 20.2 + - - +
101G ILE* 3.6 7.4 - - + +
102G TYR 3.3 0.2 - - - -
103G GLU* 1.3 75.1 - - - +
105G ALA* 1.3 57.3 + - - +
107G LEU* 3.4 6.9 + - + +
108G ALA* 3.0 28.2 + - - +
120G LEU* 3.6 25.5 - - + +
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Residues in contact with ALA 105 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G ILE 3.0 16.8 + - - +
102G TYR* 3.6 6.5 - - - +
104G LEU* 1.3 75.0 - - - +
106G ALA* 1.3 59.4 + - - +
108G ALA* 3.8 3.2 - - - +
109G GLU* 3.2 33.3 + - - +
117G ARG* 3.9 17.5 - - - +
120G LEU* 3.7 13.2 - - + +
124G ILE* 4.5 8.7 - - + -
114I TYR* 4.1 22.4 - - + -
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Residues in contact with ALA 106 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102G TYR 2.9 17.2 + - - +
103G GLU* 3.6 8.7 - - - +
104G LEU 3.3 0.2 - - - -
105G ALA* 1.3 75.8 - - - +
107G LEU* 1.3 61.6 + - - +
109G GLU* 4.1 4.0 - - - +
110G GLU* 3.2 23.8 + - - +
112I LYS* 6.4 2.2 - - + -
114I TYR* 3.5 21.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5G ARG* 4.4 26.2 - - + +
6G MET* 3.9 17.5 - - + -
9G ALA* 3.8 29.4 - - + -
103G GLU 2.9 18.1 + - - +
104G LEU* 3.6 7.2 - - + +
106G ALA* 1.3 77.7 - - - +
108G ALA* 1.3 60.8 + - - +
110G GLU* 3.6 17.6 + - - +
111G GLU* 3.2 39.5 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6G MET* 3.6 17.2 - - + +
104G LEU 3.0 17.7 + - - +
105G ALA* 3.8 6.5 - - - +
106G ALA 3.3 0.2 - - - -
107G LEU* 1.3 76.3 - - - +
109G GLU* 1.3 62.1 + - - +
111G GLU 3.5 0.7 + - - -
112G LYS 3.2 2.9 + - - -
113G ASP* 2.8 46.6 + - - +
116G THR* 4.3 7.0 - - + -
117G ARG* 3.9 20.4 - - - +
120G LEU* 4.5 0.4 - - + -
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Residues in contact with GLU 109 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105G ALA 3.2 14.3 + - - +
106G ALA* 4.1 4.1 - - - +
108G ALA* 1.3 74.2 - - - +
110G GLU* 1.3 65.6 + - - +
112G LYS* 3.2 17.7 + - - +
113G ASP 5.9 0.2 - - - -
117G ARG* 3.0 39.0 + - + +
109I GLU* 6.2 0.3 - - - +
114I TYR* 3.3 29.9 + - - -
109J GLU* 6.0 1.8 - - - +
----------------------------------------------------------
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Residues in contact with GLU 110 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106G ALA 3.2 18.5 + - - +
107G LEU* 3.7 21.4 - - - +
108G ALA 3.3 0.2 - - - -
109G GLU* 1.3 80.3 - - - +
111G GLU* 1.3 59.3 + - + +
112G LYS* 3.3 7.1 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3G SER* 2.9 28.6 + - - -
5G ARG* 3.6 31.5 - - - +
6G MET* 3.5 19.3 - - - +
107G LEU* 3.2 23.1 + - + +
108G ALA 3.5 3.1 + - - +
110G GLU* 1.3 78.3 - - + +
112G LYS* 1.3 68.6 + - - +
113G ASP* 3.2 10.2 + - + +
----------------------------------------------------------
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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