Contacts of the helix formed by residues 91 - 116 (chain G) in PDB entry 2IVB
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 91 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109E LYS* 2.9 38.7 + - - +
79F PRO 3.4 1.6 - - - +
80F LEU* 3.8 19.3 - - + +
81F ARG* 2.9 34.4 + - - +
89G PRO* 3.5 1.0 - - - +
90G THR* 1.3 79.1 + - - +
92G PRO* 1.4 62.7 - - - +
93G THR* 3.3 23.2 + - - -
94G MET* 3.2 12.8 + - - +
95G TYR* 2.7 34.2 + - - +
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Residues in contact with PRO 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B GLU* 3.3 44.6 - - + +
103B VAL* 4.0 13.9 - - + -
120E ILE* 3.9 13.5 - - + -
81F ARG* 3.7 23.1 - - + +
124F ILE* 4.2 9.6 - - + -
90G THR 3.4 6.2 - - - +
91G ASP* 1.4 92.1 - - - +
93G THR* 1.3 62.7 + - - +
95G TYR* 4.1 1.1 - - + -
96G ARG* 3.0 34.4 + - - +
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Residues in contact with THR 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109E LYS* 4.0 20.5 + - - -
112E VAL* 4.0 21.8 - - + -
113E HIS* 3.3 23.7 + - + -
119E GLY 2.8 26.3 + - - +
120E ILE* 3.8 12.8 - - - +
121E ILE 5.2 2.0 + - - +
81F ARG* 4.9 4.9 + - - -
91G ASP* 3.3 13.5 + - - -
92G PRO* 1.3 78.8 - - - +
94G MET* 1.3 61.7 + - - +
96G ARG* 3.6 6.6 + - - +
97G PHE* 3.2 25.3 - - + -
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Residues in contact with MET 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101E LEU* 4.1 5.7 - - + +
105E GLY* 3.6 27.6 - - - +
106E THR* 3.6 28.9 - - + +
109E LYS* 3.9 11.2 - - + -
80F LEU* 3.7 29.4 - - - -
83G CYS* 4.0 12.8 - - - +
84G ILE* 4.5 15.5 - - + -
89G PRO* 3.8 23.3 - - + +
91G ASP* 3.2 14.1 + - - +
93G THR* 1.3 73.6 - - - +
95G TYR* 1.3 67.3 - - - +
97G PHE* 3.1 26.3 + - - +
98G TYR 3.6 3.5 + - - -
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Residues in contact with TYR 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89B PRO 4.3 6.1 + - - -
90B THR* 4.7 7.8 + - - -
95B TYR* 3.4 60.4 - + - +
99B GLU* 4.5 1.6 - - - +
88G ILE* 4.1 10.1 - - + -
89G PRO* 3.5 27.3 - - + +
90G THR 4.9 0.4 - - - -
91G ASP 2.7 23.7 + - - +
92G PRO* 3.3 9.8 + - + +
94G MET* 1.3 73.6 - - - +
96G ARG* 1.3 67.6 + - - +
98G TYR* 3.0 40.5 + + + +
99G GLU* 2.8 55.0 + - + +
102G GLN* 5.0 1.4 - - - +
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Residues in contact with ARG 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B ARG* 3.4 21.2 - - - +
99B GLU* 2.8 42.2 + - - -
120E ILE* 3.6 13.6 - - + +
121E ILE 3.3 26.9 - - - +
123E ALA* 3.9 15.4 - - + +
123F ALA* 4.7 0.6 - - - +
124F ILE* 4.2 11.3 - - - +
92G PRO* 3.0 34.8 + - - +
93G THR 4.0 6.7 - - - +
94G MET 3.2 1.0 - - - -
95G TYR* 1.3 86.6 - - - +
97G PHE* 1.3 60.3 + - + +
99G GLU* 3.4 8.3 + - - +
100G MET* 3.0 26.2 + - - +
1161G AZI 3.0 44.5 + - - -
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Residues in contact with PHE 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101E LEU* 4.2 17.3 - - + -
105E GLY* 5.7 0.4 - - - -
108E LEU* 4.1 44.0 - - + -
109E LYS 5.5 0.2 - - - -
112E VAL* 4.7 11.9 - - + -
121E ILE* 4.5 22.2 - - + -
146E LEU* 5.0 13.2 - - + -
93G THR* 3.2 27.4 - - + -
94G MET* 3.1 13.1 + - - +
96G ARG* 1.3 77.1 - - + +
98G TYR* 1.3 64.0 + - - +
100G MET* 3.3 22.1 + - + +
101G LEU* 3.3 19.2 + - - +
144G ILE* 4.2 26.7 - - + -
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Residues in contact with TYR 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E ILE* 4.6 5.6 - - + -
87E ARG* 2.7 39.8 + - - +
98E TYR* 4.4 11.0 - + - -
101E LEU* 3.7 27.3 - - + +
88G ILE* 3.5 30.5 - - + +
89G PRO* 3.9 20.0 - - + -
94G MET 3.6 2.4 + - - -
95G TYR* 3.0 36.9 + + + +
97G PHE* 1.3 77.3 - - - +
99G GLU* 1.3 60.5 + - - +
101G LEU* 3.0 16.0 + - + +
102G GLN* 3.0 50.0 + - + -
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Residues in contact with GLU 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B THR 4.9 2.2 - - - +
92B PRO* 3.3 35.0 - - + +
95B TYR* 4.3 1.7 - - - +
96B ARG* 2.7 45.4 + - - -
123E ALA* 3.4 18.1 - - + +
124E ILE* 4.1 2.5 - - + +
95G TYR* 2.8 41.9 + - + +
96G ARG* 3.7 7.4 - - - +
97G PHE 3.3 0.2 - - - -
98G TYR* 1.3 74.0 - - - +
100G MET* 1.3 63.3 + - - +
102G GLN* 3.0 10.6 + - + +
103G VAL* 2.9 27.5 + - + +
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Residues in contact with MET 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97E PHE* 5.3 1.1 - - + -
123E ALA* 5.0 5.3 - - + +
126E PHE* 4.4 27.1 - - + -
128E LEU* 4.5 5.4 - - + -
146E LEU* 4.0 26.7 - - + -
96G ARG 3.0 14.8 + - - +
97G PHE* 3.4 18.4 - - + +
98G TYR 3.2 0.2 - - - -
99G GLU* 1.3 74.3 - - - +
101G LEU* 1.3 71.5 + - + +
103G VAL* 4.6 4.7 - - - +
104G TYR* 2.7 42.1 + - + +
108G LEU* 3.9 26.5 - - + -
146G LEU* 4.7 10.1 - - + -
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Residues in contact with LEU 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83E CYS* 3.3 5.5 - - - -
84E ILE* 4.1 17.0 - - + +
89E PRO* 6.0 1.8 - - + -
94E MET 5.5 0.4 - - - +
97E PHE* 3.4 36.1 - - + +
98E TYR* 3.7 34.8 - - + +
101E LEU* 4.3 13.0 - - + -
97G PHE 3.3 13.9 - - - +
98G TYR* 3.0 17.2 + - + +
100G MET* 1.3 95.8 - - + +
102G GLN* 1.3 59.4 + - - +
105G GLY* 2.8 32.4 + - - +
108G LEU* 5.0 2.7 - - + -
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Residues in contact with GLN 102 (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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90B THR* 3.7 34.4 - - - +
50E GLN* 3.7 0.2 - - - +
82E GLY* 3.2 16.7 + - - -
83E CYS* 2.8 40.5 + - - +
84E ILE* 3.1 45.7 + - + +
87E ARG* 4.4 4.9 + - - +
95G TYR* 5.0 3.1 - - - +
98G TYR* 3.0 46.6 + - + +
99G GLU* 3.0 13.2 + - + +
101G LEU* 1.3 79.1 - - - +
103G VAL* 1.3 59.3 + - + +
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Residues in contact with VAL 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B PRO* 4.0 26.9 - - + -
50E GLN* 3.2 48.0 - - + +
51E GLN* 3.8 22.9 - - - +
81E ARG* 4.3 14.4 - - + -
83E CYS* 4.6 1.7 - - - +
123E ALA* 6.1 0.7 - - + +
124E ILE* 5.9 2.5 - - + -
99G GLU* 2.9 22.0 + - + +
100G MET* 4.7 1.3 - - - -
102G GLN* 1.3 80.8 - - + +
104G TYR* 1.3 82.4 + - + +
105G GLY 3.7 0.4 - - - -
106G THR* 4.9 0.9 + - - -
107G THR* 4.6 2.8 + - - -
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Residues in contact with TYR 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E ALA* 4.0 15.3 - - + -
42E PHE* 4.3 0.3 - - - -
45E ALA* 3.7 27.1 - - + -
51E GLN* 3.0 22.9 + - - +
123E ALA 5.5 2.5 - - - -
126E PHE* 3.8 33.1 - + - +
128E LEU* 3.9 24.2 - - + -
156F PHE* 3.3 27.5 - + - -
100G MET* 2.7 27.1 + - + +
103G VAL* 1.3 90.6 - - + +
105G GLY* 1.3 56.7 + - - +
106G THR 3.3 2.9 - - - -
107G THR* 3.2 16.1 + - + -
108G LEU* 2.7 32.9 + - + +
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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
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83E CYS* 3.7 4.1 - - - -
94E MET* 3.6 24.8 - - - +
97E PHE* 6.1 2.0 - - - -
100G MET 3.8 0.2 + - - -
101G LEU* 2.8 33.3 + - - +
104G TYR* 1.3 71.2 - - - +
106G THR* 1.3 57.8 + - - +
108G LEU* 3.4 10.3 + - - +
109G LYS 3.0 21.8 + - - -
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Residues in contact with THR 106 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48E LEU* 3.6 20.5 + - - +
50E GLN* 4.6 4.2 - - - +
83E CYS* 3.5 33.8 - - + +
94E MET* 3.8 24.7 - - + -
103G VAL 4.9 0.7 + - - -
105G GLY* 1.3 72.5 - - - +
107G THR* 1.3 62.6 + - - +
109G LYS* 3.4 6.8 + - + +
110G ALA* 2.9 29.8 + - - +
6H ILE* 3.9 41.1 - - + +
80H LEU* 5.3 0.2 - - + -
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Residues in contact with THR 107 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41E ALA* 3.6 26.9 - - + +
44E THR* 3.9 16.6 - - + -
45E ALA* 3.2 28.2 + - - +
48E LEU* 3.7 11.6 - - - +
50E GLN* 5.6 0.2 - - - +
128E LEU* 5.5 2.7 - - + -
103G VAL 4.6 1.7 + - - -
104G TYR* 3.2 22.6 + - + -
106G THR* 1.3 76.2 + - - +
108G LEU* 1.3 67.2 + - - +
110G ALA 3.2 0.4 + - - +
111G LEU* 2.9 38.4 + - + +
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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
----------------------------------------------------------
97E PHE* 3.9 47.3 - - + -
128E LEU* 4.2 10.3 - - + -
130E VAL* 3.9 25.3 - - + +
144E ILE* 4.0 20.4 - - + -
100G MET* 3.9 28.5 - - + -
101G LEU* 5.0 0.9 - - + -
104G TYR* 2.7 30.1 + - + +
105G GLY* 3.6 8.1 - - - +
107G THR* 1.3 73.3 - - - +
109G LYS* 1.3 57.2 + - - +
111G LEU* 4.0 2.9 - - - +
112G VAL* 2.9 37.8 + - + +
146G LEU* 6.0 0.2 - - + -
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Residues in contact with LYS 109 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91E ASP* 2.9 32.4 + - - +
93E THR* 4.1 14.4 + - + -
94E MET* 3.9 13.4 - - + +
97E PHE* 5.5 0.2 - - - -
105G GLY 3.0 13.9 + - - +
106G THR* 3.7 8.5 - - - +
107G THR 3.2 0.2 - - - -
108G LEU* 1.3 77.8 - - - +
110G ALA* 1.3 63.9 + - - +
112G VAL* 3.8 1.2 - - - +
113G HIS* 2.9 66.1 + - + +
4H SER* 4.8 1.8 - - - +
5H GLN 3.3 23.8 - - - +
6H ILE* 5.3 4.0 - - + -
78H ILE* 4.2 3.2 - - - +
79H PRO 2.8 30.4 + - - -
80H LEU* 4.0 13.7 - - + -
81H ARG* 4.7 1.6 - - - +
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Residues in contact with ALA 110 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19E LEU* 6.2 0.2 - - + -
29E PHE* 3.6 33.8 - - + -
44E THR* 4.3 3.6 - - + -
48E LEU* 4.2 11.2 - - + -
106G THR 2.9 17.2 + - - +
107G THR 3.2 3.3 + - - +
109G LYS* 1.3 78.2 - - - +
111G LEU* 1.3 59.4 + - - +
113G HIS* 3.5 2.3 + - - +
114G GLU* 3.1 27.2 + - - +
4H SER* 3.8 15.9 + - - +
6H ILE* 5.3 4.9 - - + -
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Residues in contact with LEU 111 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29E PHE* 4.0 18.8 - - + -
40E GLU* 4.1 26.0 - - + +
41E ALA* 4.0 21.8 - - + +
44E THR* 4.0 19.1 - - + +
128E LEU* 5.3 0.4 - - + -
130E VAL* 4.2 25.4 - - + +
107G THR* 2.9 37.0 + - + +
108G LEU* 4.2 2.0 - - - +
110G ALA* 1.3 76.6 - - - +
112G VAL* 1.3 60.5 + - - +
114G GLU* 4.2 5.4 - - - +
115G LYS* 3.0 45.9 + - - +
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Residues in contact with VAL 112 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93E THR* 4.0 21.3 - - + -
97E PHE* 4.8 10.1 - - + -
130E VAL* 4.8 10.8 - - + -
144E ILE* 5.3 2.2 - - + -
108G LEU* 2.9 27.4 + - - +
109G LYS 3.8 3.1 - - - +
111G LEU* 1.3 78.3 - - - +
113G HIS* 1.3 59.8 + - - +
116G PHE* 2.9 43.5 + - + +
117G GLY 3.4 7.6 + - - +
119G GLY 4.7 4.9 - - - +
120G ILE 4.9 0.7 - - - -
121G ILE* 3.5 43.1 - - + +
150G TYR* 4.9 1.6 - - + -
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Residues in contact with HIS 113 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93E THR* 3.4 24.7 + - + -
109G LYS* 2.9 60.0 + - + +
110G ALA 4.0 3.4 - - - +
112G VAL* 1.3 74.1 - - + +
114G GLU* 1.3 60.4 + - - +
117G GLY* 2.9 40.6 + - - -
118G ASP* 4.0 1.3 - - - -
119G GLY 3.5 17.3 - - - -
2H ILE* 3.2 14.4 - - + +
4H SER* 3.8 18.8 - - - +
78H ILE* 3.5 39.0 - - + +
81H ARG* 5.0 0.4 - - - -
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Residues in contact with GLU 114 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E LYS* 4.4 0.5 + - - -
28E SER* 3.4 17.7 - - - -
29E PHE* 2.7 38.3 + - + +
30E ALA* 3.0 31.1 + - - +
40E GLU* 3.9 5.5 - - - +
110G ALA 3.1 18.2 + - - +
111G LEU* 3.8 8.5 - - + +
112G VAL 3.3 0.4 - - - -
113G HIS* 1.3 79.3 - - - +
115G LYS* 1.3 66.9 + - + +
117G GLY 4.9 0.2 + - - -
1H MET* 3.4 21.7 - - + +
2H ILE* 3.5 12.2 - - - +
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Residues in contact with LYS 115 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40E GLU* 3.0 35.7 + - - -
130E VAL* 3.3 46.4 + - + +
131E LYS* 5.2 0.2 - - - -
132E LYS* 3.2 38.9 - - + +
140E GLU* 5.1 0.2 - - - +
111G LEU* 3.0 24.2 + - - +
114G GLU* 1.3 86.0 - - + +
116G PHE* 1.3 71.5 + - + +
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Residues in contact with PHE 116 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130E VAL* 4.3 14.1 - - + -
131E LYS 4.1 0.4 - - - -
132E LYS* 3.5 36.1 - - + -
140E GLU* 4.2 9.9 - - + +
141E ARG 3.3 25.6 - - - -
142E ALA* 3.5 30.7 - - + -
112G VAL* 2.9 26.8 + - + +
113G HIS 4.0 0.2 - - - -
114G GLU 5.2 0.4 - - - -
115G LYS* 1.3 89.2 - - + +
117G GLY* 1.3 60.1 + - - +
121G ILE* 4.2 2.7 - - + -
150G TYR* 3.3 58.8 + + + -
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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