Contacts of the helix formed by residues 77 - 105 (chain N) in PDB entry 3A68
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 LEU 77 (chain N).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70N PHE* 3.5 42.7 + - + +
75N VAL* 3.3 1.7 - - + +
76N ALA* 1.3 78.5 - - - +
78N ARG* 1.3 59.5 + - - +
79N GLY 3.3 2.9 - - - -
80N LEU* 3.4 4.5 + - + +
81N ALA* 3.0 27.0 + - - +
128N ASP* 3.9 6.5 - - - +
129N ALA* 4.1 14.6 - - + -
197N VAL* 4.3 5.6 - - + -
198N TRP* 4.5 7.9 - - + -
201N ASP* 3.3 31.0 - - + +
190S ARG* 3.6 52.0 - - - +
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Residues in contact with ARG 78 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70N PHE 5.3 0.7 - - - +
76N ALA* 3.6 9.7 + - - +
77N LEU* 1.3 69.5 - - - +
79N GLY* 1.3 60.5 + - - +
81N ALA* 3.7 7.0 - - - +
82N LYS* 2.9 29.6 + - - +
201N ASP* 3.1 4.8 + - - +
202N GLN* 2.9 23.7 + - - +
205N LEU* 3.8 30.5 - - + +
183S GLU* 4.6 22.7 - - - +
184S TYR* 6.0 0.2 - - - -
187S GLN* 2.9 38.9 + - - +
203S MET* 3.8 15.6 - - - +
207S GLU* 3.3 23.1 + - - +
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Residues in contact with GLY 79 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78N ARG* 1.3 76.5 - - - +
80N LEU* 1.3 59.9 + - - +
82N LYS* 3.4 2.4 + - - +
83N PHE* 2.9 28.8 + - - +
201N ASP* 2.9 29.0 + - - -
204N LEU* 3.7 11.4 - - - +
205N LEU* 3.7 21.9 - - - +
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Residues in contact with LEU 80 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70N PHE* 3.6 38.6 - - + -
77N LEU* 3.8 8.3 - - + +
79N GLY* 1.3 70.0 - - - +
81N ALA* 1.3 66.9 + - - +
83N PHE* 3.2 1.7 + - - +
84N PHE* 2.9 45.5 + - + -
129N ALA* 3.7 32.3 - - + +
133N MET* 4.3 11.4 - - + -
188N LEU* 5.5 0.2 - - + -
197N VAL* 5.8 0.7 - - + +
200N PHE* 4.2 17.3 - - + -
201N ASP* 2.8 35.1 + - + +
204N LEU* 3.9 18.6 - - + -
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Residues in contact with ALA 81 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67N PHE* 3.3 28.5 - - + +
70N PHE* 3.9 28.1 - - - +
71N ASP* 4.0 10.8 - - + +
77N LEU 3.0 17.2 + - - +
78N ARG* 3.7 8.7 - - - +
79N GLY 3.3 0.2 - - - -
80N LEU* 1.3 76.2 - - - +
82N LYS* 1.3 57.1 + - - +
84N PHE* 3.4 0.5 + - - -
85N LYS* 2.9 24.6 + - - +
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Residues in contact with LYS 82 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67N PHE* 5.8 0.2 - - - -
78N ARG 2.9 17.8 + - - +
79N GLY* 3.8 3.1 - - - +
80N LEU 3.2 0.2 - - - -
81N ALA* 1.3 76.7 - - - +
83N PHE* 1.3 64.6 + - - +
85N LYS* 3.4 8.8 + - + +
86N GLU* 3.0 54.9 + - + +
204N LEU 4.5 6.5 + - - -
205N LEU* 3.2 42.3 + - + +
207N GLU 5.0 7.7 + - - -
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Residues in contact with PHE 83 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63N TYR* 5.4 1.1 - + - -
79N GLY 2.9 18.5 + - - +
80N LEU 3.6 3.1 - - - +
82N LYS* 1.3 78.6 - - - +
84N PHE* 1.3 81.5 + + - +
86N GLU* 3.4 8.3 + - + +
87N SER* 2.8 50.5 + - - -
133N MET* 3.6 28.5 - - + -
136N ALA* 5.3 0.7 - - + -
180N ARG* 3.5 43.7 - - - -
181N ILE* 4.1 22.9 - - + -
184N TYR* 3.8 16.2 - + - -
204N LEU* 3.9 16.4 - - + -
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Residues in contact with PHE 84 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63N TYR* 3.6 39.9 - + - +
66N MET* 3.5 33.2 - - + -
67N PHE* 3.7 9.4 - - - +
70N PHE* 3.8 31.9 - + - -
80N LEU* 2.9 35.8 + - + +
83N PHE* 1.3 93.7 - + - +
85N LYS* 1.3 60.6 + - - +
87N SER* 4.2 1.6 - - - -
88N SER* 2.9 30.0 + - - -
132N ALA* 4.1 12.6 - - + -
133N MET* 4.2 17.9 - - + -
136N ALA* 4.1 11.9 - - + -
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Residues in contact with LYS 85 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64N HIS* 4.9 0.9 - - - +
67N PHE* 3.6 32.3 - - + +
81N ALA 2.9 18.3 + - - +
82N LYS* 3.7 8.5 - - + +
83N PHE 3.3 0.2 - - - -
84N PHE* 1.3 78.3 - - - +
86N GLU* 1.3 64.7 + - + +
88N SER* 3.4 7.6 + - - -
89N GLU* 3.3 20.3 + - - +
92R ARG* 4.6 1.9 + - - -
96R GLU* 3.3 34.4 + - - +
100R GLU* 2.5 31.3 + - - -
216R CA 4.5 3.6 - - - -
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Residues in contact with GLU 86 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82N LYS* 3.0 54.7 + - + +
83N PHE* 3.8 7.2 - - + +
85N LYS* 1.3 76.1 - - + +
87N SER* 1.3 61.0 + - - +
89N GLU* 3.3 8.6 + - - +
90N GLU* 3.0 28.9 + - - +
180N ARG* 5.4 5.5 + - - -
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Residues in contact with SER 87 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63N TYR* 3.6 29.6 - - - -
83N PHE* 2.8 49.5 + - - -
84N PHE* 3.7 5.6 - - - -
86N GLU* 1.3 72.5 - - - +
88N SER* 1.3 61.6 + - - +
90N GLU* 3.3 13.9 + - - +
91N GLU* 2.9 34.9 + - - +
180N ARG* 5.5 0.5 + - - -
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Residues in contact with SER 88 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60N SER* 2.8 47.1 + - - +
63N TYR* 3.7 7.8 - - - +
64N HIS* 3.5 23.8 - - - +
84N PHE 2.9 17.8 + - - -
85N LYS 3.5 4.3 - - - -
86N GLU 3.2 0.2 - - - -
87N SER* 1.3 77.2 - - - +
89N GLU* 1.3 61.5 + - - +
91N GLU 3.3 1.0 + - - -
92N ARG* 3.1 10.6 + - - +
57R TYR* 4.6 0.3 + - - -
92R ARG* 2.8 25.1 + - - -
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Residues in contact with GLU 89 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85N LYS 3.3 10.0 + - - +
86N GLU* 3.7 10.1 - - - +
87N SER 3.3 0.6 - - - -
88N SER* 1.3 79.9 + - - +
90N GLU* 1.3 63.1 + - - +
92N ARG* 3.3 6.6 + - + +
93N GLU* 3.1 33.7 + - + +
92R ARG* 3.7 22.1 + - - +
93R GLU* 5.3 3.5 - - - +
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Residues in contact with GLU 90 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86N GLU 3.0 17.4 + - - +
87N SER* 3.6 13.9 + - - +
89N GLU* 1.3 78.3 - - - +
91N GLU* 1.3 60.1 + - + +
93N GLU* 3.1 11.4 + - + +
94N HIS* 3.0 53.9 + - + +
180N ARG* 5.0 10.1 + - - -
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Residues in contact with GLU 91 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56N GLU* 3.1 15.9 - - - +
59N VAL* 3.6 23.8 - - + +
60N SER* 3.5 23.6 - - - +
63N TYR* 3.6 20.4 - - + -
87N SER* 2.9 20.9 + - - +
89N GLU 3.3 0.2 - - - -
90N GLU* 1.3 76.3 - - - +
92N ARG* 1.3 67.2 + - - +
94N HIS* 3.2 16.2 + - - +
95N ALA* 3.0 20.6 + - - +
140N GLU* 3.6 15.6 - - - +
143N THR* 5.3 0.2 + - - -
214N CA 2.5 30.6 - - - -
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Residues in contact with ARG 92 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57N TYR* 3.7 30.0 + - + +
60N SER* 3.7 17.4 + - - +
88N SER 3.1 8.0 + - - +
89N GLU* 3.6 11.0 - - + +
91N GLU* 1.3 75.8 - - - +
93N GLU* 1.3 75.6 + - - +
95N ALA* 3.2 8.0 + - - +
96N GLU* 2.9 36.0 + - - +
60R SER* 4.7 2.2 + - - -
64R HIS* 3.7 17.8 + - + -
85R LYS 4.6 1.4 + - - -
88R SER* 2.9 30.9 + - - -
89R GLU* 3.5 34.7 + - - +
92R ARG* 3.4 33.9 - - - +
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Residues in contact with GLU 93 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89N GLU* 3.1 27.4 + - + +
90N GLU* 3.1 12.5 + - + +
92N ARG* 1.3 94.5 + - - +
94N HIS* 1.3 60.5 + - + +
96N GLU* 3.3 10.2 + - - +
97N LYS* 2.9 30.0 + - - +
216N CA 2.8 28.6 - - - -
89R GLU* 5.2 2.1 - - - +
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Residues in contact with HIS 94 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56N GLU* 3.5 14.6 - - - +
90N GLU* 3.0 41.2 + - + +
91N GLU* 3.2 19.3 + - - +
93N GLU* 1.3 80.6 - - + +
95N ALA* 1.3 60.0 + - - +
97N LYS* 4.6 7.4 - - - -
98N LEU* 3.3 9.4 + - - +
170N TYR* 2.7 45.4 + + + -
173N GLU* 5.7 11.3 - - + +
174N GLN* 5.9 0.9 - - - -
214N CA 2.7 24.4 - - - -
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Residues in contact with ALA 95 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53N ILE* 3.9 11.6 - - + +
56N GLU* 3.8 22.6 - - + +
57N TYR* 3.8 33.7 - - + +
91N GLU 3.0 9.3 + - - +
92N ARG 3.2 9.1 + - - +
94N HIS* 1.3 75.9 - - - +
96N GLU* 1.3 58.8 + - - +
98N LEU* 3.2 8.1 + - - +
99N MET* 2.9 31.6 + - - +
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Residues in contact with GLU 96 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92N ARG* 2.9 22.7 + - - +
93N GLU* 3.3 13.8 + - - +
95N ALA* 1.3 76.9 - - - +
97N LYS* 1.3 56.9 + - - +
99N MET* 3.1 12.2 + - - +
100N GLU* 2.8 40.6 + - - +
216N CA 2.6 27.9 - - - -
64R HIS* 2.7 34.3 + - + +
67R PHE* 4.4 7.4 - - + -
85R LYS* 3.2 34.7 + - - +
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Residues in contact with LYS 97 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93N GLU 2.9 15.8 + - - +
94N HIS* 4.5 7.4 - - - +
95N ALA 3.3 0.2 - - - -
96N GLU* 1.3 75.7 - - - +
98N LEU* 1.3 57.0 + - - +
100N GLU* 3.4 17.0 + - - +
101N TYR* 2.9 26.2 + - - +
165N PHE* 4.1 13.4 - - + -
169N GLU* 2.6 52.1 + - - +
170N TYR* 3.3 21.3 - - - +
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Residues in contact with LEU 98 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49N VAL* 3.9 21.7 - - + +
52N GLN* 3.5 33.4 - - + +
53N ILE* 3.5 15.0 - - + +
56N GLU* 3.8 15.0 - - + -
94N HIS 3.3 8.2 + - - +
95N ALA 3.2 7.2 + - - +
97N LYS* 1.3 75.4 - - - +
99N MET* 1.3 60.9 + - - +
101N TYR* 3.2 4.7 + - - +
102N GLN* 2.9 29.1 + - - +
147N LEU* 6.0 0.7 - - + -
150N LEU* 4.5 18.4 - - + -
165N PHE* 3.8 22.7 - - + -
166N VAL* 5.7 0.2 - - + -
170N TYR* 3.2 28.5 - - + +
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Residues in contact with MET 99 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53N ILE* 3.7 27.1 - - + -
57N TYR* 4.5 3.6 - - - -
95N ALA 2.9 22.5 + - - +
96N GLU* 3.4 9.4 - - - +
98N LEU* 1.3 76.3 - - - +
100N GLU* 1.3 61.7 + - - +
102N GLN* 3.3 4.9 + - - +
103N ASN* 3.2 22.2 + - - -
109N VAL* 3.6 16.6 - - + +
111N LEU* 4.2 19.5 - - + -
64R HIS* 3.6 60.3 - - + +
67R PHE* 4.1 11.2 - - + -
68R ALA* 3.9 15.7 - - + -
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Residues in contact with GLU 100 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179J LYS* 5.4 0.3 + - - -
96N GLU* 2.8 27.9 + - - +
97N LYS* 3.7 14.2 - - + +
99N MET* 1.3 75.0 - - - +
101N TYR* 1.3 57.5 + - - +
103N ASN* 3.2 4.7 + - - +
104N LYS* 2.9 43.4 + - - +
67R PHE* 4.0 17.9 - - + -
71R ASP* 4.1 12.8 - - - +
85R LYS* 2.6 35.9 + - - -
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Residues in contact with TYR 101 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175J VAL* 5.2 4.3 - - + -
41N TYR* 4.4 9.2 - + - -
49N VAL* 4.7 6.7 - - + -
97N LYS 2.9 18.0 + - - +
98N LEU* 3.6 5.4 - - - +
99N MET 3.2 0.2 - - - -
100N GLU* 1.3 74.9 - - - +
102N GLN* 1.3 70.0 + - - +
104N LYS* 3.0 28.2 + - + +
105N ARG* 3.0 48.2 + - + +
161N GLN* 2.5 33.0 + - - -
162N LEU* 3.2 31.1 - - + -
165N PHE* 3.5 54.3 - + + -
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Residues in contact with GLN 102 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41N TYR* 2.6 41.7 + - - -
46N GLU* 3.0 28.0 + - - +
49N VAL* 3.7 12.7 - - + +
50N ASN* 3.0 26.1 + - - +
53N ILE* 4.7 0.9 - - + -
98N LEU 2.9 13.1 + - - +
99N MET* 3.4 11.0 - - - +
101N TYR* 1.3 81.3 - - - +
103N ASN* 1.3 59.9 + - - +
105N ARG* 3.3 1.9 + - - +
106N GLY 3.1 3.6 + - - -
107N GLY* 2.9 47.2 + - - +
109N VAL* 3.7 21.5 - - + +
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Residues in contact with ASN 103 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179J LYS* 3.8 14.6 - - - +
99N MET 3.2 11.9 + - - +
100N GLU 3.7 3.8 - - - +
101N TYR 3.1 0.6 - - - -
102N GLN* 1.3 78.3 - - - +
104N LYS* 1.3 64.3 + - - +
106N GLY* 3.2 11.7 + - - -
107N GLY 3.5 15.4 - - - +
109N VAL* 4.2 9.0 + - - +
67R PHE* 5.5 0.2 - - - -
68R ALA* 2.9 30.4 + - - +
71R ASP* 3.0 47.7 + - - +
72R ARG* 3.5 17.3 - - - +
73R ASP* 4.3 7.1 + - - +
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Residues in contact with LYS 104 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175J VAL* 3.9 25.5 - - + +
176J GLU* 3.5 37.2 + - + -
178J ILE* 5.7 0.3 - - - +
179J LYS* 4.0 36.6 - - + +
37N ALA* 4.1 9.0 - - - +
100N GLU* 2.9 32.0 + - - +
101N TYR* 3.0 23.6 + - + +
103N ASN* 1.3 76.5 - - - +
105N ARG* 1.3 60.4 + - - +
106N GLY 3.6 0.5 + - - -
165N PHE* 6.1 2.6 - - - -
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Residues in contact with ARG 105 (chain N).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175J VAL* 3.8 24.3 - - - +
37N ALA* 4.6 1.3 - - - +
38N ARG* 3.3 26.4 - - - +
39N GLN 3.3 16.5 + - - +
40N LYS* 3.0 27.9 + - - +
41N TYR* 3.5 38.0 - - + +
101N TYR* 3.0 58.7 + - + +
102N GLN 4.0 0.7 - - - +
104N LYS* 1.3 76.9 - - - +
106N GLY* 1.3 62.6 + - - +
107N GLY 3.3 0.4 + - - -
159N ASP* 2.9 32.3 + - - -
161N GLN* 3.7 16.9 + - - +
162N LEU* 3.7 1.6 - - - +
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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).
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