Contacts of the helix formed by residues 77 - 105 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PHE* 3.5 27.9 + - + +
75B VAL* 3.3 8.7 - - + +
76B ALA* 1.3 78.7 - - - +
78B ARG* 1.3 60.1 + - - +
80B LEU* 3.4 23.0 + - + -
81B ALA* 3.0 27.4 + - - +
128B ASP* 3.9 10.5 - - - +
129B ALA* 4.2 4.3 - - + -
197B VAL* 4.3 6.3 - - + -
198B TRP* 4.4 8.7 - - + -
201B ASP* 3.3 32.3 - - + +
190G ARG* 3.6 46.7 - - - +
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Residues in contact with ARG 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PHE 5.2 0.4 - - - -
76B ALA* 3.6 8.0 + - - -
77B LEU* 1.3 71.0 - - - +
79B GLY* 1.3 60.8 + - - +
81B ALA* 3.6 6.8 - - - +
82B LYS* 2.9 29.8 + - - +
198B TRP* 4.8 0.2 - - - +
201B ASP* 3.1 5.3 + - - +
202B GLN* 3.1 22.5 + - - +
205B LEU* 3.8 30.6 - - + +
183G GLU* 4.9 21.1 - - - +
187G GLN* 2.9 38.0 + - - +
203G MET* 3.7 17.2 - - - +
207G GLU* 3.3 23.7 + - - +
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Residues in contact with GLY 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B ARG* 1.3 78.4 - - - +
80B LEU* 1.3 56.1 + - - +
82B LYS* 3.4 3.4 + - - +
83B PHE* 2.9 28.8 + - - +
201B ASP* 2.8 30.0 + - - -
204B LEU* 3.8 11.4 - - - +
205B LEU* 3.6 21.3 - - - +
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Residues in contact with LEU 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PHE* 4.0 14.6 - - + -
77B LEU* 3.6 21.5 - - + +
78B ARG 3.4 0.2 - - - -
79B GLY* 1.3 70.2 - - - +
81B ALA* 1.3 64.8 + - - +
83B PHE* 3.4 1.8 + - + +
84B PHE* 3.0 44.2 + - + -
129B ALA* 3.5 37.0 - - + +
133B MET* 3.4 33.0 - - + -
188B LEU* 5.3 0.2 - - + -
197B VAL* 5.2 1.1 - - + -
200B PHE* 4.5 9.0 - - + -
201B ASP* 2.7 25.8 + - + +
204B LEU* 3.7 14.6 - - + -
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Residues in contact with ALA 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 3.4 23.3 - - + +
70B PHE* 3.8 26.1 - - - +
71B ASP* 3.9 10.8 - - + +
77B LEU 3.0 17.4 + - - +
78B ARG* 3.6 9.0 - - - +
80B LEU* 1.3 78.1 - - - +
82B LYS* 1.3 55.5 + - - +
84B PHE* 3.4 0.5 + - - -
85B LYS* 2.9 31.2 + - - +
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Residues in contact with LYS 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B ARG 2.9 18.5 + - - +
79B GLY* 3.6 5.2 - - - +
81B ALA* 1.3 76.7 - - - +
83B PHE* 1.3 61.1 + - - +
85B LYS* 3.3 8.0 + - - +
86B GLU* 2.8 68.1 + - + +
204B LEU 4.8 4.9 - - - +
205B LEU* 3.5 37.2 - - + +
207B GLU 5.5 5.3 + - - -
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Residues in contact with PHE 83 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B TYR* 5.5 3.1 - + - -
79B GLY 2.9 16.7 + - - +
80B LEU 3.7 2.7 - - - +
81B ALA 3.3 0.2 - - - -
82B LYS* 1.3 78.0 - - - +
84B PHE* 1.3 90.3 + + - +
86B GLU* 3.4 6.9 + - + +
87B SER* 2.8 49.3 + - - -
133B MET* 4.2 21.3 - - + -
180B ARG* 3.6 41.3 - - - -
181B ILE* 4.4 17.3 - - + -
184B TYR* 3.7 21.1 - + - -
204B LEU* 3.9 19.1 - - + -
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Residues in contact with PHE 84 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B TYR* 3.6 46.8 - + - +
66B MET* 3.6 34.1 - - + -
67B PHE* 3.6 9.0 - - - +
70B PHE* 3.6 31.2 - + - -
80B LEU* 3.0 38.0 + - + +
83B PHE* 1.3 97.5 - + - +
85B LYS* 1.3 60.1 + - - +
87B SER* 4.2 1.6 - - - -
88B SER* 2.9 30.3 + - - -
132B ALA* 4.3 11.0 - - + -
133B MET* 4.3 15.7 - - + -
136B ALA* 4.2 5.6 - - + -
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Residues in contact with LYS 85 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B HIS* 5.1 0.4 - - - -
67B PHE* 3.6 34.6 - - + +
81B ALA 2.9 17.7 + - - +
82B LYS* 3.6 8.1 - - - +
84B PHE* 1.3 77.4 - - - +
86B GLU* 1.3 66.3 + - + +
88B SER* 3.3 7.8 + - - -
89B GLU* 3.3 19.2 + - - +
92F ARG* 4.6 2.1 + - - -
96F GLU* 3.2 40.4 + - - +
100F GLU* 2.5 26.5 + - - -
216F CA 4.6 2.9 - - - -
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Residues in contact with GLU 86 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B LYS* 2.8 58.2 + - + +
83B PHE* 4.0 5.7 - - + +
85B LYS* 1.3 76.4 - - + +
87B SER* 1.3 64.4 + - - +
89B GLU* 3.2 10.7 + - - +
90B GLU* 3.0 36.3 + - + +
180B ARG* 6.0 0.5 + - - -
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Residues in contact with SER 87 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B TYR* 3.5 29.2 - - - -
83B PHE* 2.8 48.2 + - - -
84B PHE* 3.7 4.9 - - - -
86B GLU* 1.3 72.7 - - - +
88B SER* 1.3 67.0 + - - +
90B GLU* 3.2 14.7 + - - +
91B GLU* 2.9 28.8 + - - +
180B ARG* 5.4 1.4 + - - -
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Residues in contact with SER 88 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B SER* 2.8 48.3 + - - +
63B TYR* 3.8 11.6 - - - +
64B HIS* 3.5 20.6 + - - -
84B PHE 2.9 18.9 + - - -
85B LYS 3.5 5.8 - - - -
87B SER* 1.3 77.3 - - - +
89B GLU* 1.3 61.3 + - - +
91B GLU 3.4 0.3 + - - -
92B ARG* 3.2 10.4 + - - +
92F ARG* 2.9 18.1 + - - -
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Residues in contact with GLU 89 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85B LYS 3.3 8.2 + - - +
86B GLU* 3.2 12.7 + - - +
88B SER* 1.3 80.7 - - - +
90B GLU* 1.3 62.3 + - + +
92B ARG* 3.3 8.2 + - + +
93B GLU* 3.1 32.6 + - + +
89F GLU* 4.6 12.3 - - - +
92F ARG* 3.5 25.0 + - - +
93F GLU* 4.4 12.5 - - - +
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Residues in contact with GLU 90 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B GLU* 3.0 24.2 + - - +
87B SER* 3.7 12.5 + - - +
89B GLU* 1.3 76.8 - - + +
91B GLU* 1.3 60.2 + - + +
93B GLU* 3.1 13.4 + - - +
94B HIS* 2.9 43.3 + - + +
180B ARG* 4.9 13.1 + - - -
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Residues in contact with GLU 91 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLU* 3.3 13.6 - - - +
59B VAL* 3.4 27.0 - - + +
60B SER* 3.5 23.8 - - - +
63B TYR* 3.7 20.6 - - + -
87B SER* 2.9 21.3 + - - +
90B GLU* 1.3 73.7 - - - +
92B ARG* 1.3 66.0 + - - +
94B HIS* 3.1 19.3 + - - +
95B ALA* 3.0 21.3 + - - +
140B GLU* 3.9 11.6 - - - +
143B THR* 5.3 0.2 + - - -
214B CA 2.5 29.7 - - - -
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Residues in contact with ARG 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B TYR* 3.8 28.6 + - + +
60B SER* 3.7 11.8 - - - +
88B SER 3.2 13.6 + - - +
89B GLU* 3.6 11.4 - - - +
90B GLU 3.3 0.2 - - - -
91B GLU* 1.3 76.5 - - - +
93B GLU* 1.3 73.6 + - - +
95B ALA* 3.2 7.7 + - - +
96B GLU* 2.9 38.9 + - - +
60F SER* 4.7 3.2 + - - -
64F HIS* 3.6 16.7 + - + -
85F LYS 4.6 1.4 + - - -
88F SER* 2.9 30.7 + - - -
89F GLU* 3.5 35.3 + - - +
92F ARG* 3.3 35.4 - - - +
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Residues in contact with GLU 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89B GLU* 3.1 29.4 + - + +
90B GLU* 3.1 14.1 + - - +
92B ARG* 1.3 88.5 + - - +
94B HIS* 1.3 63.8 + - + +
96B GLU* 3.2 8.6 + - - +
97B LYS* 3.0 30.6 + - - +
216B CA 2.8 28.6 - - - -
89F GLU* 5.5 2.6 - - - +
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Residues in contact with HIS 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLU* 3.5 15.3 - - - +
90B GLU* 2.9 30.7 + - + +
91B GLU* 3.1 20.5 + - - +
93B GLU* 1.3 80.7 - - + +
95B ALA* 1.3 62.4 + - - +
97B LYS* 4.6 8.7 - - - +
98B LEU* 3.4 10.2 + - - +
170B TYR* 2.7 42.8 + + + -
173B GLU* 6.1 6.5 - - + +
174B GLN* 5.8 1.1 - - - -
214B CA 2.7 23.8 - - - -
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Residues in contact with ALA 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ILE* 3.8 10.9 - - + +
56B GLU* 3.8 22.4 - - + +
57B TYR* 3.7 33.4 - - + +
91B GLU 3.0 8.7 + - - +
92B ARG* 3.5 9.2 - - - +
94B HIS* 1.3 77.6 - - - +
96B GLU* 1.3 62.6 + - - +
98B LEU* 3.2 8.6 + - - +
99B MET* 3.0 25.7 + - - +
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Residues in contact with GLU 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B ARG* 2.9 25.1 + - - +
93B GLU* 3.2 10.6 + - - +
95B ALA* 1.3 76.3 - - - +
97B LYS* 1.3 57.2 + - - +
99B MET* 3.2 10.5 + - - +
100B GLU* 2.9 39.8 + - - +
216B CA 2.6 28.7 - - - -
64F HIS* 2.7 32.8 + - + +
67F PHE* 4.5 7.2 - - + -
85F LYS* 3.2 34.3 + - - +
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Residues in contact with LYS 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B GLU 3.0 15.7 + - - +
94B HIS* 4.5 8.3 - - - +
95B ALA 3.3 0.2 - - - -
96B GLU* 1.3 76.7 - - - +
98B LEU* 1.3 57.6 + - - +
100B GLU* 3.4 15.3 + - - +
101B TYR* 2.9 26.2 + - - +
165B PHE* 4.1 22.4 - - + -
169B GLU* 2.9 39.2 + - - +
170B TYR* 3.4 23.6 - - + +
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Residues in contact with LEU 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B VAL* 3.8 22.1 - - + +
52B GLN* 3.5 33.2 - - + -
53B ILE* 3.4 18.8 - - + +
56B GLU* 3.8 15.3 - - + -
94B HIS 3.4 8.2 + - - +
95B ALA 3.2 4.5 + - - +
97B LYS* 1.3 78.3 - - - +
99B MET* 1.3 60.2 + - - +
101B TYR* 3.6 4.5 - - + +
102B GLN* 2.9 28.8 + - - +
147B LEU* 5.5 0.2 - - + -
150B LEU* 4.4 19.5 - - + -
165B PHE* 3.9 22.2 - - + -
166B VAL* 5.6 0.2 - - + -
170B TYR* 3.3 25.1 - - + +
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Residues in contact with MET 99 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ILE* 3.7 26.9 - - + -
57B TYR* 4.5 2.9 - - - -
95B ALA 3.0 21.3 + - - +
96B GLU* 3.2 10.3 + - - +
98B LEU* 1.3 77.2 - - - +
100B GLU* 1.3 60.9 + - - +
102B GLN* 3.3 5.2 + - - +
103B ASN* 3.3 20.9 + - - -
109B VAL* 3.6 16.2 - - + +
111B LEU* 4.2 19.1 - - + -
64F HIS* 3.6 62.6 - - + +
67F PHE* 4.1 11.9 - - + -
68F ALA* 4.0 14.6 - - + -
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Residues in contact with GLU 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B GLU* 2.9 27.0 + - - +
97B LYS* 3.7 12.7 - - - +
99B MET* 1.3 75.7 - - - +
101B TYR* 1.3 58.2 + - - +
103B ASN* 3.3 4.3 + - - +
104B LYS* 2.9 41.6 + - - +
67F PHE* 4.0 18.4 - - + -
71F ASP* 4.1 11.2 - - - +
85F LYS* 2.6 34.3 + - - -
179V LYS* 5.3 0.5 + - - -
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Residues in contact with TYR 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B TYR* 4.2 9.6 - + - -
49B VAL* 4.5 7.6 - - + -
97B LYS 2.9 18.7 + - - +
98B LEU 3.6 5.4 - - - +
99B MET 3.2 0.2 - - - -
100B GLU* 1.3 74.3 - - - +
102B GLN* 1.3 70.4 + - - +
104B LYS* 3.0 27.6 + - + +
105B ARG* 3.0 46.2 + - + +
161B GLN* 2.5 34.8 + - - -
162B LEU* 3.1 35.2 - - + -
165B PHE* 3.6 47.1 - + + -
175V VAL* 5.3 3.6 - - + -
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Residues in contact with GLN 102 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B TYR* 2.7 40.6 + - - -
46B GLU* 3.0 28.8 + - - +
49B VAL* 3.7 10.7 - - + +
50B ASN* 3.0 25.9 + - - +
53B ILE* 4.8 0.7 - - + -
98B LEU 2.9 13.5 + - - +
99B MET* 3.5 10.3 - - - +
101B TYR* 1.3 81.6 - - - +
103B ASN* 1.3 60.9 + - - +
105B ARG* 3.2 4.5 + - - +
106B GLY 3.1 4.0 + - - -
107B GLY* 3.0 44.3 + - - -
108B LYS 3.8 0.2 + - - -
109B VAL* 3.6 21.5 - - + +
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Residues in contact with ASN 103 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B MET 3.3 12.1 + - - +
100B GLU 3.7 3.6 - - - +
101B TYR 3.2 0.6 - - - -
102B GLN* 1.3 76.6 - - - +
104B LYS* 1.3 66.2 + - - +
106B GLY* 3.2 11.4 + - - -
107B GLY 3.5 12.1 - - - +
109B VAL* 4.2 9.7 + - - +
67F PHE* 5.5 0.6 - - - -
68F ALA* 3.0 29.9 + - - +
71F ASP* 3.0 47.7 + - - +
72F ARG* 3.4 21.1 - - - +
73F ASP* 4.2 6.8 + - - +
179V LYS* 3.8 14.1 - - - +
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Residues in contact with LYS 104 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B ALA* 4.2 7.6 - - - +
100B GLU* 2.9 31.9 + - - +
101B TYR* 3.0 23.7 + - + +
103B ASN* 1.3 76.5 - - - +
105B ARG* 1.3 60.0 + - - +
106B GLY 3.6 0.3 + - - -
165B PHE* 6.2 2.4 - - - -
175V VAL* 3.9 26.2 - - + +
176V GLU* 2.8 41.4 + - - +
178V ILE* 5.8 0.5 - - - +
179V LYS* 3.8 36.1 - - + +
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Residues in contact with ARG 105 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B ALA 4.4 1.5 - - - -
38B ARG* 3.3 26.0 - - - +
39B GLN 3.3 15.7 + - - +
40B LYS* 3.1 18.6 + - - +
41B TYR* 3.4 39.3 - - + +
101B TYR* 3.0 53.7 + - + +
102B GLN 3.2 3.6 + - - +
103B ASN 3.1 0.2 - - - -
104B LYS* 1.3 76.9 - - - +
106B GLY* 1.3 60.4 + - - +
107B GLY 3.5 0.2 + - - -
159B ASP* 2.8 41.6 + - - -
161B GLN* 3.5 16.9 + - - +
162B LEU 3.8 0.2 - - - +
144V ASN* 6.1 0.4 - - - +
175V VAL* 3.8 24.7 - - - +
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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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