Contacts of the helix formed by residues 64 - 93 (chain D) in PDB entry 2FJC
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 GLU 64 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62D GLY* 3.1 1.8 + - - -
63D ILE* 1.3 100.0 + - + +
65D PHE* 1.3 65.5 + - - +
66D LYS 3.4 1.8 - - - -
67D GLN* 3.1 26.6 + - + +
68D VAL* 3.1 20.7 + - + +
120D ILE* 3.3 26.6 - - + +
64H GLU* 5.1 2.1 - - + +
63L ILE* 3.5 45.0 - - + +
64L GLU* 4.8 5.1 - - + +
67L GLN* 5.9 3.6 - - - +
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Residues in contact with PHE 65 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57D HIS 4.3 3.4 - - - -
58D TRP 4.8 1.8 - - - -
60D ILE* 3.5 46.2 - - + -
61D TYR* 4.3 0.7 - - - -
62D GLY 2.9 18.4 + - - +
63D ILE 3.2 1.8 + - - -
64D GLU* 1.3 76.8 - - - +
66D LYS* 1.3 57.7 + - + +
68D VAL* 3.2 0.9 + - - +
69D HIS* 2.6 68.8 + + + +
120D ILE* 3.5 8.8 - - - +
169H TRP* 3.8 22.0 - + - -
170H MET* 3.8 31.9 - - + -
173H ALA* 3.9 15.5 - - + -
174H THR* 3.7 26.2 - - + -
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Residues in contact with LYS 66 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63D ILE 5.0 0.6 + - - -
64D GLU 3.2 1.2 + - - -
65D PHE* 1.3 88.0 - - + +
67D GLN* 1.3 79.4 + - - +
69D HIS* 3.4 5.8 + - + +
70D GLU* 2.8 58.1 + - + +
67H GLN 5.9 0.9 - - - +
71H LEU* 4.1 33.8 - - + +
74H GLU* 3.8 27.4 + - - -
170H MET* 5.1 16.6 - - + -
174H THR* 4.8 4.8 - - + +
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Residues in contact with GLN 67 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63D ILE 4.3 4.4 + - - -
64D GLU* 3.1 26.6 + - + +
66D LYS* 1.3 95.1 + - - +
68D VAL* 1.3 61.9 + - + +
70D GLU* 3.4 10.1 + - - +
71D LEU* 2.9 28.2 + - - +
64H GLU* 6.1 3.2 - - - +
67H GLN* 3.5 31.0 - - + +
66L LYS* 5.5 3.2 + - - +
67L GLN* 3.4 45.6 - - + +
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Residues in contact with VAL 68 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60D ILE* 3.5 18.4 - - + -
64D GLU* 3.1 22.2 + - + +
67D GLN* 1.3 74.6 - - + +
69D HIS* 1.3 61.2 + - - +
71D LEU* 3.5 9.1 - - + +
72D LEU* 2.8 50.3 + - + +
120D ILE* 3.6 27.8 - - + +
123D ALA* 5.9 0.2 - - + -
124D LEU* 3.9 30.1 - - + -
63L ILE* 5.2 2.0 - - + -
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Residues in contact with HIS 69 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A GLU* 4.4 4.0 + - - -
601A FE 4.0 5.6 - - - -
57D HIS* 2.7 88.1 + + - -
58D TRP* 5.0 0.7 - + - -
60D ILE* 3.7 6.9 - - - +
65D PHE* 2.6 42.9 + + + +
66D LYS* 3.4 8.1 - - + +
68D VAL* 1.3 73.9 - - - +
70D GLU* 1.3 70.4 + - + +
72D LEU* 3.5 2.0 + - - -
73D GLU* 3.3 5.1 + - - -
166H LYS* 5.9 1.0 + - - -
169H TRP* 3.8 27.5 - + - -
170H MET* 4.9 11.0 - - + +
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Residues in contact with GLU 70 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66D LYS* 2.8 59.0 + - - +
67D GLN* 3.7 6.8 - - - +
69D HIS* 1.3 84.8 - - + +
71D LEU* 1.3 65.7 + - - +
73D GLU* 3.1 17.1 + - - +
74D GLU* 3.0 29.7 + - - +
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Residues in contact with LEU 71 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67D GLN 2.9 18.3 + - - +
68D VAL* 3.1 10.3 + - + +
70D GLU* 1.3 74.5 - - - +
72D LEU* 1.3 64.0 + - + +
74D GLU* 3.0 20.6 + - - +
75D TYR* 2.9 65.9 + - + +
124D LEU* 4.4 21.5 - - + -
171D LEU* 4.6 4.9 - - + -
174D THR* 6.2 3.8 - - + -
66L LYS* 3.7 37.2 - - + +
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Residues in contact with LEU 72 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53D LEU* 4.1 10.3 - - + +
56D TYR* 4.0 13.0 - - + -
57D HIS* 3.9 35.2 - - + +
60D ILE* 3.9 11.0 - - + -
68D VAL* 2.8 42.1 + - + +
69D HIS 3.6 4.9 - - - +
71D LEU* 1.3 78.0 - - + +
73D GLU* 1.3 55.8 - - - +
75D TYR* 3.2 24.3 + - + +
76D TYR* 2.9 31.1 + - - +
123D ALA* 5.5 1.1 - - + -
124D LEU* 4.4 17.5 - - + -
127D VAL* 4.5 15.0 - - + -
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Residues in contact with GLU 73 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ASP* 4.8 4.3 - - - +
57D HIS* 3.8 21.9 + - + -
69D HIS* 3.3 3.5 + - - +
70D GLU* 3.1 19.5 + - - +
72D LEU* 1.3 75.3 - - - +
74D GLU* 1.3 68.2 + - + +
76D TYR* 3.2 33.9 + - + -
77D VAL* 2.9 38.4 + - + +
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Residues in contact with GLU 74 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70D GLU* 3.0 20.6 + - - +
71D LEU* 3.0 17.9 + - + +
73D GLU* 1.3 77.7 - - + +
75D TYR* 1.3 60.9 + - + +
77D VAL* 3.3 6.6 + - - +
78D SER* 2.9 30.4 + - - -
66L LYS* 3.6 32.3 + - - -
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Residues in contact with TYR 75 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53D LEU* 3.9 15.7 - - + -
71D LEU* 2.9 50.2 + - + +
72D LEU* 3.3 25.4 - - + +
74D GLU* 1.3 81.5 - - + +
76D TYR* 1.3 58.4 + - - +
78D SER* 3.2 8.1 + - - -
79D VAL* 2.7 31.4 + - - +
124D LEU* 5.2 0.2 - - + -
127D VAL* 4.3 8.3 - - + -
131D PHE* 3.9 35.4 - + + -
167D ALA* 4.0 18.7 + - + +
170D MET* 5.2 4.2 - - - +
171D LEU* 3.6 30.5 + - + +
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Residues in contact with TYR 76 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ASP* 3.7 19.6 + - - -
50D TYR* 3.3 31.4 - + + +
53D LEU* 3.7 28.5 - - + +
54D HIS* 3.4 47.0 + + - -
57D HIS* 3.9 20.3 + + - -
72D LEU 2.9 24.7 + - - -
73D GLU* 3.5 42.2 + - + +
75D TYR* 1.3 71.3 - - - +
77D VAL* 1.3 71.1 + - + +
79D VAL* 4.0 2.0 - - - -
80D THR* 2.9 24.4 + - - -
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Residues in contact with VAL 77 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50D TYR* 5.3 0.2 - - - -
73D GLU* 2.9 30.7 + - + +
74D GLU* 3.6 6.7 - - - +
76D TYR* 1.3 91.1 - - + +
78D SER* 1.3 63.3 + - - +
80D THR* 3.2 12.8 - - + +
81D GLU* 3.1 23.6 + - + +
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Residues in contact with SER 78 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74D GLU 2.9 17.1 + - - -
75D TYR* 3.4 9.9 - - - -
77D VAL* 1.3 79.7 - - - +
79D VAL* 1.3 61.3 + - - +
81D GLU* 3.2 15.8 + - - +
82D ALA* 3.1 22.5 + - - +
163D THR* 4.4 17.0 + - - +
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Residues in contact with VAL 79 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46D LEU* 3.4 41.9 - - + +
49D LEU* 3.8 17.5 - - + -
50D TYR* 4.0 17.0 - - + +
53D LEU* 3.7 15.5 - - + -
75D TYR 2.7 21.9 + - - +
76D TYR* 3.8 7.0 - - - +
77D VAL 3.3 0.2 - - - -
78D SER* 1.3 75.6 - - - +
80D THR* 1.3 58.7 + - - +
82D ALA* 3.2 7.8 + - - +
83D PHE* 2.8 25.6 + - - +
131D PHE* 4.4 9.4 - - + -
134D LEU* 5.5 0.9 - - + -
164D LEU* 6.4 0.7 - - + -
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Residues in contact with THR 80 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TYR* 2.8 28.2 + - - +
54A HIS* 4.9 1.4 + - - -
50D TYR* 3.6 19.2 - - + +
76D TYR 2.9 16.0 + - - +
77D VAL* 3.2 19.3 - - + +
79D VAL* 1.3 75.8 - - - +
81D GLU* 1.3 65.3 + - - +
83D PHE* 3.2 18.6 - - - +
84D ASP* 3.0 27.9 + - - +
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Residues in contact with GLU 81 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77D VAL* 3.1 15.6 + - + +
78D SER* 3.2 18.1 + - - +
79D VAL 3.1 0.6 - - - -
80D THR* 1.3 77.3 - - - +
82D ALA* 1.3 66.1 + - - +
84D ASP* 3.2 5.8 + - - +
85D THR* 3.0 36.8 + - + +
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Residues in contact with ALA 82 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46D LEU* 4.1 15.3 - - + -
78D SER 3.1 8.7 + - - +
79D VAL* 3.6 8.7 - - - +
81D GLU* 1.3 76.4 + - - +
83D PHE* 1.3 66.8 + - - +
85D THR* 3.9 7.9 - - - -
86D ILE* 2.9 29.6 + - - +
160D ILE* 3.8 34.1 - - + -
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Residues in contact with PHE 83 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TYR* 5.4 4.5 - + - -
51A ILE* 5.1 6.7 - - + -
54A HIS* 3.7 28.3 - + + -
58A TRP* 3.6 19.7 - + - -
43D VAL* 3.4 42.5 - - + +
46D LEU* 3.9 14.5 - - + +
47D GLY* 3.7 22.0 - - - -
50D TYR* 6.3 1.6 - - + -
79D VAL* 2.8 15.7 + - + +
80D THR* 3.2 24.5 - - - +
82D ALA* 1.3 76.4 - - - +
84D ASP* 1.3 59.3 + - - +
86D ILE* 4.1 1.4 - - - +
87D ALA* 3.1 29.5 + - - +
104D TYR* 3.2 26.7 - + - -
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Residues in contact with ASP 84 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A HIS* 3.8 13.7 - - + +
57A HIS* 3.8 1.4 - - - -
58A TRP* 3.0 22.8 + - - -
73A GLU* 5.4 1.6 - - - +
76A TYR* 3.8 9.8 + - - +
80D THR 3.0 13.1 + - - +
81D GLU* 3.8 4.3 - - - +
83D PHE* 1.3 85.6 - - + +
85D THR* 1.3 66.0 + - + +
87D ALA* 3.8 2.8 - - - +
88D GLU* 3.0 35.7 + - - +
604D FE 2.3 31.2 - - - -
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Residues in contact with THR 85 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81D GLU* 3.0 25.7 + - + +
82D ALA* 3.3 11.5 + - - -
84D ASP* 1.3 77.0 - - + +
86D ILE* 1.3 62.3 + - - +
88D GLU* 3.4 10.7 + - - +
89D ARG* 3.0 27.4 + - - +
156D ILE* 4.1 24.0 - - - +
160D ILE* 4.3 3.8 - - - +
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Residues in contact with ILE 86 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D LEU* 3.8 28.1 - - + +
42D HIS* 3.9 7.9 - - + -
43D VAL* 3.7 18.8 - - + -
46D LEU* 3.9 12.6 - - + -
82D ALA 2.9 14.0 + - - +
83D PHE 4.1 2.0 - - - +
85D THR* 1.3 76.0 + - - +
87D ALA* 1.3 68.0 + - - +
89D ARG* 3.1 8.2 + - - +
90D LEU* 3.0 21.0 + - - +
138D PHE* 3.3 37.2 - - + -
156D ILE* 4.4 8.5 - - + -
157D ILE* 4.9 7.4 - - + -
160D ILE* 3.5 24.5 - - + -
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Residues in contact with ALA 87 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TRP* 3.4 37.9 - - + -
43D VAL* 3.8 17.5 - - + +
83D PHE 3.1 19.9 + - - +
84D ASP 3.8 1.6 - - - +
86D ILE* 1.3 77.2 - - - +
88D GLU* 1.3 58.2 + - - +
90D LEU* 3.2 9.3 - - - +
91D LEU* 3.0 29.8 + - - +
97D ALA* 4.0 9.2 - - + +
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Residues in contact with GLU 88 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TRP* 4.3 11.4 - - + +
69A HIS* 3.5 19.8 + - - -
84D ASP* 3.0 27.2 + - - +
85D THR* 3.7 10.3 - - - +
87D ALA* 1.3 73.5 - - - +
89D ARG* 1.3 65.4 + - - +
91D LEU* 3.2 10.3 + - - +
92D GLN* 3.0 36.2 + - - +
604D FE 2.6 27.1 - - - -
166G LYS* 3.0 26.2 + - - +
169G TRP* 3.7 15.2 - - + -
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Residues in contact with ARG 89 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D LEU* 4.2 12.6 - - + -
85D THR 3.0 14.3 + - - +
86D ILE* 3.1 12.3 + - - +
88D GLU* 1.3 73.6 - - - +
90D LEU* 1.3 67.1 + - - +
92D GLN* 2.8 48.4 + - - +
93D LEU* 2.9 41.3 + - + +
150D ASP* 2.9 27.9 + - - -
152D VAL* 3.5 23.9 - - - +
153D THR* 2.8 24.2 + - + +
156D ILE* 3.9 25.6 - - + -
157D ILE* 6.0 0.4 - - + -
165G GLY* 5.1 4.8 - - - -
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Residues in contact with LEU 90 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D CYS* 3.5 45.1 - - + +
39D LEU* 3.6 20.1 - - + +
40D ARG* 3.6 35.9 - - + +
43D VAL* 4.5 5.2 - - + -
86D ILE 3.0 10.0 + - - +
87D ALA 3.2 9.9 - - - +
89D ARG* 1.3 78.1 - - - +
91D LEU* 1.3 60.9 - - - +
93D LEU* 3.1 13.3 + - - +
95D ALA* 3.1 32.8 + - + +
96D GLN 4.1 2.7 - - - +
97D ALA* 3.9 24.0 - - + -
98D PRO* 3.9 2.7 - - + -
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Residues in contact with LEU 91 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A TRP* 3.5 35.9 - - + +
59A HIS* 3.8 31.6 - - + +
87D ALA 3.0 17.2 + - - +
88D GLU* 3.4 9.6 - - - +
89D ARG 3.2 0.2 - - - -
90D LEU* 1.3 77.4 - - - +
92D GLN* 1.3 61.5 + - - +
94D GLY* 3.0 15.1 + - - -
95D ALA 3.3 17.6 - - - +
96D GLN* 5.6 0.2 - - + -
97D ALA* 3.9 8.5 - - + +
169G TRP* 3.3 49.3 + - + +
----------------------------------------------------------
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Residues in contact with GLN 92 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88D GLU* 3.0 25.1 + - - +
89D ARG* 2.8 43.2 + - - +
91D LEU* 1.3 77.0 - - - +
93D LEU* 1.3 59.7 + - - +
94D GLY* 3.0 4.9 + - - -
152D VAL* 4.6 5.1 - - - +
162G ARG* 4.9 2.9 + - - +
165G GLY* 3.9 23.0 - - - +
166G LYS* 3.6 20.6 - - - +
169G TRP* 3.7 30.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU 93 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32D ILE* 4.9 25.5 - - + +
35D ILE* 4.1 10.8 - - + -
36D CYS* 3.8 25.8 - - - -
39D LEU* 3.8 29.8 - - + -
89D ARG* 2.9 40.8 + - - +
90D LEU 3.1 9.1 + - - +
92D GLN* 1.3 74.9 - - - +
94D GLY* 1.3 59.3 + - - +
95D ALA 3.4 1.5 + - - -
150D ASP* 4.1 8.1 - - - +
153D THR* 4.0 12.6 - - - +
----------------------------------------------------------
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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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