Contacts of the helix formed by residues 81 - 111 (chain C) in PDB entry 5C5B
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 VAL 81 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C GLU* 1.3 83.8 - - + +
82C MET* 1.3 77.2 + - + +
84C SER* 3.0 23.3 + - - +
85C THR* 3.0 16.4 + - + +
232C SER* 3.9 26.7 - - - +
236C VAL* 5.8 3.8 - - + -
193D GLN* 4.3 17.9 - - + +
197D MET* 6.1 2.2 - - + -
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Residues in contact with MET 82 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C GLU 3.1 7.5 - - - +
81C VAL* 1.3 86.4 - - + +
83C SER* 1.3 57.4 + - - +
85C THR* 2.3 30.5 + - - +
86C LEU* 2.9 38.0 + - + +
192D LYS* 3.8 7.9 - - - +
193D GLN* 4.0 32.8 - - + +
196D MET* 3.6 52.9 - - + -
197D MET* 5.4 6.7 - - + -
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Residues in contact with SER 83 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C GLU* 5.2 14.1 - - - -
80C GLU* 2.6 29.7 + - - +
82C MET* 1.3 74.4 - - - +
84C SER* 1.3 65.1 + - - +
86C LEU* 3.2 10.1 + - - +
87C GLN* 2.9 38.8 + - - +
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Residues in contact with SER 84 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C GLU 4.3 2.9 - - - -
81C VAL* 3.0 17.8 + - - +
83C SER* 1.3 82.1 + - - +
85C THR* 1.3 65.5 + - - +
87C GLN* 3.1 12.0 + - - +
88C GLN* 2.8 47.5 + - - +
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Residues in contact with THR 85 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C VAL* 3.0 17.2 + - + +
82C MET* 2.3 35.1 + - - +
84C SER* 1.3 80.3 - - - +
86C LEU* 1.3 66.3 + - - +
88C GLN* 3.4 9.1 + - - +
89C PHE* 2.9 30.9 + - - +
225C PHE* 3.9 3.5 - - - -
228C ASN* 5.8 1.8 - - + -
229C ILE* 3.5 30.1 - - + -
232C SER* 4.4 15.9 - - - +
197D MET* 4.4 14.2 - - - +
200D MET* 4.6 5.0 - - - -
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Residues in contact with LEU 86 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C LEU* 4.5 22.3 - - + +
68C TYR 5.1 2.5 - - - +
69C GLU* 4.1 31.6 - - + +
82C MET* 2.9 48.2 + - + +
83C SER* 3.2 9.4 + - - +
85C THR* 1.3 89.1 + - - +
87C GLN* 1.3 57.5 + - - +
89C PHE* 3.8 5.9 - - + +
90C SER* 2.9 28.6 + - - -
36D TYR* 4.7 17.3 - - + +
196D MET* 5.5 3.6 - - + -
197D MET* 6.0 0.2 - - + -
200D MET* 4.4 13.9 - - - -
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Residues in contact with GLN 87 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C GLU* 5.1 12.7 + - + +
83C SER* 2.9 26.6 + - - +
84C SER* 3.1 7.7 + - - +
86C LEU* 1.3 74.9 - - + +
88C GLN* 1.3 67.1 + - - +
90C SER* 2.9 21.1 + - - +
91C LYS* 3.0 14.2 + - - +
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Residues in contact with GLN 88 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C SER* 2.8 37.9 + - - +
85C THR* 3.7 10.3 - - - +
87C GLN* 1.3 76.6 - - + +
89C PHE* 1.3 57.2 + - - +
91C LYS* 3.3 8.5 + - - +
92C VAL* 3.0 28.9 + - - +
225C PHE* 4.1 22.4 - - + +
228C ASN* 3.2 39.2 + - - +
229C ILE* 4.6 1.4 - - - +
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Residues in contact with PHE 89 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C LEU* 3.4 31.4 - - + -
85C THR 2.9 18.5 + - - +
86C LEU* 3.8 5.2 - - - +
88C GLN* 1.3 75.1 - - - +
90C SER* 1.3 60.4 + - - +
92C VAL* 3.1 10.7 - - + +
93C ILE* 2.9 53.5 + - + +
222C LEU* 6.4 0.2 - - + -
225C PHE* 3.3 27.6 - + + -
44D MET* 5.2 14.1 - - + -
111D MET* 5.9 0.2 - - - -
199D PRO 5.1 0.9 - - - -
200D MET* 3.6 40.4 - - + -
203D PHE* 3.5 34.8 - + + -
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Residues in contact with SER 90 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C SER* 3.5 2.7 + - - -
65C LEU* 3.8 22.0 - - - +
66C LYS* 3.4 36.3 + - - +
86C LEU 2.9 18.2 + - - -
87C GLN* 2.9 21.9 + - - +
89C PHE* 1.3 76.2 - - - +
91C LYS* 1.3 57.7 + - - +
93C ILE* 3.8 1.0 - - - -
94C ASP* 2.9 34.5 + - - +
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Residues in contact with LYS 91 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C LYS* 5.7 0.2 - - - +
87C GLN 3.0 15.2 + - - +
88C GLN* 3.7 6.1 - - - +
89C PHE 3.2 0.2 - - - -
90C SER* 1.3 80.5 + - - +
92C VAL* 1.3 66.1 + - - +
94C ASP* 3.0 20.9 + - - +
95C GLU* 3.0 23.7 + - + +
221C GLN* 3.1 30.1 + - - +
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Residues in contact with VAL 92 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C GLN 3.0 16.6 + - - +
89C PHE* 3.1 31.6 - - + +
91C LYS* 1.3 76.0 - - - +
93C ILE* 1.3 64.2 + - + +
95C GLU* 3.3 1.6 + - - -
96C LEU* 3.0 26.0 + - - +
218C LEU* 3.7 10.0 - - + +
221C GLN* 3.4 36.3 - - + +
222C LEU* 3.7 39.5 - - + +
225C PHE* 4.7 8.3 - - + -
203D PHE* 5.4 2.0 - - + -
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Residues in contact with ILE 93 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C THR* 3.4 31.4 - - + +
61C THR* 3.9 13.7 - - - +
62C SER* 3.6 14.1 - - - -
65C LEU* 3.9 10.1 - - + -
89C PHE* 2.9 52.2 + - + +
90C SER* 3.8 4.0 - - - +
92C VAL* 1.3 78.3 - - - +
94C ASP* 1.3 57.3 + - - +
96C LEU* 3.3 6.0 + - - +
97C SER* 2.9 27.2 + - - -
203D PHE* 3.7 30.7 - - + -
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Residues in contact with ASP 94 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C HIS* 4.8 9.4 + - - -
62C SER* 2.3 26.1 + - - -
66C LYS* 2.4 29.9 + - - -
90C SER 2.9 18.7 + - - +
91C LYS* 3.0 12.8 + - - +
93C ILE* 1.3 78.1 - - - +
95C GLU* 1.3 58.6 + - + +
97C SER* 3.5 6.6 + - - -
98C SER* 3.0 25.5 + - - -
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Residues in contact with GLU 95 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C LYS* 3.0 22.6 + - + +
92C VAL 3.3 6.9 + - - +
94C ASP* 1.3 77.2 - - + +
96C LEU* 1.3 65.1 + - - +
98C SER* 3.2 9.7 + - - -
99C CYS* 2.9 25.5 + - - -
213C MET* 4.9 0.5 - - - +
217C ASN* 3.0 30.2 + - - +
218C LEU* 3.9 11.9 - - + +
221C GLN* 3.2 27.3 - - - +
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Residues in contact with LEU 96 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C THR* 4.0 17.7 - - + -
92C VAL 3.0 13.7 + - - +
93C ILE* 3.3 8.9 + - - +
95C GLU* 1.3 76.0 - - - +
97C SER* 1.3 62.4 + - - +
99C CYS* 3.0 14.9 + - + +
100C HIS* 3.0 39.1 + - + +
218C LEU* 3.5 17.5 - - + +
203D PHE* 3.5 33.2 - - + -
207D GLN* 3.9 15.5 - - + +
211D PHE* 3.5 34.8 - - + -
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Residues in contact with SER 97 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C SER* 3.2 24.3 + - - -
58C THR* 3.4 21.3 + - - -
59C HIS* 3.6 22.9 + - - +
93C ILE 2.9 17.4 + - - -
94C ASP* 3.5 8.5 - - - -
96C LEU* 1.3 77.0 - - - +
98C SER* 1.3 58.2 + - - +
100C HIS* 3.3 3.7 + - - +
101C ALA* 2.9 28.8 + - - +
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Residues in contact with SER 98 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C ASP 3.0 14.2 + - - -
95C GLU* 3.2 16.2 - - - -
96C LEU 3.2 0.2 - - - -
97C SER* 1.3 76.5 - - - +
99C CYS* 1.3 61.4 + - - +
101C ALA* 3.2 8.1 + - - +
102C VAL* 2.9 26.5 + - - +
213C MET* 3.6 14.7 - - - +
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Residues in contact with CYS 99 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C GLU* 2.9 14.3 + - - -
96C LEU* 3.0 11.2 + - - +
98C SER* 1.3 75.2 + - - +
100C HIS* 1.3 63.4 + - - +
102C VAL* 3.2 4.5 + - - +
103C LEU* 3.0 23.2 + - - +
210C PHE* 3.7 22.6 - - + -
213C MET* 3.6 39.7 - - - -
214C GLY* 4.1 20.0 - - - -
218C LEU* 4.7 12.1 - - - -
211D PHE* 4.8 3.8 - - + -
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Residues in contact with HIS 100 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLN* 3.0 28.0 + - - +
54C LEU* 4.0 28.4 - - + +
55C SER* 3.7 22.0 - - - +
58C THR* 4.3 15.9 - - + +
96C LEU* 3.0 51.4 + - + +
97C SER 3.7 3.8 - - - +
99C CYS* 1.3 77.2 - - - +
101C ALA* 1.3 57.1 + - - +
103C LEU 3.5 0.2 + - - -
104C SER* 2.9 31.0 + - - -
210C PHE* 3.8 21.6 - + - -
51D GLN* 5.4 6.6 + - - -
100D HIS* 5.9 2.0 - + - -
207D GLN* 5.1 3.2 + - - -
210D PHE* 5.4 6.5 - + - -
211D PHE* 5.1 1.1 - + - -
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Residues in contact with ALA 101 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C SER* 3.7 12.8 + - - +
97C SER* 2.9 14.6 + - - +
98C SER* 3.4 12.1 - - - +
100C HIS* 1.3 74.3 - - - +
102C VAL* 1.3 61.7 + - - +
104C SER* 3.0 9.6 + - - -
105C THR* 3.0 33.3 + - + +
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Residues in contact with VAL 102 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C SER* 2.9 18.5 + - - +
99C CYS 3.7 4.5 - - - +
101C ALA* 1.3 75.4 - - - +
103C LEU* 1.3 61.6 + - - +
105C THR* 2.9 23.6 + - - +
106C GLN* 3.0 29.6 + - + +
209C SER* 5.0 5.6 - - - +
210C PHE* 5.7 4.5 - - - -
213C MET* 4.1 26.9 - - + -
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Residues in contact with LEU 103 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLN* 3.3 34.3 - - + +
99C CYS 3.0 16.3 + - - +
100C HIS 3.6 5.2 - - - +
102C VAL* 1.3 81.7 - - - +
104C SER* 1.3 55.5 + - - +
106C GLN* 3.8 3.3 - - + +
107C LEU* 2.9 43.6 + - + +
206C ALA* 3.7 41.3 - - + +
207C GLN* 4.0 16.2 - - - +
209C SER* 6.0 0.2 - - - -
210C PHE* 3.5 37.2 - - + -
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Residues in contact with SER 104 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C TYR* 3.3 14.5 - - - -
51C GLN* 3.2 20.4 + - - +
52C ASN* 3.0 38.4 + - - -
55C SER* 4.7 1.7 - - - -
100C HIS 2.9 16.0 + - - -
101C ALA* 3.0 12.9 + - - -
103C LEU* 1.3 77.6 - - - +
105C THR* 1.3 60.2 + - - +
107C LEU* 3.3 4.0 + - - +
108C ALA 2.9 22.9 + - - -
----------------------------------------------------------
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Residues in contact with THR 105 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C TYR* 5.6 0.2 - - - -
101C ALA* 3.0 17.5 + - + +
102C VAL* 2.9 23.1 + - - +
104C SER* 1.3 76.7 - - - +
106C GLN* 1.3 59.9 + - - +
108C ALA* 3.0 11.0 + - - +
109C ASP* 3.0 35.7 + - - +
----------------------------------------------------------
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Residues in contact with GLN 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C VAL* 3.0 22.4 + - - +
103C LEU* 4.0 4.4 - - - +
105C THR* 1.3 83.4 + - - +
107C LEU* 1.3 57.7 + - - +
109C ASP* 3.9 6.0 - - + +
110C ALA* 2.9 39.5 + - + +
205C GLN* 5.3 1.6 + - - +
206C ALA* 4.3 19.0 - - + +
209C SER* 2.8 32.6 + - - -
----------------------------------------------------------
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Residues in contact with LEU 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ILE* 4.3 17.3 - - + -
48C TYR* 4.2 15.0 - - + -
51C GLN* 4.0 30.5 - - + +
103C LEU* 2.9 35.6 + - + +
104C SER* 3.4 5.8 - - - +
106C GLN* 1.3 73.4 - - - +
108C ALA* 1.3 59.8 + - - +
110C ALA* 5.2 0.2 - - - -
111C MET* 2.9 45.1 + - + +
112C MET* 3.0 9.6 + - - +
203C TYR* 3.6 31.0 - - + -
206C ALA* 4.0 17.7 - - + +
207C GLN* 5.2 0.4 - - - +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C TYR* 3.4 34.9 - - + +
104C SER 2.9 8.6 + - - +
105C THR* 3.2 13.5 - - - +
107C LEU* 1.3 76.7 - - - +
109C ASP* 1.3 62.8 + - - +
112C MET* 3.6 8.1 - - + +
113C PHE* 3.1 28.4 + - - +
----------------------------------------------------------
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Residues in contact with ASP 109 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C THR* 3.0 20.5 + - - +
106C GLN* 4.1 5.8 - - + +
108C ALA* 1.3 83.8 - - - +
110C ALA* 1.3 61.8 + - + +
113C PHE* 3.4 26.6 - - - +
114C PRO* 3.6 4.2 - - - +
----------------------------------------------------------
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Residues in contact with ALA 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C GLN* 2.9 24.6 + - + +
109C ASP* 1.3 75.3 - - - +
111C MET* 1.3 60.2 + - + +
114C PRO* 3.2 18.0 - - - +
198C GLU* 4.2 2.3 - - - +
199C PRO* 4.0 4.9 - - - +
202C GLY* 3.7 35.0 - - - +
206C ALA* 5.5 0.4 - - + -
----------------------------------------------------------
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Residues in contact with MET 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C MET* 3.5 60.9 - - + +
47C ILE* 4.4 11.9 - - + -
107C LEU* 2.9 41.8 + - + +
110C ALA* 1.3 77.7 - - - +
112C MET* 1.3 82.2 + - - +
113C PHE 3.4 0.9 - - - -
114C PRO* 3.2 10.0 - - - +
115C ILE 3.8 1.6 + - - -
199C PRO* 3.6 21.7 - - - +
200C LEU* 5.9 1.3 - - + -
202C GLY 4.9 0.2 - - - -
203C TYR* 3.4 37.2 - - + +
61D LEU* 4.7 4.3 - - + -
----------------------------------------------------------
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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