Contacts of the helix formed by residues 94 - 124 (chain C) in PDB entry 2BKC
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 THR 94 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LYS* 1.3 77.8 - - - +
95C MET* 1.3 64.3 + - - +
96C ASP* 3.4 12.3 + - + +
97C GLN* 2.9 41.2 + - + +
98C LEU* 3.2 23.5 + - - +
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Residues in contact with MET 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C MET* 3.6 43.3 - - + -
35C ARG 3.4 30.9 + - - +
36C GLY* 5.9 0.4 - - - -
38C ASN* 4.3 26.9 - - + +
42C LEU* 3.0 35.7 - - + -
94C THR* 1.3 73.6 - - - +
96C ASP* 1.3 64.7 + - - +
98C LEU* 3.3 9.9 + - - +
99C MET* 3.1 27.9 + - + +
149C PHE* 4.5 12.3 - - + -
37L HIS* 5.5 2.5 - - + -
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Residues in contact with ASP 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C THR* 3.1 10.9 - - + +
95C MET* 1.3 81.2 - - - +
97C GLN* 1.3 63.0 + - + +
99C MET* 3.5 1.1 + - - -
100C GLU* 3.1 34.7 + - - +
149C PHE* 5.1 2.5 - - - -
150C LEU* 3.5 32.6 - - - +
37L HIS* 3.3 33.1 + - - -
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Residues in contact with GLN 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C PRO 4.7 2.5 + - - +
93C LYS* 3.5 43.4 - - + +
94C THR* 2.9 52.3 + - - +
96C ASP* 1.3 74.4 - - + +
98C LEU* 1.3 64.2 + - - +
100C GLU* 3.4 10.8 + - - +
101C ASP* 3.1 21.0 + - - +
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Residues in contact with LEU 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C GLN* 5.2 7.2 - - + +
30C ILE* 3.5 40.9 - - + +
33C TYR* 4.6 5.4 - - + +
34C MET* 4.0 34.5 - - + +
35C ARG 5.3 0.4 - - - +
89C TYR* 4.2 17.3 - - + -
93C LYS* 4.2 28.0 - - + +
94C THR 3.2 15.8 + - - +
95C MET* 3.5 13.9 - - - +
97C GLN* 1.3 77.6 - - - +
99C MET* 1.3 59.9 + - + +
101C ASP* 3.2 10.6 + - + +
102C LEU 3.0 20.1 + - - -
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Residues in contact with MET 99 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C ILE* 3.4 33.7 - - + -
34C MET* 4.7 1.3 - - + -
42C LEU* 3.7 33.2 - - + -
46C MET* 4.2 11.4 - - + -
95C MET* 3.1 17.6 + - - +
96C ASP 3.9 4.5 - - - +
98C LEU* 1.3 77.1 - - + +
100C GLU* 1.3 60.3 + - - +
102C LEU* 3.3 10.1 - - + +
103C VAL* 2.8 37.2 + - + +
146C PHE* 4.0 27.4 - - + -
149C PHE* 4.2 12.8 - - + -
150C LEU* 4.2 16.2 - - + -
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Residues in contact with GLU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ASP* 3.1 30.0 + - - +
97C GLN* 3.7 10.2 - - - +
98C LEU 3.2 0.2 - - - -
99C MET* 1.3 73.8 - - - +
101C ASP* 1.3 63.1 + - - +
103C VAL* 3.8 6.9 - - + +
104C GLY* 2.9 28.6 + - - -
150C LEU* 3.4 19.5 - - + +
152C LYS* 2.2 39.1 + - - +
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Residues in contact with ASP 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C LYS* 2.9 38.5 + - + +
29C GLN* 4.8 7.1 + - - -
30C ILE* 5.0 2.7 - - + +
97C GLN 3.1 12.4 + - - +
98C LEU* 3.3 13.2 - - + +
100C GLU* 1.3 77.8 - - - +
102C LEU* 1.3 62.3 + - - +
104C GLY* 3.9 1.1 - - - -
105C THR* 3.0 32.6 + - - -
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Residues in contact with LEU 102 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C PHE* 3.5 33.0 - - + -
26C LYS* 5.2 1.6 - - - -
27C ILE* 4.8 3.8 - - + -
30C ILE* 4.0 16.5 - - + +
46C MET* 4.1 7.9 - - + -
49C LEU* 3.8 21.3 - - + -
98C LEU 3.0 13.6 + - - +
99C MET* 3.3 17.7 - - + +
101C ASP* 1.3 75.1 - - - +
103C VAL* 1.3 57.7 + - - +
105C THR* 3.3 6.5 + - - -
106C LEU* 3.0 30.7 + - + +
146C PHE* 3.7 43.5 - - + -
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Residues in contact with VAL 103 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C MET 2.8 24.0 + - - +
100C GLU* 3.8 7.6 - - + +
102C LEU* 1.3 72.4 - - + +
104C GLY* 1.3 60.1 + - - +
105C THR 3.1 0.9 - - - -
106C LEU* 3.1 11.8 + - + +
107C GLU* 2.9 38.8 + - + +
143C ILE* 5.0 5.1 - - + +
146C PHE* 3.6 35.0 - - + -
147C LYS* 3.4 36.1 - - + +
150C LEU* 4.3 13.5 - - + -
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Residues in contact with GLY 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLU 2.9 19.9 + - - -
101C ASP* 3.9 1.3 - - - -
103C VAL* 1.3 73.2 - - - +
105C THR* 1.3 57.1 + - - +
107C GLU* 3.4 17.0 + - - +
108C LEU* 3.0 27.2 + - - +
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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
----------------------------------------------------------
23C PHE* 3.4 37.0 - - + -
26C LYS* 3.6 18.5 - - - -
84C VAL* 4.2 25.9 - - + +
85C GLU 4.9 1.2 + - - -
101C ASP* 3.0 21.8 + - - -
102C LEU* 3.5 4.9 - - - -
104C GLY* 1.3 75.2 - - - +
106C LEU* 1.3 59.0 + - - +
108C LEU* 3.4 9.9 + - + +
109C LEU* 3.1 28.2 + - + +
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Residues in contact with LEU 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C PHE* 3.6 30.5 - - + -
49C LEU* 5.5 2.5 - - + -
53C PHE* 3.8 22.4 - - + -
102C LEU* 3.0 25.9 + - + +
103C VAL* 3.5 12.6 - - + +
105C THR* 1.3 74.6 - - - +
107C GLU* 1.3 58.2 + - - +
109C LEU* 3.4 5.2 + - + +
110C ARG* 2.9 24.1 + - - +
139C ILE* 3.4 19.4 - - + +
142C HIS* 3.9 31.4 - - + +
143C ILE* 3.9 20.0 - - + -
146C PHE* 4.5 10.3 - - + -
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Residues in contact with GLU 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C VAL* 2.9 21.1 + - + +
104C GLY* 3.4 17.7 - - - +
106C LEU* 1.3 73.4 - - - +
108C LEU* 1.3 64.8 + - - +
110C ARG* 3.2 30.7 + - - +
111C ASP* 3.1 31.8 + - - +
143C ILE* 4.3 12.4 - - + +
147C LYS* 3.1 35.2 + - - -
154C PRO 4.4 3.8 - - - +
155C LEU* 5.8 0.7 - - - -
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ASN* 4.2 1.6 - - - +
83C SER* 3.9 27.4 - - - +
84C VAL* 3.9 24.9 - - + -
85C GLU 5.4 0.7 - - - +
104C GLY 3.0 13.1 + - - +
105C THR* 3.4 12.3 - - - +
107C GLU* 1.3 75.5 - - - +
109C LEU* 1.3 67.5 + - - +
111C ASP* 3.4 4.8 + - - +
112C GLU* 3.0 58.5 + - + +
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Residues in contact with LEU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C GLN* 3.6 24.0 - - - +
19C ASN* 4.0 21.3 - - + +
20C LEU* 4.1 15.5 - - + -
23C PHE* 3.8 37.7 - - + -
53C PHE* 4.3 8.5 - - + -
84C VAL* 4.5 3.8 - - + -
105C THR* 3.1 18.5 + - + +
106C LEU* 3.7 10.5 - - + +
107C GLU 3.4 0.2 - - - -
108C LEU* 1.3 81.3 - - + +
110C ARG* 1.3 58.6 + - - +
112C GLU* 3.4 1.7 + - - +
113C TYR* 2.9 45.6 + - + +
139C ILE* 4.3 12.1 - - + -
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Residues in contact with ARG 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C LEU 2.9 17.3 + - - +
107C GLU* 3.2 30.5 + - - +
109C LEU* 1.3 76.3 - - - +
111C ASP* 1.3 85.9 + - - +
113C TYR* 3.4 5.4 + - - +
114C LYS* 3.0 27.3 + - + +
136C LYS* 3.8 24.5 - - + +
139C ILE* 4.0 16.5 - - + +
140C ASP* 3.2 26.8 + - - +
143C ILE* 4.0 20.4 - - + +
154C PRO 5.1 0.4 + - - -
155C LEU* 4.1 24.2 - - - +
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Residues in contact with ASP 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C GLU* 3.1 19.5 + - - +
108C LEU* 3.9 5.1 - - - +
110C ARG* 1.3 104.2 + - - +
112C GLU* 1.3 67.5 + - + +
114C LYS* 3.4 8.5 + - - +
115C GLN* 3.2 27.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 112 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 3.1 13.6 - - + -
15C HIS* 3.5 6.4 - - - -
16C GLN* 3.2 18.7 + - - +
19C ASN* 2.7 28.6 + - - -
83C SER* 2.5 27.6 + - - -
108C LEU* 3.0 33.5 + - + +
109C LEU* 4.0 3.6 - - - +
111C ASP* 1.3 77.8 - - + +
113C TYR* 1.3 55.9 + - - +
115C GLN* 3.1 17.7 + - - +
116C GLY 3.0 21.5 + - - -
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Residues in contact with TYR 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 3.9 8.3 - + - -
16C GLN* 3.6 38.2 - - + +
20C LEU* 3.3 24.6 - - - +
56C GLN* 2.9 19.5 + - - -
60C VAL* 4.7 2.0 - - + +
109C LEU* 2.9 38.1 + - + +
110C ARG* 3.8 6.1 - - - +
112C GLU* 1.3 71.7 - - - +
114C LYS* 1.3 60.4 + - - +
116C GLY* 3.1 0.7 + - - -
117C ILE* 2.8 36.9 + - + +
132C LEU* 4.1 25.5 - - + +
135C PHE* 3.4 42.0 - + + -
136C LYS* 4.4 5.4 - - + -
139C ILE* 4.1 13.2 - - + -
----------------------------------------------------------
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Residues in contact with LYS 114 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C ARG* 3.0 18.6 + - + +
111C ASP* 3.6 10.1 - - - +
112C GLU 3.3 0.2 - - - -
113C TYR* 1.3 74.5 - - - +
115C GLN* 1.3 63.3 + - + +
117C ILE* 3.3 16.6 + - + +
118C GLU* 3.1 62.0 + - - +
136C LYS* 4.5 22.2 - - + +
124J GLY 4.3 12.3 + - - +
126J ASP* 2.9 27.7 + - + +
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Residues in contact with GLN 115 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 4.6 3.3 - - + -
111C ASP 3.2 15.0 + - - +
112C GLU* 3.1 18.9 + - - +
114C LYS* 1.3 77.5 - - + +
116C GLY* 1.3 57.1 + - - +
118C GLU* 3.4 18.2 + - - +
119C LEU* 3.0 27.9 + - - +
----------------------------------------------------------
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Residues in contact with GLY 116 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C PHE* 3.5 37.1 - - - -
112C GLU 3.0 11.3 + - - -
113C TYR 3.1 1.9 + - - -
115C GLN* 1.3 72.6 - - - +
117C ILE* 1.3 59.1 + - - +
119C LEU* 3.9 5.2 - - - +
120C THR* 2.7 34.4 + - - -
132C LEU* 3.9 6.9 - - - +
----------------------------------------------------------
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Residues in contact with ILE 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C TYR 2.8 28.2 + - - +
114C LYS* 3.3 13.7 + - + +
116C GLY* 1.3 71.4 - - - +
118C GLU* 1.3 65.4 + - - +
120C THR* 3.9 6.1 - - - -
121C ASP* 3.2 11.2 + - + +
129C ASN* 3.0 31.7 + - - +
132C LEU* 3.7 32.1 - - + +
133C ILE* 3.8 25.6 - - + -
136C LYS* 4.3 16.2 - - + -
126J ASP* 3.3 33.2 - - + +
----------------------------------------------------------
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Residues in contact with GLU 118 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C LYS* 3.1 46.4 + - - +
115C GLN* 3.4 22.6 + - - +
116C GLY 3.3 0.2 - - - -
117C ILE* 1.3 74.5 - - - +
119C LEU* 1.3 67.1 + - - +
121C ASP* 3.2 5.6 + - - +
122C LYS* 3.0 32.8 + - + +
----------------------------------------------------------
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Residues in contact with LEU 119 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL* 3.7 34.8 - - + +
8C ASP 3.6 28.3 - - - +
9C THR* 3.8 4.7 - - - +
12C PHE* 4.0 21.5 - - + -
115C GLN 3.0 18.5 + - - +
116C GLY* 3.9 3.4 - - - +
118C GLU* 1.3 76.0 - - - +
120C THR* 1.3 59.1 + - - +
122C LYS* 3.2 10.0 + - + +
123C GLU* 3.0 47.9 + - + +
----------------------------------------------------------
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Residues in contact with THR 120 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C THR* 3.4 23.8 + - - +
12C PHE* 6.0 0.7 - - - -
116C GLY 2.7 20.7 + - - +
117C ILE* 3.5 2.0 - - - +
119C LEU* 1.3 77.5 - - - +
121C ASP* 1.3 60.4 + - - +
123C GLU* 3.6 1.6 + - - +
124C GLY 3.3 2.3 + - - -
125C ASP* 3.0 32.4 + - - +
128C THR* 3.8 23.5 - - - +
129C ASN* 3.1 48.9 - - + +
132C LEU* 4.2 2.7 - - + +
----------------------------------------------------------
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Residues in contact with ASP 121 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ILE* 3.2 20.1 + - + +
118C GLU* 3.5 6.2 - - - +
120C THR* 1.3 75.7 - - - +
122C LYS* 1.3 68.5 + - - +
123C GLU 3.2 0.2 - - - -
124C GLY* 3.1 13.8 + - - +
126C ASP* 5.7 1.2 - - - +
129C ASN* 3.7 14.4 + - - +
----------------------------------------------------------
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Residues in contact with LYS 122 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C GLU* 3.0 25.6 + - + +
119C LEU* 3.2 10.7 + - + +
121C ASP* 1.3 81.4 - - + +
123C GLU* 1.3 59.8 + - + +
124C GLY 3.5 0.3 + - - -
----------------------------------------------------------
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Residues in contact with GLU 123 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL 4.5 0.3 - - - +
8C ASP* 3.3 29.2 - - - +
9C THR* 2.7 38.0 + - - +
119C LEU* 3.0 25.5 + - + +
120C THR 4.0 4.7 - - - +
121C ASP 3.2 0.4 - - - -
122C LYS* 1.3 78.6 - - + +
124C GLY* 1.3 59.4 + - - +
125C ASP* 3.6 5.8 + - + +
----------------------------------------------------------
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Residues in contact with GLY 124 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C THR 3.3 0.8 + - - -
121C ASP* 3.1 16.6 + - - -
122C LYS 3.3 0.8 + - - -
123C GLU* 1.3 77.7 - - - +
125C ASP* 1.3 58.1 - - - +
126C ASP* 3.2 23.4 + - - +
114H LYS* 4.5 11.8 - - - -
----------------------------------------------------------
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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