Contacts of the helix formed by residues 94 - 124 (chain P) 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 P).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93P LYS* 1.3 75.4 - - - +
95P MET* 1.3 66.3 + - - +
96P ASP* 3.7 8.6 + - - +
97P GLN* 2.8 47.8 + - - +
98P LEU* 3.0 13.6 + - - +
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Residues in contact with MET 95 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34P MET* 3.5 39.9 - - + -
35P ARG 2.9 41.9 + - - +
36P GLY* 5.1 0.4 - - - -
38P ASN* 4.6 20.0 - - + +
39P PHE 4.6 0.2 - - - +
42P LEU* 3.5 41.3 - - + -
93P LYS 3.9 1.2 + - - -
94P THR* 1.3 72.2 - - - +
96P ASP* 1.3 60.1 + - - +
98P LEU* 3.5 8.1 + - - +
99P MET* 3.0 41.5 + - + +
149P PHE* 4.2 11.4 - - + -
37U HIS* 5.6 3.4 - - + -
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Residues in contact with ASP 96 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94P THR* 3.1 8.4 + - - +
95P MET* 1.3 78.0 - - - +
97P GLN* 1.3 57.1 + - - +
100P GLU* 2.8 37.3 + - + +
149P PHE* 3.5 25.1 - - - -
150P LEU* 3.7 21.5 - - + +
37U HIS* 3.1 30.7 + - - -
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Residues in contact with GLN 97 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92P PRO 4.9 1.0 + - - +
93P LYS* 3.6 45.0 + - + +
94P THR* 2.8 52.6 + - - +
96P ASP* 1.3 74.6 - - - +
98P LEU* 1.3 60.2 + - - +
100P GLU* 3.2 8.4 + - - +
101P ASP* 2.9 27.2 + - - +
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Residues in contact with LEU 98 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29P GLN* 5.7 6.5 - - + +
30P ILE* 3.9 39.0 - - + +
33P TYR* 4.6 5.6 - - + +
34P MET* 4.0 33.9 - - + +
89P TYR* 4.6 15.3 - - + -
93P LYS* 4.2 32.3 - - + +
94P THR 3.0 19.0 + - - +
95P MET* 3.8 10.5 - - - +
97P GLN* 1.3 74.8 - - - +
99P MET* 1.3 61.6 + - + +
101P ASP* 3.3 9.4 + - + +
102P LEU* 3.1 23.4 + - - +
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Residues in contact with MET 99 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30P ILE* 3.5 31.6 - - + -
34P MET* 4.2 6.3 - - + -
42P LEU* 4.0 21.5 - - + -
46P MET* 4.4 7.4 - - - -
95P MET* 3.0 30.1 + - + +
98P LEU* 1.3 75.7 - - + +
100P GLU* 1.3 61.5 + - - +
101P ASP 3.2 0.4 - - - -
102P LEU* 3.6 23.3 - - + +
103P VAL* 3.1 32.4 + - - +
146P PHE* 4.0 20.8 - - + +
149P PHE* 4.1 20.4 - - + -
150P LEU* 3.9 22.2 - - + +
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Residues in contact with GLU 100 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96P ASP* 2.8 30.7 + - + +
97P GLN* 3.2 8.5 + - - +
99P MET* 1.3 78.3 - - - +
101P ASP* 1.3 56.2 + - - +
103P VAL* 4.1 9.8 - - - +
104P GLY* 3.1 23.7 + - - -
147P LYS* 5.1 5.5 + - - -
150P LEU* 3.9 24.1 - - + +
152P LYS* 3.3 28.6 + - - +
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Residues in contact with ASP 101 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26P LYS* 2.3 43.5 + - - +
29P GLN* 5.2 2.9 + - - -
30P ILE* 5.4 3.4 - - + +
93P LYS* 5.8 4.9 - - - +
97P GLN 2.9 13.5 + - - +
98P LEU* 3.7 11.9 - - + +
99P MET 3.2 0.4 - - - -
100P GLU* 1.3 73.9 - - - +
102P LEU* 1.3 62.0 + - - +
104P GLY* 4.1 1.5 - - - +
105P THR* 2.9 28.9 + - - -
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Residues in contact with LEU 102 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P PHE* 3.7 31.2 - - + -
26P LYS* 5.6 1.3 - - - -
27P ILE* 4.9 1.1 - - + -
30P ILE* 4.0 18.4 - - + -
46P MET* 3.8 29.6 - - + -
49P LEU* 3.9 13.7 - - + -
98P LEU 3.1 13.3 + - - +
99P MET* 3.6 24.0 - - - +
100P GLU 3.3 0.4 - - - -
101P ASP* 1.3 74.5 - - - +
103P VAL* 1.3 62.9 + - - +
105P THR* 3.2 5.5 + - - -
106P LEU* 3.0 34.4 + - + +
146P PHE* 3.9 17.9 - - + -
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Residues in contact with VAL 103 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99P MET 3.1 14.4 + - - +
100P GLU* 4.1 11.2 - - - +
102P LEU* 1.3 76.5 - - - +
104P GLY* 1.3 66.8 + - - +
106P LEU* 3.1 14.0 + - + +
107P GLU* 2.9 47.4 + - + +
143P ILE* 4.9 7.0 - - + +
146P PHE* 3.7 37.2 - - + -
147P LYS* 4.3 26.9 - - + +
150P LEU* 4.5 4.9 - - + -
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Residues in contact with GLY 104 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100P GLU 3.1 17.0 + - - -
101P ASP* 4.2 2.5 - - - -
103P VAL* 1.3 76.9 - - - +
105P THR* 1.3 55.4 + - - +
107P GLU* 3.2 16.9 + - - +
108P LEU* 3.0 26.9 + - - +
----------------------------------------------------------
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Residues in contact with THR 105 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P PHE* 3.8 27.1 - - + -
26P LYS* 3.7 16.8 - - + +
84P VAL* 3.8 38.6 - - + -
85P GLU 5.7 0.6 + - - +
101P ASP* 2.9 17.9 + - - -
102P LEU 3.2 9.6 + - - -
104P GLY* 1.3 70.9 - - - +
106P LEU* 1.3 65.5 + - - +
108P LEU* 3.2 10.6 + - + +
109P LEU* 3.0 24.8 + - + +
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Residues in contact with LEU 106 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23P PHE* 4.1 9.6 - - + -
49P LEU* 5.2 2.0 - - + -
53P PHE* 3.8 30.3 - - + -
102P LEU* 3.0 36.4 + - + +
103P VAL* 3.1 14.8 + - + +
105P THR* 1.3 75.5 - - - +
107P GLU* 1.3 57.1 + - - +
109P LEU* 3.4 4.6 + - + +
110P ARG* 2.9 28.6 + - - +
139P ILE* 3.5 22.3 - - + +
142P HIS* 4.3 25.4 - - + +
143P ILE* 3.7 17.7 - - + -
146P PHE* 4.5 13.9 - - + -
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Residues in contact with GLU 107 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103P VAL* 2.9 30.0 + - - +
104P GLY* 3.4 14.4 - - - +
106P LEU* 1.3 74.4 - - - +
108P LEU* 1.3 65.1 + - - +
110P ARG* 3.7 23.6 + - - +
111P ASP* 3.0 32.2 + - - +
143P ILE* 4.0 25.2 - - + +
147P LYS* 4.1 21.7 + - - -
154P PRO 4.5 2.6 - - - +
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Residues in contact with LEU 108 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19P ASN* 4.5 1.1 - - - +
83P SER* 3.4 27.6 - - - +
84P VAL* 4.0 23.3 - - + -
85P GLU* 4.9 6.3 - - + +
104P GLY 3.0 14.6 + - - +
105P THR* 3.2 13.7 + - + +
107P GLU* 1.3 76.4 - - - +
109P LEU* 1.3 59.9 + - - +
111P ASP* 3.4 4.9 + - - +
112P GLU* 3.1 55.2 + - + +
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Residues in contact with LEU 109 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16P GLN* 3.8 11.9 - - - +
19P ASN* 3.8 32.8 - - + +
20P LEU* 3.8 19.5 - - + -
23P PHE* 3.6 38.8 - - + -
53P PHE* 4.6 6.7 - - + -
84P VAL* 3.9 13.0 - - + -
105P THR* 3.0 20.3 + - + +
106P LEU* 3.9 5.4 - - - +
108P LEU* 1.3 76.7 - - + +
110P ARG* 1.3 63.3 + - - +
112P GLU* 4.6 2.5 - - - +
113P TYR* 3.0 36.7 + - + +
139P ILE* 4.2 12.6 - - + -
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Residues in contact with ARG 110 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106P LEU 2.9 18.7 + - - +
107P GLU* 3.4 30.7 + - - +
109P LEU* 1.3 75.5 - - - +
111P ASP* 1.3 86.2 + - - +
113P TYR* 3.8 4.0 - - - +
114P LYS* 3.1 26.7 + - + +
136P LYS* 4.1 20.7 - - + +
139P ILE* 3.8 16.5 - - + +
140P ASP* 3.2 27.8 - - - +
143P ILE* 4.0 18.2 - - + +
154P PRO 5.1 0.6 + - - -
155P LEU* 4.0 24.7 - - - +
----------------------------------------------------------
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Residues in contact with ASP 111 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107P GLU* 3.0 20.6 + - - +
108P LEU* 3.8 5.5 - - - +
110P ARG* 1.3 106.7 + - - +
112P GLU* 1.3 63.3 + - + +
114P LYS* 3.4 9.8 - - - +
115P GLN* 3.2 24.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 112 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P PHE* 3.1 9.4 - - + -
15P HIS* 3.4 7.7 + - - -
16P GLN* 2.9 29.6 + - - +
19P ASN* 2.9 13.0 + - - -
83P SER* 2.3 30.0 + - - -
108P LEU* 3.1 32.2 + - + +
109P LEU* 4.3 4.5 - - - +
111P ASP* 1.3 74.1 - - + +
113P TYR* 1.3 60.8 + - - +
115P GLN* 3.0 23.0 - - - +
116P GLY 2.9 22.5 + - - -
----------------------------------------------------------
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Residues in contact with TYR 113 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P PHE* 3.8 8.5 - + - -
16P GLN* 3.6 39.4 - - + +
20P LEU* 3.3 27.6 - - + +
56P GLN* 2.9 19.9 + - - -
60P VAL* 5.0 1.2 - - + +
109P LEU* 3.0 34.4 + - + +
110P ARG* 3.8 5.4 - - - +
112P GLU* 1.3 76.3 - - - +
114P LYS* 1.3 56.4 + - - +
116P GLY* 3.2 1.0 + - - -
117P ILE* 2.8 35.6 + - - +
132P LEU* 4.1 21.9 - - + +
135P PHE* 3.5 41.6 - + + -
136P LYS* 4.4 8.3 - - + -
139P ILE* 3.8 17.3 - - + -
----------------------------------------------------------
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Residues in contact with LYS 114 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110P ARG* 3.1 14.8 + - + +
111P ASP* 3.4 13.5 - - - +
112P GLU 3.2 0.4 - - - -
113P TYR* 1.3 73.4 - - - +
115P GLN* 1.3 64.7 + - - +
117P ILE* 3.1 24.8 + - + +
118P GLU* 3.2 52.9 + - - +
136P LYS* 4.6 20.1 - - + +
124X GLY* 4.4 11.8 + - - +
126X ASP* 3.5 23.3 + - - +
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Residues in contact with GLN 115 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P PHE* 4.6 5.2 - - + -
111P ASP 3.2 8.7 + - - +
112P GLU* 3.0 34.9 + - - +
114P LYS* 1.3 78.2 - - - +
116P GLY* 1.3 60.4 + - - +
118P GLU* 3.2 16.7 + - - +
119P LEU* 3.0 25.5 + - - +
----------------------------------------------------------
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Residues in contact with GLY 116 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P PHE* 3.4 37.1 - - - -
112P GLU 2.9 14.6 + - - -
113P TYR 3.2 1.3 + - - -
115P GLN* 1.3 72.7 - - - +
117P ILE* 1.3 58.6 + - - +
119P LEU* 3.8 5.2 - - - +
120P THR* 2.9 31.5 + - - -
132P LEU* 3.9 6.6 - - - +
----------------------------------------------------------
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Residues in contact with ILE 117 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113P TYR 2.8 21.0 + - - +
114P LYS* 3.1 14.6 + - + +
116P GLY* 1.3 76.1 - - - +
118P GLU* 1.3 56.5 + - - +
120P THR* 4.2 1.6 - - - -
121P ASP* 3.1 16.0 + - + +
129P ASN* 3.0 36.2 + - - +
132P LEU* 3.7 21.5 - - + +
133P ILE* 3.5 34.1 - - + +
136P LYS* 4.2 22.7 - - + -
126X ASP* 3.6 32.8 - - + +
----------------------------------------------------------
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Residues in contact with GLU 118 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114P LYS* 3.2 44.0 + - - +
115P GLN* 3.2 17.9 + - - +
117P ILE* 1.3 73.9 - - - +
119P LEU* 1.3 64.5 + - - +
121P ASP* 3.2 6.5 + - - +
122P LYS* 3.0 28.5 + - - +
----------------------------------------------------------
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Residues in contact with LEU 119 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7P VAL* 3.1 30.1 - - + +
8P ASP 3.7 12.1 - - - +
9P THR* 4.2 4.3 - - - +
12P PHE* 3.6 36.3 - - + -
115P GLN 3.0 16.3 + - - +
116P GLY* 3.8 5.8 - - - +
118P GLU* 1.3 77.0 - - - +
120P THR* 1.3 60.7 + - - +
122P LYS* 3.7 7.0 - - + +
123P GLU* 3.0 43.2 + - + +
----------------------------------------------------------
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Residues in contact with THR 120 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9P THR* 3.5 23.4 + - - +
12P PHE* 5.9 1.2 - - - -
116P GLY 2.9 18.8 + - - +
117P ILE* 4.2 1.1 - - - -
119P LEU* 1.3 77.2 - - - +
121P ASP* 1.3 57.2 - - - +
123P GLU* 3.8 1.1 - - - -
124P GLY 3.3 4.3 + - - -
125P ASP* 3.1 33.0 + - - +
128P THR* 3.6 22.1 - - - +
129P ASN* 3.1 52.0 - - + +
132P LEU* 4.4 2.4 - - + +
----------------------------------------------------------
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Residues in contact with ASP 121 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117P ILE* 3.1 19.4 + - + +
118P GLU* 3.5 7.9 - - - +
120P THR* 1.3 76.0 - - - +
122P LYS* 1.3 64.3 + - - +
123P GLU 3.3 0.2 - - - -
124P GLY* 3.5 10.4 + - - -
129P ASN* 3.8 15.9 + - - +
----------------------------------------------------------
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Residues in contact with LYS 122 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118P GLU 3.0 17.5 + - - +
119P LEU* 3.7 8.5 - - + +
121P ASP* 1.3 77.9 + - - +
123P GLU* 1.3 60.8 + - - +
124P GLY* 3.3 1.6 + - - -
----------------------------------------------------------
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Residues in contact with GLU 123 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8P ASP* 3.6 12.8 - - - +
9P THR* 2.8 50.7 + - - +
119P LEU* 3.0 30.2 + - + +
120P THR 4.0 4.9 - - - +
121P ASP 3.3 0.6 - - - -
122P LYS* 1.3 75.6 - - - +
124P GLY* 1.3 59.6 + - - +
125P ASP* 3.4 4.3 + - + +
----------------------------------------------------------
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Residues in contact with GLY 124 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120P THR 3.3 4.5 + - - -
121P ASP* 3.5 7.1 + - - -
122P LYS 3.2 5.4 - - - -
123P GLU* 1.3 77.9 - - - +
125P ASP* 1.3 59.3 + - - +
126P ASP* 3.2 21.0 + - - +
114R LYS* 4.4 13.5 - - - -
----------------------------------------------------------
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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