Contacts of the helix formed by residues 94 - 124 (chain J) 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 J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35J ARG 5.4 0.4 - - - -
93J LYS* 1.3 77.1 - - - +
95J MET* 1.3 68.2 + - + +
96J ASP* 3.6 23.4 - - + +
97J GLN* 2.9 32.9 + - - +
98J LEU* 3.2 21.9 + - - +
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Residues in contact with MET 95 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37F HIS* 6.0 2.5 - - + -
34J MET* 3.6 44.2 - - + -
35J ARG 3.8 24.7 + - - +
36J GLY* 5.0 1.6 - - - -
38J ASN* 3.7 40.8 - - + +
39J PHE* 3.9 3.6 - - - +
42J LEU* 3.4 28.3 - - + -
94J THR* 1.3 72.8 - - + +
96J ASP* 1.3 63.0 + - - +
98J LEU* 3.1 10.1 + - - +
99J MET* 2.9 36.1 + - + +
149J PHE* 4.4 10.1 - - + -
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Residues in contact with ASP 96 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37F HIS* 3.2 33.8 + - - -
94J THR* 3.6 15.5 - - + +
95J MET* 1.3 80.3 - - - +
97J GLN* 1.3 56.8 + - + +
99J MET* 3.2 4.4 + - - +
100J GLU* 2.8 42.1 + - - +
149J PHE* 4.3 4.9 - - - -
150J LEU* 3.9 24.3 - - + +
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Residues in contact with GLN 97 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92J PRO 4.4 2.4 - - - +
93J LYS* 3.3 38.3 - - + +
94J THR* 2.9 43.9 + - - +
95J MET 3.3 0.6 - - - -
96J ASP* 1.3 76.7 - - + +
98J LEU* 1.3 65.6 + - - +
100J GLU* 3.4 18.4 + - - +
101J ASP* 3.2 20.6 + - - +
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Residues in contact with LEU 98 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29J GLN* 5.4 6.3 - - + +
30J ILE* 4.0 37.2 - - + +
33J TYR* 4.7 4.3 - - + +
34J MET* 4.0 34.1 - - + +
89J TYR* 4.2 16.8 - - + -
93J LYS* 4.1 27.4 - - + +
94J THR 3.2 20.1 + - - +
95J MET* 3.1 9.7 + - - +
97J GLN* 1.3 76.9 - - - +
99J MET* 1.3 62.1 + - + +
101J ASP* 3.3 9.3 + - + +
102J LEU* 3.0 26.3 + - - +
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Residues in contact with MET 99 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30J ILE* 3.6 31.2 - - + -
34J MET* 4.5 2.7 - - + -
42J LEU* 4.0 30.7 - - + -
46J MET* 4.3 11.2 - - + -
95J MET* 2.9 16.6 + - - +
96J ASP 3.5 8.1 - - - +
98J LEU* 1.3 79.9 - - + +
100J GLU* 1.3 56.7 + - - +
102J LEU* 3.3 10.1 + - + +
103J VAL* 2.9 37.2 + - + +
146J PHE* 3.9 32.5 - - + -
149J PHE* 4.0 13.9 - - + -
150J LEU* 3.9 18.6 - - + -
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Residues in contact with GLU 100 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96J ASP* 2.8 28.5 + - - +
97J GLN* 3.7 20.2 - - - +
98J LEU 3.2 0.2 - - - -
99J MET* 1.3 73.9 - - - +
101J ASP* 1.3 59.5 + - - +
103J VAL* 4.0 5.5 - - - +
104J GLY* 3.0 25.6 + - - -
150J LEU* 4.2 18.3 - - + +
152J LYS* 4.1 19.5 + - - +
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Residues in contact with ASP 101 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26J LYS* 2.5 44.7 + - - +
29J GLN* 5.1 4.0 + - - -
30J ILE* 5.1 3.7 - - + +
97J GLN 3.2 13.3 + - - +
98J LEU* 3.5 12.3 - - + +
100J GLU* 1.3 73.9 - - - +
102J LEU* 1.3 65.8 + - - +
104J GLY* 3.2 2.2 + - - -
105J THR* 3.0 28.6 + - - -
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Residues in contact with LEU 102 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J PHE* 3.5 34.3 - - + -
26J LYS* 5.4 1.3 - - - -
27J ILE* 4.8 2.9 - - + -
30J ILE* 3.9 21.1 - - + +
46J MET* 4.1 12.8 - - + -
49J LEU* 4.1 9.9 - - + -
98J LEU 3.0 13.6 + - - +
99J MET* 3.3 14.3 + - - +
101J ASP* 1.3 75.5 + - - +
103J VAL* 1.3 57.8 + - - +
105J THR* 3.4 4.3 + - - -
106J LEU* 3.0 29.9 + - + +
146J PHE* 4.0 46.4 - - + -
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Residues in contact with VAL 103 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99J MET* 2.9 20.7 + - + +
100J GLU* 4.0 6.1 - - - +
102J LEU* 1.3 76.3 - - + +
104J GLY* 1.3 57.3 + - - +
106J LEU* 3.5 9.5 + - + +
107J GLU* 3.0 32.8 + - - +
142J HIS 5.6 0.2 - - - +
143J ILE* 4.8 8.9 - - + +
146J PHE* 3.5 35.2 - - + -
147J LYS* 3.7 41.1 - - + +
150J LEU* 4.2 13.0 - - + -
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Residues in contact with GLY 104 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100J GLU 3.0 15.9 + - - -
101J ASP* 3.2 3.8 + - - -
103J VAL* 1.3 75.8 - - - +
105J THR* 1.3 58.3 + - - +
107J GLU* 3.5 16.1 - - - +
108J LEU* 3.1 25.3 + - - +
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Residues in contact with THR 105 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J PHE* 3.6 34.1 - - + -
26J LYS* 3.8 19.5 + - + -
84J VAL* 3.7 29.8 - - + +
85J GLU 5.0 0.9 + - - -
101J ASP* 3.0 20.5 + - - -
102J LEU 3.8 3.8 - - - -
104J GLY* 1.3 72.0 - - - +
106J LEU* 1.3 65.3 + - - +
108J LEU* 3.1 9.3 + - + +
109J LEU* 3.0 26.2 + - + +
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Residues in contact with LEU 106 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J PHE* 3.9 17.3 - - + -
49J LEU* 4.9 1.8 - - + -
53J PHE* 3.7 32.5 - - + -
102J LEU* 3.0 29.6 + - + +
103J VAL* 3.6 10.1 - - + +
104J GLY 3.5 0.2 - - - -
105J THR* 1.3 76.8 - - - +
107J GLU* 1.3 56.0 + - - +
109J LEU* 3.3 6.0 + - + +
110J ARG* 2.9 29.6 + - - +
139J ILE* 3.6 18.2 - - + +
142J HIS* 3.8 32.3 - - + +
143J ILE* 4.1 15.5 - - + -
146J PHE* 4.3 14.8 - - + -
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Residues in contact with GLU 107 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103J VAL* 3.0 24.7 + - + +
104J GLY* 3.5 16.0 + - - +
106J LEU* 1.3 74.9 - - - +
108J LEU* 1.3 60.7 + - - +
110J ARG* 3.5 28.7 + - - +
111J ASP* 3.2 31.0 + - - +
143J ILE* 4.1 14.5 - - + +
147J LYS* 2.9 34.7 + - - -
154J PRO 4.8 1.7 - - - +
155J LEU* 6.0 0.2 - - - -
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Residues in contact with LEU 108 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83J SER* 3.6 30.1 - - - +
84J VAL* 4.1 22.9 - - + -
85J GLU* 5.4 6.3 - - - +
104J GLY 3.1 15.5 + - - +
105J THR* 3.1 12.5 + - + +
107J GLU* 1.3 75.8 - - - +
109J LEU* 1.4 65.4 + - + +
111J ASP* 3.5 5.2 + - - +
112J GLU* 3.1 48.9 + - + +
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Residues in contact with LEU 109 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16J GLN* 3.6 24.5 - - - +
19J ASN* 4.0 20.9 - - + +
20J LEU* 4.1 17.9 - - + -
23J PHE* 3.7 39.0 - - + -
53J PHE* 4.7 6.7 - - + -
84J VAL* 4.4 5.2 - - + -
105J THR* 3.0 20.4 + - + +
106J LEU* 3.7 8.3 - - + +
108J LEU* 1.4 75.9 - - + +
110J ARG* 1.3 66.7 + - - +
112J GLU* 4.6 1.8 - - - -
113J TYR* 2.9 36.0 + - + -
139J ILE* 4.3 11.7 - - + -
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Residues in contact with ARG 110 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106J LEU 2.9 13.4 + - - +
107J GLU* 3.5 28.3 + - - +
109J LEU* 1.3 75.3 - - - +
111J ASP* 1.3 85.0 + - - +
113J TYR* 3.1 8.1 + - - +
114J LYS* 2.9 27.0 + - + +
136J LYS* 4.1 21.1 - - + +
139J ILE* 3.8 15.1 - - + +
140J ASP* 3.2 27.7 + - - +
143J ILE* 3.6 24.2 - - + +
154J PRO 5.1 0.2 + - - -
155J LEU* 3.6 27.9 - - - +
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Residues in contact with ASP 111 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107J GLU* 3.2 18.9 + - - +
108J LEU* 4.0 5.7 - - - +
110J ARG* 1.3 104.7 + - - +
112J GLU* 1.3 64.3 + - + +
114J LYS* 3.4 8.0 + - - +
115J GLN* 3.2 30.3 + - - +
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Residues in contact with GLU 112 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12J PHE* 3.1 16.0 - - + -
15J HIS* 3.4 9.8 - - - -
16J GLN* 2.9 18.7 + - - +
19J ASN* 2.8 25.0 + - - -
83J SER* 2.2 31.4 + - - -
108J LEU* 3.1 29.7 + - + +
109J LEU* 4.1 4.3 - - - +
111J ASP* 1.3 75.7 - - + +
113J TYR* 1.3 58.3 + - - +
115J GLN* 3.5 20.8 - - - +
116J GLY 2.9 22.0 + - - -
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Residues in contact with TYR 113 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12J PHE* 4.2 8.5 - + - -
16J GLN* 3.6 34.6 - - + +
20J LEU* 3.5 25.3 - - - +
56J GLN* 3.1 16.0 + - - -
60J VAL* 4.8 1.7 - - + +
109J LEU* 2.9 31.5 + - + +
110J ARG* 3.4 6.5 - - - +
112J GLU* 1.3 77.3 - - - +
114J LYS* 1.3 53.3 + - - +
116J GLY* 3.0 2.3 + - - -
117J ILE* 2.7 42.1 + - + +
132J LEU* 4.2 19.8 - - + +
135J PHE* 3.6 33.1 - + + -
136J LYS* 4.4 12.3 - - + -
139J ILE* 3.5 29.4 - - + -
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Residues in contact with LYS 114 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124H GLY* 3.6 18.2 + - - -
126H ASP* 3.1 27.5 + - - +
110J ARG* 2.9 15.7 + - + +
111J ASP* 3.8 10.1 - - - +
112J GLU 3.4 0.2 - - - -
113J TYR* 1.3 73.2 - - - +
115J GLN* 1.3 64.2 + - + +
117J ILE* 3.1 14.2 + - + +
118J GLU* 3.1 36.1 + - - +
136J LYS* 4.7 15.0 - - + +
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Residues in contact with GLN 115 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12J PHE* 4.8 3.8 - - + -
111J ASP* 3.2 12.3 + - - +
112J GLU* 3.5 33.5 - - - +
114J LYS* 1.3 77.5 - - + +
116J GLY* 1.3 61.3 + - - +
118J GLU* 3.4 7.6 + - - +
119J LEU* 3.1 22.8 + - - +
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Residues in contact with GLY 116 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12J PHE* 3.4 34.6 - - - -
112J GLU 2.9 11.1 + - - -
113J TYR 3.0 3.8 + - - -
115J GLN* 1.3 74.5 - - - +
117J ILE* 1.3 61.3 + - - +
119J LEU* 3.5 7.4 + - - +
120J THR* 3.1 26.7 + - - +
132J LEU* 3.9 7.5 - - - +
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Residues in contact with ILE 117 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126H ASP* 4.0 26.0 - - + +
127H VAL* 6.1 0.2 - - + -
113J TYR 2.7 27.7 + - - +
114J LYS* 3.1 11.9 + - + +
116J GLY* 1.3 73.3 - - - +
118J GLU* 1.3 59.2 + - - +
120J THR* 3.1 6.6 - - - +
121J ASP* 3.0 16.0 + - + +
129J ASN* 3.0 35.6 + - - +
132J LEU* 3.6 33.7 - - + +
133J ILE* 3.8 31.4 - - + -
136J LYS* 4.4 17.0 - - + -
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Residues in contact with GLU 118 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114J LYS* 3.1 26.0 + - - +
115J GLN* 3.7 10.8 - - - +
117J ILE* 1.3 78.8 - - - +
119J LEU* 1.3 62.1 + - - +
121J ASP* 3.2 11.9 - - - +
122J LYS* 3.1 56.1 + - - +
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Residues in contact with LEU 119 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7J VAL* 4.0 29.2 - - + +
8J ASP* 3.7 26.2 - - - +
9J THR* 4.3 4.3 - - + +
12J PHE* 3.8 25.8 - - + -
115J GLN 3.1 14.2 + - - +
116J GLY* 3.7 6.1 - - - +
117J ILE 3.4 0.2 - - - -
118J GLU* 1.3 80.4 - - - +
120J THR* 1.3 62.1 + - - +
122J LYS* 3.4 7.9 + - + +
123J GLU* 3.1 56.5 + - + +
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Residues in contact with THR 120 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9J THR* 4.0 15.9 - - - +
116J GLY 3.1 18.6 - - - +
117J ILE* 3.1 17.5 - - - +
119J LEU* 1.3 78.4 - - - +
121J ASP* 1.3 61.9 + - - +
123J GLU* 4.4 1.1 - - - +
124J GLY* 3.1 3.3 + - - -
125J ASP* 3.0 50.5 + - - +
128J THR* 3.6 16.1 - - - +
129J ASN* 3.3 33.9 + - - +
132J LEU* 4.3 4.0 - - + -
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Residues in contact with ASP 121 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117J ILE* 3.0 15.7 + - + +
118J GLU* 3.2 16.5 - - - +
120J THR* 1.3 74.3 - - - +
122J LYS* 1.3 70.9 + - - +
124J GLY* 3.2 13.9 + - - -
129J ASN* 3.5 14.1 + - - +
----------------------------------------------------------
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Residues in contact with LYS 122 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118J GLU* 3.1 53.2 + - + +
119J LEU* 3.8 7.4 - - + +
120J THR 3.4 0.2 - - - -
121J ASP* 1.3 88.7 - - - +
123J GLU* 1.3 62.6 + - + +
124J GLY 3.5 0.3 + - - -
----------------------------------------------------------
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Residues in contact with GLU 123 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7J VAL 4.0 4.2 - - - +
8J ASP* 3.6 29.6 - - - +
9J THR* 3.9 17.7 - - - +
119J LEU* 3.1 31.0 + - + +
120J THR 4.3 2.9 - - - +
121J ASP 3.3 0.6 - - - -
122J LYS* 1.3 78.4 - - + +
124J GLY* 1.3 61.4 + - - +
125J ASP* 3.3 4.1 + - + +
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Residues in contact with GLY 124 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C LYS* 4.3 12.0 + - - +
120J THR 3.1 4.0 + - - -
121J ASP* 3.2 13.1 + - - -
122J LYS 3.2 1.2 + - - -
123J GLU* 1.3 78.2 - - - +
125J ASP* 1.3 59.0 + - - +
126J ASP* 3.2 23.0 + - - +
----------------------------------------------------------
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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