Contacts of the helix formed by residues 91 - 124 (chain A) in PDB entry 2B6V
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 91 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A LEU 2.7 10.4 + - - +
90A ASN* 1.4 83.2 - - + +
92A PHE* 1.4 65.7 + - + +
93A VAL 3.6 0.2 - - - -
94A CYS* 3.6 3.1 + - - +
95A ARG* 2.9 61.4 + - - +
162A GLN* 5.7 13.5 - - - +
163A SER* 4.6 0.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A LEU* 3.5 18.2 + - + +
91A VAL* 1.4 85.1 - - + +
93A VAL* 1.3 67.5 + - + +
94A CYS 3.1 0.2 - - - -
95A ARG* 3.0 27.2 + - + +
96A VAL* 3.0 39.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 93 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A LYS* 4.0 34.5 - - + +
81A ASP* 5.1 0.9 - - + +
87A TRP* 3.1 34.2 - - + -
88A GLN* 4.3 16.6 - - + +
89A LEU* 4.0 28.2 + - + +
90A ASN 5.1 0.2 - - - -
91A VAL 4.8 0.6 - - - +
92A PHE* 1.3 82.0 - - + +
94A CYS* 1.4 56.6 + - - +
96A VAL* 3.3 13.1 - - - +
97A SER* 3.0 23.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 94 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A TRP* 3.3 28.6 - - + +
90A ASN 3.6 20.9 - - - +
91A VAL* 3.6 3.3 + - - +
93A VAL* 1.4 77.1 - - - +
95A ARG* 1.4 60.2 + - - +
97A SER 3.1 1.4 + - - -
98A ALA* 2.8 27.0 + - - +
163A SER* 4.2 5.4 - - - +
164A VAL* 3.9 4.0 - - - -
165A ARG* 3.8 12.8 - - - -
172A CYS* 2.0 55.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 95 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A VAL* 2.9 41.9 + - - +
92A PHE* 3.0 28.5 + - + +
94A CYS* 1.4 76.1 - - - +
96A VAL* 1.3 58.9 + - + +
99A VAL* 2.9 42.4 + - + +
156A ASN* 4.5 8.5 + - - +
157A ILE* 3.2 54.3 + - + +
162A GLN* 5.5 6.7 - - + -
163A SER* 3.3 20.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 96 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A THR* 3.3 20.6 - - + +
74A PHE* 3.4 2.8 - - - -
77A LYS* 3.6 35.9 - - + +
92A PHE* 3.0 25.0 + - + +
93A VAL* 3.3 21.8 - - - +
95A ARG* 1.3 75.1 - - + +
97A SER* 1.4 66.4 + - - +
99A VAL* 4.2 2.2 - - + -
100A LEU* 3.1 33.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 97 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A PHE* 3.2 35.9 + - - -
77A LYS* 3.9 2.9 - - - +
78A ILE* 4.2 1.1 + - - -
87A TRP* 3.1 30.1 - - - -
93A VAL 3.0 15.0 + - - -
94A CYS 3.1 8.8 + - - -
96A VAL* 1.4 77.0 - - - +
98A ALA* 1.3 62.8 + - - +
101A PHE* 2.9 30.4 + - - +
171A LYS* 5.3 0.4 - - - -
172A CYS* 4.2 5.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 98 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A CYS 2.8 11.2 + - - +
95A ARG 4.2 0.2 - - - +
97A SER* 1.3 73.9 - - - +
99A VAL* 1.4 59.1 + - + +
101A PHE* 3.3 6.5 - - - +
102A TYR* 2.9 32.3 + - + +
156A ASN* 5.3 2.9 - - - +
163A SER* 3.4 34.1 - - - -
172A CYS 3.1 29.1 + - - +
173A ILE* 4.1 5.2 - - + +
174A GLU* 5.4 1.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 99 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A ARG* 2.9 35.2 + - + +
96A VAL* 4.2 0.9 - - - -
98A ALA* 1.4 78.4 - - + +
100A LEU* 1.4 81.1 + - + +
102A TYR* 2.9 4.4 + - - +
103A VAL* 2.8 38.9 + - + +
153A ALA* 4.0 16.6 - - + +
156A ASN* 4.2 15.3 - - - +
157A ILE* 3.8 35.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 100 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A VAL* 3.5 32.8 - - + +
70A MET* 3.8 0.9 - - - +
73A THR* 3.2 32.5 - - - +
74A PHE* 3.7 15.9 - - + -
96A VAL* 3.1 29.2 + - + +
99A VAL* 1.4 90.1 - - + +
101A PHE* 1.4 65.9 + - - +
103A VAL* 3.9 16.6 - - + -
104A ASN* 2.8 30.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 101 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A MET* 4.5 5.7 - - + +
74A PHE* 3.4 25.3 - + + +
97A SER 2.9 24.0 + - - +
98A ALA* 3.3 4.3 - - - +
100A LEU* 1.4 78.4 - - - +
102A TYR* 1.4 74.1 + + - +
104A ASN* 3.3 6.2 + - - +
105A MET* 3.1 35.4 + - + +
171A LYS* 3.2 25.8 - - - +
173A ILE* 3.5 31.4 - - + -
249A TYR* 3.7 20.6 - + - -
281A LEU* 4.1 8.3 - - - -
284A SER* 3.5 27.1 - - - -
285A ALA* 4.2 8.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 102 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A ALA 2.9 17.8 + - - +
99A VAL* 2.9 3.6 + - - +
101A PHE* 1.4 72.2 - + - +
103A VAL* 1.4 66.7 + - - +
104A ASN 3.0 1.1 - - - -
105A MET* 3.3 21.0 + - + -
106A TYR* 3.0 75.8 + + + -
152A LEU 6.0 0.4 - - - +
153A ALA* 5.1 7.4 - - - -
173A ILE* 3.5 26.7 - - + -
174A GLU* 3.0 36.8 - - - +
246A PHE* 3.8 8.1 - + - -
249A TYR* 3.3 29.0 + + - -
250A HIS* 3.6 22.6 + - - -
253A ARG* 4.7 4.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 103 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ALA* 5.2 4.7 - - + +
69A VAL* 4.8 6.1 - - + -
99A VAL* 2.8 30.6 + - + +
100A LEU* 3.7 31.2 - - + +
102A TYR* 1.4 77.1 - - - +
104A ASN* 1.4 67.4 + - - +
106A TYR* 4.9 0.4 - - - -
107A VAL* 2.8 23.4 + - - +
149A MET* 3.0 42.3 - - + +
150A LEU* 5.4 4.5 - - + -
153A ALA* 3.2 26.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 104 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ALA* 2.7 45.3 - - - +
67A ASP* 2.8 23.7 + - - +
70A MET* 3.1 35.7 + - + +
100A LEU 2.8 22.5 + - - +
101A PHE 3.3 4.2 + - - +
102A TYR 3.0 0.4 - - - -
103A VAL* 1.4 82.8 - - - +
105A MET* 1.3 63.0 + - - +
107A VAL* 3.3 6.8 - - - +
108A SER* 2.9 26.9 + - - -
287A ASN* 3.2 4.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 105 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A PHE* 3.1 30.1 + - + +
102A TYR* 3.3 24.0 + - + -
104A ASN* 1.3 75.9 - - - +
106A TYR* 1.3 61.2 - - - +
108A SER* 3.2 7.8 - - - -
109A ILE* 3.0 32.6 + - - +
242A PHE* 5.5 2.5 - - - -
245A CYS* 4.2 3.1 - - + +
246A PHE* 3.3 46.7 - - + -
249A TYR* 5.0 0.7 - - + -
284A SER* 3.4 49.1 - - - +
287A ASN* 3.7 18.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 106 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A TYR* 3.0 62.8 + + + +
105A MET* 1.3 78.8 - - - +
107A VAL* 1.4 65.4 + - - +
109A ILE* 4.3 4.3 - - + +
110A VAL* 3.1 30.0 + - + +
145A VAL* 4.6 0.2 - - - +
149A MET* 4.0 28.0 - - + -
152A LEU* 3.8 28.3 - - + -
153A ALA 5.0 1.6 - - - -
174A GLU* 4.4 3.2 + - - -
190A ILE* 3.0 28.8 - - + +
194A ILE* 3.2 43.7 + - + -
246A PHE* 4.0 14.4 - + - -
250A HIS* 4.4 4.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 107 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ASN* 4.2 10.8 - - + +
63A ILE* 4.7 4.7 - - - -
66A ALA* 3.6 29.2 - - + -
67A ASP* 4.9 2.7 - - - +
103A VAL 2.8 18.2 + - - +
104A ASN* 3.3 18.4 - - - +
105A MET 3.3 0.2 - - - -
106A TYR* 1.4 76.0 - - - +
108A SER* 1.4 70.2 + - - +
111A PHE* 2.9 48.2 + - + -
145A VAL* 3.7 14.2 - - + +
146A TRP* 5.2 3.8 - - + -
149A MET* 3.5 20.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 108 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ASP* 5.3 1.9 + - - -
104A ASN 2.9 14.2 + - - -
105A MET* 3.2 8.3 - - - -
106A TYR 3.2 0.2 - - - -
107A VAL* 1.4 85.6 - - - +
109A ILE* 1.4 66.9 + - - +
111A PHE* 3.2 28.8 - - - -
112A PHE* 3.2 13.2 + - - -
242A PHE* 3.4 32.8 - - - -
287A ASN* 2.9 16.3 + - - -
291A ASP* 4.3 3.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 109 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A MET* 3.0 19.4 + - - +
106A TYR* 3.4 8.3 + - + +
108A SER* 1.4 83.0 - - - +
110A VAL* 1.4 66.1 + - + +
112A PHE* 3.1 34.4 + - + +
113A GLY 3.3 7.6 + - - -
194A ILE* 5.1 4.9 - - + -
195A PHE* 5.2 2.2 - - - +
198A VAL* 3.7 25.6 - - + +
199A PHE* 4.1 23.3 - - + -
202A LEU* 5.6 1.3 - - + +
242A PHE* 4.3 12.3 - - + +
243A PHE* 6.3 1.1 - - + -
246A PHE* 3.7 42.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 110 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A TYR* 3.1 20.6 + - + +
109A ILE* 1.4 75.2 - - - +
111A PHE* 1.4 58.8 + - - +
113A GLY* 2.8 17.7 + - - -
114A LEU* 3.0 31.5 - - + +
145A VAL* 3.9 16.6 - - + -
148A LEU* 3.6 38.6 - - + -
149A MET 5.0 0.7 - - - +
194A ILE* 3.8 37.2 - - + -
198A VAL* 4.3 11.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 111 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TYR* 3.9 28.7 - - + -
62A ASN* 4.5 7.0 - - + -
63A ILE* 3.1 42.2 - - + -
107A VAL* 2.9 41.8 + - + -
108A SER* 3.2 30.1 - - - -
110A VAL* 1.4 74.3 - - - +
112A PHE* 1.4 81.6 + + - +
114A LEU* 3.7 3.1 - - - +
115A ILE* 3.0 37.8 + - + +
141A LEU 6.2 0.2 - - - -
142A SER* 5.8 2.0 - - - +
145A VAL* 3.5 28.8 - - + +
238A ILE* 5.9 0.2 - - + -
291A ASP* 4.3 4.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 112 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A SER* 3.2 30.2 + - - -
109A ILE* 3.1 20.3 + - + +
110A VAL 3.1 1.4 - - - -
111A PHE* 1.4 90.5 - + - +
113A GLY* 1.3 53.3 + - - +
115A ILE* 3.3 6.1 + - - +
116A SER* 2.7 35.9 + - - -
202A LEU* 3.6 19.3 - - + +
235A ILE* 5.7 0.5 - - - +
238A ILE* 3.5 45.5 - - + -
239A VAL* 4.0 12.7 - - + +
242A PHE* 3.5 51.1 - + + -
243A PHE* 6.5 0.4 - + - -
291A ASP* 4.1 4.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 113 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ILE 3.3 5.1 + - - -
110A VAL 2.8 10.4 + - - -
112A PHE* 1.3 79.5 - - - +
114A LEU* 1.4 58.6 + - - -
116A SER* 2.7 28.6 + - - -
117A PHE* 3.1 15.7 + - - -
198A VAL* 4.5 13.0 - - - -
201A LEU* 6.3 1.6 - - - -
202A LEU* 4.1 6.8 - - - +
205A PHE* 5.1 0.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 114 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TYR* 4.0 9.9 + - + -
110A VAL* 3.0 46.0 + - + +
111A PHE* 3.4 5.3 + - - +
112A PHE 3.3 0.2 - - - -
113A GLY* 1.4 76.8 - - - +
115A ILE* 1.4 60.5 + - - +
117A PHE* 3.3 39.2 - - + -
118A ASP* 3.2 21.7 + - - +
141A LEU* 3.5 46.6 - - + +
144A ILE* 3.7 22.0 - - + -
145A VAL* 3.9 4.5 - - + -
148A LEU* 5.5 1.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 115 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ILE* 5.3 4.5 - - + -
59A TYR* 3.3 42.6 - - + -
111A PHE* 3.0 31.3 + - + +
112A PHE 3.7 3.8 - - - +
114A LEU* 1.4 76.7 - - - +
116A SER* 1.4 58.8 + - - +
117A PHE 3.1 2.0 - - - -
118A ASP* 3.0 11.5 + - + +
119A ARG* 2.9 29.3 + - + +
235A ILE* 3.4 39.9 - - + -
238A ILE* 4.1 22.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 116 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A PHE 2.7 20.0 + - - -
113A GLY* 2.7 23.6 + - - -
115A ILE* 1.4 73.7 - - - +
117A PHE* 1.4 58.7 + - - +
119A ARG* 3.6 8.2 - - - +
120A TYR 3.5 12.5 + - - -
201A LEU* 4.5 0.5 - - - +
202A LEU* 3.5 26.4 + - - -
205A PHE* 3.3 40.3 - - - +
206A TYR* 6.0 1.6 - - - -
235A ILE* 4.5 9.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 117 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A GLY 3.1 18.3 + - - -
114A LEU* 3.3 50.7 - - + -
115A ILE 3.1 0.4 - - - -
116A SER* 1.4 76.5 - - - +
118A ASP* 1.4 65.6 + - - +
119A ARG 3.1 1.3 - - - -
120A TYR* 3.2 7.3 + - + +
121A TYR* 2.9 45.1 + + + +
141A LEU* 4.1 22.9 - - + -
201A LEU* 6.3 2.2 - - + -
205A PHE* 3.9 28.7 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 118 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TYR* 3.4 31.2 + - + +
114A LEU 3.2 11.8 + - - +
115A ILE* 3.0 15.7 + - + +
117A PHE* 1.4 76.5 - - - +
119A ARG* 1.3 65.9 + - - +
121A TYR* 3.3 3.8 + - - +
122A LYS* 3.2 23.8 + - - +
133A GLN* 3.4 27.1 + - - +
141A LEU* 5.5 1.3 - - + +
228A LYS* 2.8 36.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 119 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A ILE* 2.9 16.2 + - + +
116A SER 3.6 8.1 - - - +
118A ASP* 1.3 80.4 + - - +
120A TYR* 1.4 64.8 + - - +
122A LYS* 3.3 23.4 - - - +
123A ILE* 3.4 21.1 + - - +
205A PHE 5.4 0.7 - - - +
209A ILE* 3.6 43.2 - - + +
213A ILE* 5.5 0.2 - - - -
228A LYS* 3.0 33.2 + - - +
231A SER* 4.6 1.0 - - - -
232A SER* 2.7 45.5 + - - +
235A ILE* 4.0 22.2 - - + +
236A PHE* 5.4 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 120 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A SER 3.5 3.7 + - - +
117A PHE* 3.2 10.7 + - + +
119A ARG* 1.4 78.8 - - - +
121A TYR* 1.4 84.1 - + + +
122A LYS 2.8 2.1 + - - -
124A VAL* 3.0 48.4 + - + -
125A LYS 2.9 38.3 + - - -
126A PRO* 3.9 26.9 - - + +
205A PHE* 3.7 41.7 + + + +
208A ALA* 4.2 10.3 - - + -
209A ILE* 5.1 1.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 121 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A PHE* 2.9 43.5 + + + +
118A ASP 3.3 4.7 + - - +
120A TYR* 1.4 83.9 - + - +
122A LYS* 1.3 66.0 + - - +
125A LYS* 3.3 15.2 - - - +
126A PRO* 3.8 29.6 - - + +
127A LEU 4.8 1.9 - - - +
130A SER 5.0 4.6 - - - +
132A ILE* 4.1 25.1 - - + -
133A GLN* 3.3 33.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 122 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ASP 3.2 10.9 + - - +
119A ARG* 3.3 19.5 - - - +
120A TYR 2.8 5.5 + - - -
121A TYR* 1.3 82.0 - - - +
123A ILE* 1.4 62.1 + - + +
124A VAL 2.9 7.1 + - - -
125A LYS* 3.3 12.3 - - - +
130A SER* 2.7 40.7 + - - +
131A PHE* 3.2 42.2 - - + -
133A GLN* 3.5 22.7 - - - +
228A LYS* 4.7 17.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 123 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ARG* 3.4 17.3 + - - +
122A LYS* 1.4 75.3 - - + +
124A VAL* 1.4 56.6 + - - +
125A LYS* 5.3 0.9 - - - -
209A ILE* 3.5 34.3 - - + -
212A LYS* 3.6 42.7 - - + +
213A ILE* 6.2 2.0 - - + -
225A THR* 5.3 6.5 - - - +
229A LYS* 4.2 27.1 - - + +
232A SER* 5.5 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 124 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A TYR* 3.0 38.5 + - + +
123A ILE* 1.4 77.6 - - - +
125A LYS* 1.3 83.0 + - - +
208A ALA* 3.8 18.2 - - + +
209A ILE* 3.4 46.4 - - + +
211A LYS* 4.7 13.5 - - - +
212A LYS* 5.4 4.0 - - + +
----------------------------------------------------------
Back to top of page
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