Contacts of the helix formed by residues 92 - 125 (chain A) in PDB entry 2B6U
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 ALA 92 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A LEU 2.9 1.2 + - - -
91A ARG* 1.4 79.4 - - + +
93A PHE* 1.4 71.0 + - + +
94A VAL 3.4 0.2 - - - -
95A CYS* 3.3 6.2 + - - +
96A ARG* 2.9 45.7 + - - +
164A GLU* 4.8 2.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 93 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A LEU* 3.3 13.3 + - + +
92A ALA* 1.4 83.5 - - + +
94A VAL* 1.3 59.8 + - - +
96A ARG* 2.9 25.9 + - - +
97A PHE* 2.9 51.6 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 94 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A LYS* 3.9 31.6 - - + +
81A SER* 5.4 3.1 - - - -
82A ASP* 4.9 1.3 - - + -
88A TRP* 3.3 41.3 - - + -
89A GLN* 4.5 6.5 - - + +
90A LEU* 3.2 50.1 + - + +
91A ARG 3.3 10.5 - - - +
93A PHE* 1.3 78.7 - - - +
95A CYS* 1.4 69.1 + - - +
97A PHE* 3.7 1.2 + - - -
98A SER* 2.9 27.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 95 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A TRP* 4.2 7.2 - - + +
91A ARG 3.4 18.4 - - - +
92A ALA* 3.3 7.2 + - - +
93A PHE 3.1 0.4 - - - -
94A VAL* 1.4 81.2 - - - +
96A ARG* 1.4 57.5 + - - +
98A SER* 2.8 17.4 + - - -
99A SER* 2.9 21.3 + - - -
164A GLU* 3.7 27.8 - - + -
165A ALA* 3.8 4.7 - - - -
166A THR* 4.0 1.8 - - - -
173A CYS* 2.0 48.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 96 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ALA* 2.9 33.2 + - - +
93A PHE* 2.9 29.8 + - - +
95A CYS* 1.4 72.9 - - - +
97A PHE* 1.4 59.1 + - + +
98A SER 3.1 1.3 - - - -
100A VAL* 2.8 46.6 + - + +
157A ASN 4.6 0.2 + - - -
158A MET* 3.9 40.0 + - + +
164A GLU* 2.8 49.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 97 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A MET* 3.6 42.8 - - + +
75A LEU* 3.5 10.5 - - - +
78A LYS* 4.0 30.5 - - + -
93A PHE* 2.9 47.5 + + + +
94A VAL* 4.1 0.9 - - - +
96A ARG* 1.4 72.8 - - + +
98A SER* 1.3 65.8 + - - +
100A VAL* 4.0 6.7 - - + -
101A ILE* 3.2 21.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 98 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A LEU* 3.1 38.0 + - - +
78A LYS* 4.8 0.4 - - - -
79A ILE* 4.4 1.6 - - - -
88A TRP* 2.9 36.4 - - - -
94A VAL 2.9 11.5 + - - -
95A CYS 2.8 19.9 + - - -
97A PHE* 1.3 81.8 - - - +
99A SER* 1.3 62.0 + - - +
102A PHE* 3.0 23.3 + - - +
173A CYS* 3.6 4.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 99 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A CYS 2.9 20.8 + - - -
96A ARG 3.8 0.9 - - - -
98A SER* 1.3 76.6 + - - +
100A VAL* 1.4 64.7 + - - +
102A PHE* 3.1 17.5 - - - +
103A TYR* 3.0 43.6 + - - -
164A GLU* 3.3 20.6 - - - +
173A CYS* 3.5 17.7 - - - +
174A ALA* 3.3 15.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 100 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ARG* 2.8 37.6 + - + +
97A PHE* 3.9 6.3 - - + +
99A SER* 1.4 74.1 - - - +
101A ILE* 1.4 82.3 + - + +
103A TYR* 3.2 11.0 + - + -
104A GLU* 2.8 31.8 + - - +
154A SER* 3.8 34.3 - - - +
155A LEU* 4.9 2.7 - - + +
158A MET* 5.7 6.1 - - + -
164A GLU* 4.5 9.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 101 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ALA 4.4 1.6 - - - +
70A ILE* 3.4 45.1 - - + +
71A MET* 3.5 6.2 - - - +
74A MET* 3.5 26.2 - - + -
75A LEU* 3.9 7.2 - - + -
97A PHE* 3.2 13.0 + - + +
100A VAL* 1.4 94.3 - - + +
102A PHE* 1.4 59.4 + - - +
103A TYR 3.3 0.4 - - - -
104A GLU* 3.2 35.2 - - + +
105A THR* 2.9 24.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 102 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A MET* 4.9 1.1 - - - -
75A LEU* 3.7 21.7 - - + +
79A ILE* 4.0 18.4 - - + -
98A SER 3.0 17.0 + - - +
99A SER 3.1 13.0 - - - +
101A ILE* 1.4 79.2 - - - +
103A TYR* 1.4 62.0 + + + +
105A THR* 3.1 17.0 - - - +
106A MET* 3.5 18.2 + - + +
172A LYS* 4.0 16.8 - - + -
173A CYS 4.1 15.5 - - - -
282A LEU* 3.1 50.0 - - + -
283A PHE* 5.9 0.2 - + - -
285A ALA* 4.4 3.8 - - + -
286A ALA* 3.4 32.8 - - + -
288A ASN* 3.9 2.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 103 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A SER* 3.0 46.7 + - - -
100A VAL* 3.2 15.1 + - - -
102A PHE* 1.4 80.4 - + + +
104A GLU* 1.4 62.1 + - - +
105A THR 3.2 0.7 - - - -
106A MET* 3.6 24.2 - - + -
107A TYR* 3.1 32.5 + - + +
153A ILE* 3.7 22.7 - - + +
154A SER* 3.9 24.0 + - - -
157A ASN* 4.0 25.0 + - - +
163A LYS 5.1 0.3 - - - -
164A GLU* 4.2 6.8 + - - +
173A CYS 5.2 0.4 - - - -
174A ALA* 4.2 16.4 - - + -
175A SER* 4.3 12.0 + - - -
250A PHE* 6.1 3.6 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 104 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ALA* 5.6 3.4 - - + +
70A ILE* 3.9 17.2 - - + +
100A VAL* 2.8 20.0 + - - +
101A ILE* 3.2 33.7 - - + +
103A TYR* 1.4 75.9 - - - +
105A THR* 1.3 61.0 + - - +
108A VAL 2.9 10.0 + - - -
150A LEU* 2.8 48.6 - - + +
151A PHE* 4.0 21.1 - - - -
154A SER* 3.2 22.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 105 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A THR* 4.7 0.2 + - - -
67A ALA* 3.2 22.2 + - - -
68A ASP* 2.9 27.0 + - - +
71A MET* 3.1 29.3 - - + +
101A ILE 2.9 25.7 + - - +
102A PHE 3.1 16.4 - - - +
104A GLU* 1.3 78.1 - - - +
106A MET* 1.4 64.5 + - - +
107A TYR 3.2 1.6 - - - -
108A VAL* 3.2 12.7 + - - +
109A GLY* 3.1 18.0 + - - -
288A ASN* 4.0 5.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 106 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A PHE* 3.5 29.3 + - + +
103A TYR* 3.6 16.6 - - + +
104A GLU 3.5 0.4 - - - -
105A THR* 1.4 82.2 - - - +
107A TYR* 1.4 76.5 + - + +
109A GLY* 3.4 3.1 + - - -
110A ILE* 3.0 38.4 + - + +
247A PHE* 3.6 32.1 - - + -
250A PHE* 3.3 46.2 - - + -
282A LEU* 4.7 2.5 - - + -
285A ALA* 4.6 6.1 - - + -
288A ASN* 3.8 12.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 107 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A TYR* 3.1 23.1 + - + +
104A GLU 3.7 2.7 - - - -
106A MET* 1.4 98.9 - - + +
108A VAL* 1.4 63.4 + - - +
110A ILE* 3.2 40.2 - - + +
111A VAL* 3.2 23.1 - - + +
146A ILE 4.2 0.2 - - - +
150A LEU* 3.9 13.3 - - - +
153A ILE* 3.7 35.9 - - + -
195A ILE* 2.7 54.8 + - + -
196A PHE* 3.9 13.9 - - - +
250A PHE* 5.3 3.5 - + - -
251A HIS* 4.2 10.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 108 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ASN* 3.1 25.8 - - - +
64A THR* 3.2 29.6 - - - +
67A ALA* 3.4 21.1 - - + -
68A ASP* 4.7 0.2 - - - +
104A GLU 2.9 11.4 + - - +
105A THR 3.2 9.2 + - - +
107A TYR* 1.4 78.0 - - - +
109A GLY* 1.4 57.0 + - - +
112A LEU* 2.8 38.2 + - + +
146A ILE* 3.5 18.8 - - + +
147A TRP* 3.9 5.4 - - + -
150A LEU* 3.3 26.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 109 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A THR* 4.4 2.5 - - - -
105A THR 3.1 7.7 + - - -
106A MET 3.4 5.4 + - - -
107A TYR 3.3 0.2 - - - -
108A VAL* 1.4 82.3 - - - +
110A ILE* 1.3 55.8 - - - +
112A LEU* 2.8 31.5 + - - +
113A LEU 2.9 12.1 + - - -
243A PHE* 3.3 26.2 - - - -
247A PHE* 5.7 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 110 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 3.0 21.9 + - + +
107A TYR* 3.2 47.1 - - + +
108A VAL 3.6 0.2 - - - -
109A GLY* 1.3 72.9 - - - +
111A VAL* 1.4 60.7 + - - +
113A LEU* 3.4 8.0 - - + +
114A GLY 3.3 9.9 + - - -
196A PHE* 5.3 13.2 - - + +
199A VAL* 3.1 39.8 - - + +
200A PHE 5.6 0.7 - - - +
243A PHE* 4.1 12.8 - - + -
247A PHE* 3.7 33.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 111 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A TYR* 3.2 22.8 + - + +
108A VAL 3.6 0.8 + - - -
109A GLY 3.2 0.8 - - - -
110A ILE* 1.4 73.1 - - - +
112A LEU* 1.4 66.0 + - - +
113A LEU 3.1 1.6 - - - -
114A GLY* 3.0 4.7 + - - +
115A LEU 3.0 16.3 + - - -
145A PHE* 4.1 10.5 - - + -
146A ILE* 3.5 29.6 - - + +
149A PHE* 3.7 30.5 - - + -
150A LEU 4.7 0.4 - - - +
195A ILE* 3.6 35.2 - - + -
199A VAL* 4.3 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 112 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A TYR* 3.2 38.6 - - + +
64A THR* 3.5 41.1 - - + +
108A VAL* 2.8 15.8 + - + +
109A GLY* 2.8 19.9 + - - +
111A VAL* 1.4 74.7 - - - +
113A LEU* 1.3 57.1 + - + +
115A LEU* 2.8 31.2 + - + +
116A ILE* 3.0 29.5 + - + +
146A ILE* 3.4 24.3 - - + +
239A VAL* 5.3 1.6 - - + -
243A PHE* 4.7 9.4 - - + -
292A ASP* 6.1 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 113 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A GLY 2.9 9.8 + - - +
110A ILE* 3.4 13.9 - - + +
112A LEU* 1.3 82.6 - - + +
114A GLY* 1.3 56.7 + - - +
116A ILE* 3.3 10.5 + - + -
117A ALA* 2.8 31.0 + - + +
199A VAL* 6.2 0.7 - - + -
203A MET* 3.8 19.5 - - + -
236A VAL* 3.8 17.3 - - + +
239A VAL* 4.1 12.8 - - + -
240A VAL* 3.7 41.7 - - + -
243A PHE* 3.6 28.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 114 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ILE 3.3 7.1 + - - -
111A VAL* 3.0 10.5 + - - -
113A LEU* 1.3 79.3 - - - +
115A LEU* 1.4 60.0 + - - +
117A ALA* 3.3 7.8 + - - +
118A PHE* 3.2 25.6 + - - +
145A PHE* 6.3 2.0 - - - -
199A VAL* 4.5 14.3 - - - +
202A LEU* 6.0 4.5 - - - -
203A MET* 5.4 2.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 115 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A THR* 5.3 9.2 - - - +
60A TYR* 3.5 33.0 - - + -
111A VAL 3.0 8.5 + - - +
112A LEU* 2.8 32.5 + - + +
114A GLY* 1.4 71.4 - - - +
116A ILE* 1.4 64.9 + - + +
118A PHE* 3.4 3.5 + - - +
119A ASP* 3.0 23.1 + - + +
134A LYS* 3.5 16.8 + - - +
139A ALA* 5.6 1.8 - - - +
142A VAL* 3.3 51.4 - - + +
143A SER* 4.8 4.5 - - - +
145A PHE* 6.1 1.0 - - - -
146A ILE* 4.2 12.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 116 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A PHE* 3.7 20.2 - - + -
60A TYR* 3.4 52.0 - - + +
112A LEU* 3.2 31.2 - - + +
113A LEU* 3.3 14.3 + - + +
115A LEU* 1.4 77.2 - - + +
117A ALA* 1.3 59.9 - - - +
119A ASP* 4.0 4.9 - - + -
120A ARG* 2.9 36.2 + - - +
236A VAL* 3.6 33.4 - - + -
239A VAL* 4.8 5.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 117 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A LEU* 2.8 18.7 + - + +
114A GLY* 3.4 10.5 - - - +
115A LEU 3.2 0.2 - - - -
116A ILE* 1.3 77.1 - - - +
118A PHE* 1.4 58.6 + - + +
120A ARG* 3.4 7.6 - - - +
121A PHE 3.2 11.6 + - - -
202A LEU* 4.8 2.2 - - + +
203A MET* 4.2 27.8 - - + +
206A PHE* 3.1 37.2 - - + -
236A VAL* 4.8 3.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 118 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A GLY 3.2 11.1 + - - +
115A LEU* 3.9 7.2 - - - +
117A ALA* 1.4 79.6 - - + +
119A ASP* 1.4 64.9 + - - +
121A PHE* 3.4 34.0 + + + -
122A LEU* 3.4 21.8 + - + +
134A LYS* 4.6 10.7 - - - +
202A LEU* 5.2 20.6 - - + -
206A PHE* 5.5 3.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 119 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A SER 4.6 0.3 - - - +
56A THR* 3.5 20.3 + - - -
57A PHE* 3.1 36.4 - - + -
115A LEU* 3.0 16.0 + - + +
116A ILE* 3.2 15.2 + - + +
118A PHE* 1.4 73.6 - - - +
120A ARG* 1.4 72.6 + - - +
121A PHE 3.0 1.0 + - - -
122A LEU* 3.2 20.5 + - - +
123A LYS* 4.0 10.1 + - - +
134A LYS* 3.6 30.8 - - + +
229A ASN* 4.4 3.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 120 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A PHE* 3.1 37.4 - - - -
116A ILE* 2.9 26.6 + - - +
117A ALA* 3.4 5.8 - - - +
119A ASP* 1.4 80.2 + - - +
121A PHE* 1.3 60.8 + - - +
124A ILE* 2.7 50.4 - - + +
206A PHE* 3.2 24.7 - - + -
210A ILE* 4.7 3.6 - - + +
229A ASN* 3.0 26.9 + - - +
232A LEU* 4.2 5.3 - - - +
233A GLU* 2.9 44.0 - - - +
236A VAL* 3.8 32.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 121 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A ALA 3.2 6.3 + - - +
118A PHE* 3.5 42.4 - + + +
119A ASP 3.0 1.0 - - - -
120A ARG* 1.3 82.0 - - - +
122A LEU* 1.4 59.8 + - + +
123A LYS 2.9 9.0 + - - -
124A ILE 3.8 0.7 + - - -
125A ILE* 3.7 26.8 - - + +
127A PRO* 3.7 6.2 - - + +
206A PHE* 3.4 34.2 - + + -
209A VAL* 3.7 28.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 122 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A PHE* 3.4 11.5 + - + +
119A ASP* 3.2 9.5 + - - +
121A PHE* 1.4 75.4 - - + +
123A LYS* 1.4 63.7 + - - +
127A PRO* 3.7 23.6 - - + -
128A LEU* 4.0 24.0 - - + +
131A ILE* 5.0 9.4 - - + -
132A PHE 5.0 7.0 - - - +
133A LEU* 4.2 32.8 - - + +
134A LYS* 5.3 5.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 123 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A SER* 5.8 4.0 - - - -
57A PHE* 5.5 5.2 - - - -
119A ASP* 4.0 14.1 + - - +
121A PHE 2.9 5.7 + - - -
122A LEU* 1.4 78.0 + - - +
124A ILE* 1.3 72.0 + - + +
126A ARG* 4.3 1.2 + - - -
127A PRO* 3.2 20.8 - - - +
133A LEU* 4.1 28.0 - - + +
134A LYS* 5.8 4.3 + - - +
229A ASN* 3.7 26.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 124 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ARG* 2.7 59.0 - - - +
123A LYS* 1.3 85.9 - - + +
125A ILE* 1.3 75.9 - - + +
126A ARG* 3.0 18.7 + - - +
206A PHE* 4.4 1.1 - - + -
210A ILE* 3.4 32.3 - - + -
213A LYS* 3.3 24.9 + - + +
229A ASN* 3.3 18.8 - - + +
233A GLU* 3.2 22.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 125 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A PHE* 3.7 36.6 - - + +
124A ILE* 1.3 83.0 - - + +
126A ARG* 1.4 75.9 + - - +
127A PRO* 3.5 9.1 - - + +
206A PHE* 5.2 1.6 - - + -
209A VAL* 2.9 43.1 - - + +
210A ILE* 4.2 7.4 - - - -
212A LYS* 4.1 26.9 - - + +
213A LYS* 4.2 9.9 - - + +
----------------------------------------------------------
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