Contacts of the helix formed by residues 110 - 140 (chain B) in PDB entry 1QAP
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 110 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B LEU* 4.9 9.6 - - + -
50B PRO 6.1 0.7 - - - +
53B THR* 3.1 27.0 + - + +
55B ALA* 4.3 17.0 - - + -
108B GLY 3.5 3.0 + - - -
109B PRO* 1.3 70.0 - - - +
111B ARG* 1.3 66.2 + - - +
112B VAL 3.1 0.9 + - - -
113B LEU* 4.4 7.4 - - - -
114B LEU* 3.0 42.2 + - + +
295B PHE* 5.8 0.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 111 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B ALA 5.7 0.2 - - - +
46B ALA* 3.4 39.5 + - + +
47B GLN* 3.5 37.3 + - - +
49B LEU* 3.1 38.6 + - + +
50B PRO 5.0 1.8 - - - +
51B ALA* 3.3 37.1 - - - +
109B PRO* 3.3 4.3 - - + +
110B ALA* 1.3 77.1 - - - +
112B VAL* 1.3 56.4 + - + +
114B LEU* 4.2 2.5 - - - +
115B THR* 2.7 30.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 112 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B ALA* 5.5 8.5 - - + -
77B PHE* 4.0 22.2 - - + -
80B LEU* 4.4 21.8 - - + +
81B ALA* 4.5 14.6 - - + -
85B VAL* 4.1 13.7 - - + -
109B PRO* 3.1 27.8 + - + +
110B ALA 3.0 0.4 - - - -
111B ARG* 1.3 79.5 - - + +
113B LEU* 1.3 68.8 + - - +
114B LEU 2.7 2.2 + - - -
115B THR* 2.7 22.6 + - - +
116B GLY* 3.0 9.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 113 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B ALA* 3.6 35.0 - - + +
57B ALA* 4.4 9.9 - - + -
77B PHE* 4.1 10.0 - - + -
85B VAL* 3.7 35.7 - - + -
106B LEU* 4.1 28.3 - - + +
108B GLY* 3.7 14.1 - - - +
109B PRO 3.1 13.8 + - - +
110B ALA* 4.1 4.7 - - - +
112B VAL* 1.3 77.4 - - - +
114B LEU* 1.3 61.0 + - - +
116B GLY 4.2 0.3 - - - -
117B GLU* 3.2 22.3 + - - +
293B MET* 3.3 13.4 - - + +
295B PHE* 4.5 10.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 114 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ARG* 5.3 4.0 + - - -
178A LEU* 5.7 1.3 - - - +
187A ASN* 5.6 6.1 - - - +
188A HIS* 6.0 6.3 - - + +
43B ASP* 5.3 4.7 - - - +
46B ALA* 5.9 2.0 - - + -
49B LEU* 4.7 14.4 - - + -
110B ALA* 3.0 38.3 + - + +
111B ARG* 4.2 4.0 - - - +
112B VAL 2.7 5.5 + - - -
113B LEU* 1.3 73.1 - - - +
115B THR* 1.3 66.0 + - - +
117B GLU* 3.1 36.5 - - + +
118B ARG 4.3 0.7 + - - -
295B PHE* 3.7 40.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 115 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ARG* 5.1 0.5 + - - -
178A LEU* 3.2 25.9 - - + +
30B LEU* 5.9 0.6 - - - +
33B ASP* 4.7 1.0 - - - +
34B LEU* 4.7 4.7 - - + -
40B ALA* 4.6 14.8 + - - +
43B ASP* 2.9 45.8 - - + +
80B LEU* 4.8 7.5 - - - +
111B ARG 2.7 19.2 + - - +
112B VAL* 2.7 15.6 + - - +
114B LEU* 1.3 73.3 - - - +
116B GLY* 1.3 60.8 + - - -
117B GLU 2.9 5.1 + - - -
118B ARG* 3.6 10.4 + - - +
119B THR* 4.2 7.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 116 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B LEU* 5.4 0.9 - - - -
76B VAL* 3.9 5.1 - - - +
77B PHE* 3.5 23.8 - - - -
80B LEU* 3.6 17.9 - - - +
112B VAL 3.0 9.3 + - - -
115B THR* 1.3 76.7 + - - +
117B GLU* 1.3 66.8 + - - +
119B THR* 4.1 4.5 - - - -
120B ALA* 3.0 26.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 117 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ARG* 5.2 5.4 + - - -
185A LYS* 5.8 2.1 + - - -
77B PHE* 4.7 1.6 - - - -
113B LEU 3.2 17.2 + - - +
114B LEU* 3.1 32.1 - - - +
115B THR 2.9 2.0 + - - -
116B GLY* 1.3 80.2 - - - +
118B ARG* 1.3 74.9 + - - +
120B ALA* 3.8 1.5 - - - +
121B LEU* 3.0 41.3 + - + +
293B MET* 3.7 39.1 + - + +
295B PHE* 5.7 1.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 118 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ARG* 3.2 64.1 + - + +
153A LYS* 3.8 31.0 - - - +
159A ARG* 5.2 1.6 - - - +
300A NTM 4.1 15.4 + - - -
114B LEU 4.3 0.4 + - - -
115B THR 3.6 5.1 + - - +
116B GLY 3.5 0.2 - - - -
117B GLU* 1.3 88.4 - - + +
119B THR* 1.3 63.4 + - - +
121B LEU* 3.4 19.3 + - - +
122B ASN* 2.8 52.7 + - - +
125B GLN* 2.7 34.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 119 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A ARG* 5.3 2.1 + - - -
26B VAL 4.8 0.2 - - - +
29B ALA* 3.6 38.0 + - + +
30B LEU* 3.6 32.2 - - + +
33B ASP* 4.2 17.0 + - - +
76B VAL* 4.1 7.2 - - + -
115B THR 4.2 2.9 + - - -
116B GLY 3.5 6.3 + - - -
117B GLU 3.3 0.8 - - - -
118B ARG* 1.3 74.3 - - - +
120B ALA* 1.3 65.8 + - - +
122B ASN* 3.3 16.7 + - + +
123B PHE* 3.0 30.5 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 120 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B VAL* 4.2 24.2 - - + +
76B VAL* 3.8 25.2 - - + +
77B PHE* 4.3 9.0 - - + -
104B PHE* 5.8 2.0 - - + -
116B GLY 3.0 19.1 + - - +
117B GLU* 3.8 2.2 - - - +
119B THR* 1.3 75.5 - - - +
121B LEU* 1.3 67.0 + - + +
123B PHE* 3.2 9.4 + - - +
124B VAL* 3.2 24.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 121 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B VAL* 4.2 28.7 - - + -
104B PHE* 5.2 3.8 - - + -
117B GLU* 3.0 44.1 + - + +
118B ARG* 3.8 23.3 - - - +
120B ALA* 1.3 78.4 - - + +
122B ASN* 1.3 59.0 + - - +
124B VAL* 3.8 8.0 - - + +
125B GLN* 2.8 40.9 + - - +
291B LEU* 4.6 20.9 - - + +
292B SER* 5.1 1.1 - - - -
293B MET* 3.8 24.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 122 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ARG 3.3 21.5 + - - -
153A LYS* 3.9 6.1 - - - -
154A THR* 3.5 26.9 + - - +
156A PRO* 3.9 12.0 - - + +
159A ARG* 4.8 5.9 - - - +
29B ALA* 6.3 0.8 - - - +
118B ARG* 2.8 47.2 + - - +
119B THR* 3.3 9.9 + - - +
121B LEU* 1.3 72.6 - - - +
123B PHE* 1.3 64.1 + - - +
125B GLN* 3.7 5.6 + - - +
126B THR* 2.7 32.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 123 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PRO* 3.6 26.7 - - + -
25B ALA* 3.3 36.8 - - + -
26B VAL* 4.0 10.3 - - + -
29B ALA* 3.8 7.4 - - + -
72B TRP* 3.6 46.0 - + + -
76B VAL* 4.6 4.3 - - + -
119B THR* 3.0 43.4 + - + -
120B ALA* 3.2 11.1 + - - +
122B ASN* 1.3 80.3 - - - +
124B VAL* 1.3 65.3 + - + +
126B THR* 3.6 1.6 - - - -
127B LEU* 3.0 39.5 + - + +
158B LEU* 5.2 8.3 - - + -
161B ALA* 6.3 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 124 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 3.9 19.7 - - + -
68B CYS 4.0 11.2 - - - +
69B GLY* 4.6 3.8 - - - -
73B VAL* 3.5 31.9 - - + -
104B PHE* 5.2 5.8 - - + -
120B ALA 3.2 11.7 + - - +
121B LEU* 4.0 11.4 - - + +
123B PHE* 1.3 76.0 - - + +
125B GLN* 1.3 57.8 + - - +
128B SER* 2.9 48.8 + - - +
291B LEU* 3.4 30.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 125 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A LYS* 5.5 1.8 - - - +
284A LYS* 5.0 16.0 + - - +
118B ARG* 2.7 33.5 + - - +
121B LEU* 2.8 24.3 + - - +
122B ASN* 3.7 8.0 + - - +
123B PHE 3.3 0.2 + - - -
124B VAL* 1.3 73.0 - - - +
126B THR* 1.3 59.3 + - - +
129B GLY 3.0 13.9 + - - -
288B ALA* 3.3 22.3 - - + -
289B LEU* 2.7 50.3 + - - +
290B ASP* 4.5 1.7 - - - +
291B LEU* 3.5 28.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 126 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A THR 5.7 0.3 - - - -
155A LEU* 3.9 28.5 - - + +
156A PRO* 4.0 15.1 - - + +
284A LYS 5.6 0.5 + - - -
122B ASN* 2.7 23.7 + - - +
123B PHE* 3.6 3.4 - - - -
125B GLN* 1.3 74.2 - - - +
127B LEU* 1.3 64.7 + - + +
129B GLY* 2.8 21.5 + - - -
130B VAL* 2.9 21.2 + - + +
155B LEU* 5.5 0.7 - - + -
158B LEU* 5.6 7.6 - - + -
162B LEU* 4.9 9.4 - - + -
286B VAL* 4.1 20.9 - - + +
288B ALA* 4.9 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 127 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B CYS* 3.9 18.6 - - + +
69B GLY* 4.4 5.4 - - - -
72B TRP* 3.9 40.8 - - + -
123B PHE* 3.0 31.9 + - + +
126B THR* 1.3 76.0 - - + +
128B SER* 1.3 57.8 + - - +
130B VAL* 3.3 2.1 + - - -
131B ALA* 2.9 31.4 + - - +
158B LEU* 6.0 2.0 - - + -
161B ALA* 3.4 42.8 - - + +
162B LEU* 4.4 8.7 - - + +
165B ALA* 3.7 12.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 128 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B VAL 3.5 11.0 + - - +
67B PHE* 3.9 3.8 - - - -
68B CYS* 2.8 34.9 + - - -
124B VAL* 2.9 32.6 + - - +
127B LEU* 1.3 73.7 - - - +
129B GLY* 1.3 56.5 + - - +
131B ALA* 4.4 0.4 - - - -
132B SER* 2.8 35.9 + - - -
289B LEU* 3.5 24.2 - - - +
291B LEU* 5.6 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 129 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B GLN 3.0 12.6 + - - -
126B THR 2.8 10.0 + - - -
128B SER* 1.3 78.9 - - - +
130B VAL* 1.3 61.3 + - - +
132B SER* 3.7 4.6 - - - -
133B GLU* 3.3 19.1 + - - +
286B VAL* 5.7 0.4 - - - -
287B ARG* 3.3 30.3 - - - +
289B LEU* 4.0 7.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 130 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B THR 2.9 20.2 + - - +
127B LEU* 3.8 4.7 - - - +
129B GLY* 1.3 73.6 - - - +
131B ALA* 1.3 67.3 + - - +
133B GLU* 2.9 17.3 + - - +
134B VAL* 3.0 23.4 + - + +
162B LEU* 3.8 26.5 - - + -
165B ALA* 4.4 11.4 - - + -
166B VAL* 4.9 2.9 - - + -
282B LEU 3.4 28.3 - - - +
283B THR* 4.5 12.6 - - + -
285B HIS 4.8 2.5 - - - +
286B VAL* 4.5 19.3 - - + -
287B ARG 6.2 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 131 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B VAL* 4.0 20.8 - - + +
68B CYS* 4.0 15.5 - - + -
127B LEU 2.9 17.8 + - - +
128B SER* 4.1 2.5 - - - +
130B VAL* 1.3 75.4 - - - +
132B SER* 1.3 62.9 + - - +
134B VAL* 3.1 12.7 + - - -
135B ARG* 3.2 10.6 + - - +
165B ALA* 3.3 26.2 + - - +
168B CYS* 4.3 3.1 - - + -
169B GLY* 3.5 10.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 132 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B ASP 5.5 0.7 - - - -
65B GLY* 3.4 8.0 - - - -
66B VAL* 2.7 35.7 + - - +
128B SER 2.8 24.8 + - - -
129B GLY* 3.7 6.1 - - - -
131B ALA* 1.3 74.4 - - - +
133B GLU* 1.3 61.8 + - - +
135B ARG* 3.3 6.9 + - - +
136B ARG* 3.2 17.2 + - - +
289B LEU* 3.3 13.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 133 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B GLY 3.3 9.0 + - - +
130B VAL* 2.9 9.9 + - - +
132B SER* 1.3 77.4 - - - +
134B VAL* 1.3 64.5 + - - +
136B ARG* 3.2 19.8 + - + +
137B TYR* 3.2 48.9 + - + -
281B ALA 4.9 8.0 - - - +
282B LEU* 4.9 7.3 - - + +
287B ARG* 6.1 7.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 134 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B VAL* 3.0 25.0 + - + +
131B ALA* 3.1 7.4 + - - +
133B GLU* 1.3 73.0 - - - +
135B ARG* 1.3 63.7 + - - +
137B TYR* 2.9 7.7 + - - +
138B VAL* 2.8 35.2 + - + +
148B LEU* 4.1 8.7 - - + -
166B VAL* 3.8 30.1 - - + +
169B GLY* 3.9 5.8 - - - -
171B GLY* 3.6 31.6 - - - +
282B LEU* 4.6 18.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B VAL* 3.3 37.1 - - + +
94B GLY 3.6 18.0 + - - -
95B ASP* 3.8 6.5 - - - +
96B ALA* 4.9 0.4 - - - +
131B ALA 3.2 3.6 + - - +
132B SER 3.5 10.1 - - - +
134B VAL* 1.3 79.1 - - - +
136B ARG* 1.3 63.9 + - - +
138B VAL* 3.4 8.8 - - + +
139B GLY* 3.0 21.8 + - - -
168B CYS 3.3 23.8 + - - -
169B GLY 3.3 29.5 + - - +
170B GLY* 4.3 4.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 136 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B SER 3.2 7.0 + - - +
133B GLU* 3.3 26.6 + - + +
134B VAL 3.1 0.2 - - - -
135B ARG* 1.3 81.2 - - - +
137B TYR* 1.3 81.7 + - - +
139B GLY* 3.6 3.8 + - - -
140B LEU* 3.6 45.1 - - - +
263B ALA* 3.8 25.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B GLU* 3.2 40.9 + - - +
134B VAL* 2.9 10.5 + - - +
136B ARG* 1.3 92.7 - - - +
138B VAL* 1.3 65.6 + - - +
139B GLY 3.0 1.8 - - - -
140B LEU* 2.9 26.6 + - + +
141B LEU* 4.0 8.5 + - - +
148B LEU* 3.6 24.7 - - + -
262B THR 6.1 1.6 - - - -
263B ALA* 6.1 4.9 - - - -
266B LEU* 4.8 20.1 - - + +
279B VAL* 3.8 24.0 - - + +
281B ALA* 3.9 18.7 - - - +
282B LEU* 3.9 21.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 138 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B VAL* 2.8 30.4 + - + +
135B ARG* 3.4 17.5 - - - +
137B TYR* 1.3 71.1 - - - +
139B GLY* 1.3 61.7 + - - +
141B LEU* 2.9 34.6 + - + +
142B ALA* 3.9 3.3 + - - +
148B LEU* 3.7 15.9 - - + -
169B GLY 3.7 13.9 - - - +
170B GLY* 3.6 33.0 - - - +
171B GLY* 3.8 1.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 139 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B ARG* 3.0 17.3 + - - -
136B ARG 3.9 3.1 - - - -
137B TYR 3.0 2.0 - - - -
138B VAL* 1.3 79.0 - - - +
140B LEU* 1.3 63.7 + - - +
141B LEU 3.3 2.2 + - - -
142B ALA* 4.4 12.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 140 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B ARG* 3.6 54.7 - - - +
137B TYR* 2.9 17.7 + - + +
139B GLY* 1.3 81.7 - - - +
141B LEU* 1.3 66.6 + - + +
142B ALA 3.5 1.7 + - - -
263B ALA* 3.9 26.0 - - - +
264B GLU* 5.4 6.1 - - - +
266B LEU* 5.4 5.4 - - + -
267B ARG* 3.5 36.2 + - + +
----------------------------------------------------------
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