Contacts of the helix formed by residues 145 - 171 (chain A) in PDB entry 1TKP
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 ASP 145 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A MET* 3.9 26.2 - - - +
30A CYS* 3.6 22.4 - - - -
84A ARG* 2.8 25.5 + - - -
88A LEU* 4.1 8.7 - - - +
140A ALA* 2.9 19.2 + - - +
143A LEU* 3.1 4.6 - - + +
144A GLY* 1.4 74.7 - - - +
146A HIS* 1.3 58.6 + - - +
147A ALA* 3.7 2.6 + - - +
148A THR* 2.3 31.5 + - - -
149A ALA* 3.1 19.6 + - - +
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Residues in contact with HIS 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A GLU* 3.0 41.3 + - - +
144A GLY* 3.2 37.1 + - - -
145A ASP* 1.3 71.3 + - - +
147A ALA* 1.4 57.4 + - - +
149A ALA* 3.5 6.4 - - - +
150A HIS* 2.8 36.4 + - - +
153A ARG* 4.7 0.2 + - - -
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Residues in contact with ALA 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ARG* 3.2 28.0 - - - +
145A ASP* 3.3 1.7 + - - +
146A HIS* 1.4 77.3 - - - +
148A THR* 1.3 62.2 + - - +
150A HIS* 3.4 6.8 + - - +
151A MET* 3.0 24.8 + - - +
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Residues in contact with THR 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A CYS* 4.4 5.4 - - - -
34A LEU* 4.1 24.2 - - + -
84A ARG* 2.7 27.7 + - + +
88A LEU* 4.3 1.2 - - - +
140A ALA* 3.7 9.9 - - + -
145A ASP* 2.3 34.5 + - - +
147A ALA* 1.3 77.7 - - - +
149A ALA* 1.3 58.2 + - - +
151A MET* 3.3 7.0 + - - +
152A LEU* 2.9 51.6 + - + +
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Residues in contact with ALA 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A THR* 4.0 10.6 - - - +
140A ALA* 3.9 6.7 - - - +
141A GLU* 3.3 41.5 - - + +
145A ASP 3.1 13.1 + - - +
146A HIS* 3.2 8.0 + - - +
148A THR* 1.3 76.0 - - - +
150A HIS* 1.3 64.0 + - - +
152A LEU* 3.3 8.0 + - - +
153A ARG* 3.0 34.5 + - - +
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Residues in contact with HIS 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A HIS 2.8 18.2 + - - +
147A ALA* 3.7 7.0 - - - +
149A ALA* 1.3 78.1 - - - +
151A MET* 1.3 66.9 + - + +
153A ARG* 3.2 4.6 + - - +
154A GLU* 3.0 61.0 + - + +
313A FE 4.4 2.0 - - - -
401A SO4 2.7 41.4 + - - +
154C GLU* 4.8 0.4 - - - -
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Residues in contact with MET 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 5.7 0.4 - - - -
80A GLU* 3.4 61.7 - - + +
81A LEU* 4.3 11.2 - - + -
83A GLU* 6.3 0.4 - - + -
84A ARG* 3.8 33.0 - - + +
147A ALA 3.0 17.7 + - - +
148A THR* 3.5 5.2 - - - +
150A HIS* 1.3 83.8 - - + +
152A LEU* 1.3 67.0 + - + +
154A GLU* 3.4 8.0 + - + +
155A GLY* 3.0 19.4 + - - -
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Residues in contact with LEU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 3.6 25.8 - - + -
37A ASP* 4.3 10.3 - - - +
81A LEU* 3.7 20.0 - - + -
133A THR* 3.7 13.4 - - + +
136A HIS* 3.7 34.8 - - + +
137A THR* 3.1 25.1 - - + +
140A ALA* 4.1 1.8 - - + -
148A THR* 2.9 39.7 + - + +
149A ALA 3.6 1.6 - - - +
150A HIS 3.2 0.2 - - - -
151A MET* 1.3 77.5 - - + +
153A ARG* 1.4 51.6 + - - +
155A GLY* 3.3 0.7 + - - -
156A LEU* 2.7 36.0 + - - +
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Residues in contact with ARG 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A THR* 4.4 18.7 + - + -
141A GLU* 2.7 52.9 + - - +
146A HIS 4.7 0.2 + - - -
149A ALA* 3.0 17.1 + - - +
150A HIS* 3.2 18.6 + - - +
152A LEU* 1.4 71.9 - - - +
154A GLU* 1.3 67.3 + - - +
156A LEU* 3.7 7.3 - - - +
157A ILE* 3.0 25.6 + - - +
401A SO4 3.0 37.5 + - - -
141C GLU* 3.2 26.6 + - - -
146C HIS* 4.4 14.0 + - + +
147C ALA* 5.4 1.1 - - - +
150C HIS* 3.9 23.8 - - + +
153C ARG* 3.5 10.8 - - - +
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Residues in contact with GLU 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A HIS* 3.0 50.5 + - + +
151A MET* 3.7 9.9 - - - +
153A ARG* 1.3 74.2 - - - +
155A GLY* 1.3 58.4 + - - +
157A ILE* 3.1 25.5 - - - +
158A GLU* 3.6 11.7 - - - +
307A FE 2.5 21.7 - - - -
313A FE 2.1 28.5 - - - -
150C HIS* 3.1 10.8 + - + -
154C GLU* 3.1 4.9 - - - +
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Residues in contact with GLY 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A VAL* 4.1 22.9 - - - -
151A MET 3.0 13.6 + - - -
152A LEU* 3.8 1.8 - - - -
154A GLU* 1.3 75.3 - - - +
156A LEU* 1.3 68.3 + - - +
158A GLU* 3.0 8.4 + - - +
159A LEU* 3.0 30.8 + - - +
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Residues in contact with LEU 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A ILE* 3.9 29.8 - - + +
133A THR* 3.8 20.4 - - + +
134A ARG* 4.0 19.7 - - + -
137A THR* 5.0 2.9 - - + -
152A LEU 2.7 23.3 + - - +
153A ARG* 3.2 5.6 + - - +
155A GLY* 1.3 74.4 - - - +
157A ILE* 1.3 62.8 + - - +
159A LEU* 4.4 6.3 - - + +
160A GLU* 2.9 57.0 + - + +
146C HIS* 4.1 10.1 - - + -
147C ALA* 3.8 22.0 - - + +
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Residues in contact with ILE 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ARG 3.0 14.5 + - - +
154A GLU* 3.1 22.0 - - - +
156A LEU* 1.3 74.6 - - - +
158A GLU* 1.3 73.8 + - - +
160A GLU* 3.9 4.4 - - + -
161A ASP* 3.0 26.0 + - + +
80C GLU* 5.5 2.2 - - - +
84C ARG* 5.3 3.1 - - - +
147C ALA* 4.4 17.9 - - + +
150C HIS* 3.7 25.8 - - + +
151C MET* 4.0 30.5 - - + -
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Residues in contact with GLU 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A THR* 3.6 25.7 + - + +
76A GLU* 6.1 1.1 - - - +
77A VAL* 5.0 2.0 - - + -
154A GLU 3.6 13.9 - - - +
155A GLY* 3.0 9.8 + - - +
157A ILE* 1.3 91.4 - - - +
159A LEU* 1.3 63.8 + - + +
161A ASP* 3.4 10.7 + - - +
162A ASP* 3.1 27.6 + - - +
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A VAL* 4.4 5.6 - - + -
44A LEU* 4.9 5.4 - - + -
70A ALA 6.1 0.2 - - - +
73A THR* 4.4 9.9 - - + -
74A ALA* 4.8 10.1 - - + -
77A VAL* 3.9 38.1 - - + -
126A TYR* 3.6 29.0 - - + -
129A ILE* 3.8 28.3 - - + -
130A ILE* 4.5 10.1 - - + -
133A THR* 4.7 7.2 - - + +
155A GLY 3.0 18.9 + - - +
156A LEU* 3.9 7.6 - - + +
158A GLU* 1.3 78.0 - - - +
160A GLU* 1.3 57.8 + - - +
162A ASP* 3.1 2.8 + - - +
163A ALA* 2.8 29.3 + - - +
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Residues in contact with GLU 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A ILE* 3.8 11.0 - - + -
134A ARG* 2.8 37.0 + - - -
156A LEU* 2.9 38.3 + - + +
157A ILE* 3.9 5.6 - - + +
159A LEU* 1.3 79.6 - - - +
161A ASP* 1.3 53.3 + - - +
164A HIS* 2.7 38.7 + - - +
20C LEU* 3.4 18.6 - - + +
84C ARG* 2.7 45.6 + - - +
145C ASP* 4.6 0.2 - - - +
147C ALA* 3.4 18.7 - - + +
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Residues in contact with ASP 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A ILE* 3.0 24.6 + - + +
158A GLU* 3.6 11.7 - - - +
160A GLU* 1.3 78.1 - - - +
162A ASP* 1.3 66.2 + - - +
164A HIS* 3.7 8.5 + - - +
165A HIS* 3.0 56.2 + - - -
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Residues in contact with ASP 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A PHE* 3.6 25.8 - - + -
70A ALA* 3.9 15.6 - - - +
73A THR* 3.7 26.5 + - - +
126A TYR* 3.2 30.2 + - + +
158A GLU 3.1 15.4 + - - +
159A LEU* 3.1 4.6 + - - +
161A ASP* 1.3 78.8 - - - +
163A ALA* 1.4 65.9 + - - +
165A HIS* 3.2 7.1 + - - +
166A ILE* 3.0 21.3 + - - +
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Residues in contact with ALA 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A MET* 4.5 2.5 - - + +
126A TYR* 3.6 34.2 - - + -
130A ILE* 3.6 16.8 - - + -
159A LEU 2.8 20.0 + - - +
160A GLU 3.6 2.9 - - - +
162A ASP* 1.4 73.1 - - - +
164A HIS* 1.3 58.0 + - - +
166A ILE* 3.3 6.0 + - - +
167A GLU 3.0 21.7 + - - -
19C ALA* 3.6 17.6 - - + +
20C LEU* 4.0 5.6 - - + -
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Residues in contact with HIS 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A GLU 2.7 22.4 + - - +
161A ASP* 3.7 7.6 + - - +
163A ALA* 1.3 73.7 - - - +
165A HIS* 1.3 76.4 + + - +
167A GLU* 3.2 15.3 + - - +
168A HIS* 2.9 41.9 + + - +
310A FE 2.8 26.0 - - - -
19C ALA* 4.6 4.3 - - - -
20C LEU* 4.2 9.4 - - + +
83C GLU* 4.6 3.4 - - + -
86C GLN* 3.3 21.0 + - - -
87C ALA* 3.6 36.4 - - + +
60D PHE* 6.0 0.4 - + - -
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Residues in contact with HIS 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A PHE* 3.4 32.8 - + + -
161A ASP* 3.0 41.8 + - - -
162A ASP* 3.4 11.0 - - - +
164A HIS* 1.3 90.0 + + - +
166A ILE* 1.3 61.6 + - - +
168A HIS* 3.1 1.4 + - - -
169A TYR* 2.9 27.3 + - + -
60D PHE* 3.4 32.3 - + + -
61D ARG* 4.8 10.0 - - + +
64D HIS* 5.0 16.0 + + - -
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Residues in contact with ILE 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 4.9 4.0 - - + -
66A PHE* 3.6 25.1 - - + -
67A LEU* 5.1 0.7 - - + -
119A LEU* 3.5 38.4 - - + +
122A ASP* 3.9 19.3 - - + +
123A MET* 4.0 11.0 - - + +
126A TYR* 3.7 33.2 - - + -
162A ASP 3.0 9.4 + - - +
163A ALA* 3.7 6.3 - - - +
165A HIS* 1.3 75.7 - - - +
167A GLU* 1.3 65.1 + - - +
169A TYR* 3.1 10.7 + - + +
170A LEU* 3.1 34.9 + - + +
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Residues in contact with GLU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A MET* 4.2 14.7 - - - +
163A ALA 3.0 5.6 + - - +
164A HIS* 3.3 19.4 - - - +
165A HIS 3.1 0.2 - - - -
166A ILE* 1.3 80.0 - - - +
168A HIS* 1.3 67.5 + - + +
170A LEU* 3.1 11.6 + - + +
171A GLU* 3.2 22.1 + - + +
17C SER* 2.9 20.8 + - - -
18C ASP* 3.3 14.7 + - - +
19C ALA* 3.0 43.7 + - + +
87C ALA 4.6 1.4 - - - +
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Residues in contact with HIS 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A HIS* 2.9 26.4 + + - +
165A HIS 3.1 4.5 + - - +
167A GLU* 1.3 81.9 - - + +
169A TYR* 1.3 61.0 + - - +
170A LEU 3.2 0.2 + - - -
171A GLU* 3.3 9.5 + - + +
310A FE 3.4 14.1 - - - -
86C GLN* 2.9 25.8 + - - -
53D TRP 4.2 2.5 - - - -
55D VAL 3.1 17.6 + - - -
56D GLU* 3.3 20.6 - - + +
57D GLY 2.8 25.8 + - - -
60D PHE* 3.6 31.1 - + + -
309D FE 2.3 28.9 - - - -
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Residues in contact with TYR 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A GLU* 6.2 0.2 - - + -
62A ASP* 2.2 32.4 + - - -
63A LEU* 3.7 28.7 - - + -
66A PHE* 3.7 35.4 - + - +
116A ARG* 4.5 5.0 + - - -
119A LEU* 3.9 16.4 - - + -
165A HIS 2.9 21.5 + - - -
166A ILE* 3.1 13.2 + - - +
168A HIS* 1.3 76.7 - - - +
170A LEU* 1.4 61.9 + - - +
171A GLU 4.2 0.9 - - - +
57D GLY* 3.6 20.2 - - - -
58D ALA* 3.9 19.6 + - - -
60D PHE* 3.5 23.3 - + - -
61D ARG* 3.0 22.6 - - + +
----------------------------------------------------------
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Residues in contact with LEU 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A ARG* 3.1 59.9 + - + +
119A LEU* 3.9 21.1 - - + -
120A ALA* 3.7 32.3 - - + +
123A MET* 4.2 16.4 - - + -
166A ILE* 3.1 27.0 + - + +
167A GLU* 3.7 5.6 - - + +
168A HIS 3.1 0.4 - - - -
169A TYR* 1.4 77.0 - - - +
171A GLU* 1.3 63.8 + - - +
172A ASP 3.9 0.3 + - - -
----------------------------------------------------------
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Residues in contact with GLU 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A ARG* 4.8 4.0 + - - -
167A GLU* 3.2 24.8 + - + +
168A HIS* 3.3 9.9 + - + +
169A TYR 4.2 1.4 - - - +
170A LEU* 1.3 80.5 - - - +
172A ASP* 1.4 68.7 + - - +
173A ASP 3.1 9.1 + - - +
8C ARG* 3.1 12.6 + - - +
15C GLU* 4.4 12.5 - - - +
56D GLU* 2.9 52.3 - - + +
57D GLY* 3.6 10.3 - - - +
58D ALA 4.6 0.3 + - - -
----------------------------------------------------------
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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