Contacts of the helix formed by residues 145 - 167 (chain C) in PDB entry 4CQM
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 GLN 145 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C ASN* 3.9 15.8 - - - +
88C ARG 5.9 0.2 - - - -
89C ASP* 3.2 36.6 + - - +
137C VAL* 3.6 26.1 - - + +
142C ASN* 3.1 30.6 + - - +
143C SER 4.5 4.7 - - - +
144C GLY* 1.3 80.0 - - - +
146C SER* 1.3 55.0 + - - +
147C VAL 3.4 2.5 - - - -
148C TYR* 3.9 16.9 - - + +
149C SER* 2.4 42.1 + - - +
180C PHE* 5.8 3.1 - - - -
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Residues in contact with SER 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B PHE* 3.6 32.3 - - - -
161B ALA* 3.6 19.4 - - - +
162B LEU* 4.5 7.0 - - - -
165B GLU* 4.2 11.3 + - - -
90C GLY 5.3 0.4 + - - -
92C LEU* 3.5 32.6 - - - +
142C ASN 4.1 0.2 + - - -
144C GLY 3.7 1.2 - - - -
145C GLN* 1.3 75.7 - - - +
147C VAL* 1.3 67.3 + - - +
149C SER* 3.2 3.5 + - - -
150C ALA 3.0 23.0 + - - -
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Residues in contact with VAL 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B MET* 4.7 9.0 - - + -
88C ARG 6.0 0.7 - - - +
92C LEU* 4.0 12.3 - - + -
95C THR* 4.5 12.3 - - + +
99C ASP 5.8 0.2 - - - -
100C MET* 3.7 50.9 - - + +
103C GLN* 3.8 30.5 - - + +
104C LEU* 5.3 1.9 - - + +
145C GLN* 3.4 0.6 - - - +
146C SER* 1.3 89.4 + - - +
148C TYR* 1.3 59.5 + - - +
150C ALA* 3.2 7.5 + - - +
151C SER* 3.0 27.5 + - - -
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Residues in contact with TYR 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C GLY* 5.3 1.5 - - - -
86C ILE 3.4 17.0 - - - -
87C ASN* 3.4 40.8 - - + +
103C GLN* 3.8 6.0 + - - +
107C ASN* 3.2 29.6 - - - -
134C GLY 4.7 2.6 + - - -
135C SER* 4.1 21.4 - - - -
137C VAL* 5.3 4.9 - - + -
145C GLN* 3.4 23.2 + - + +
146C SER 3.3 0.6 - - - -
147C VAL* 1.3 80.3 - - - +
149C SER* 1.3 58.3 + - - +
151C SER* 3.0 15.4 + - - -
152C LYS* 3.0 48.8 + - + +
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Residues in contact with SER 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B GLY* 3.2 29.3 - - - -
161B ALA* 3.4 6.2 - - - +
137C VAL* 3.1 36.3 - - - +
138C GLY* 3.6 10.3 - - - +
145C GLN 2.4 26.6 + - - -
146C SER 3.5 3.8 - - - -
147C VAL 3.2 0.2 - - - -
148C TYR* 1.3 76.6 - - - +
150C ALA* 1.3 59.0 + - - +
153C GLY* 2.9 26.5 + - - -
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Residues in contact with ALA 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B LEU* 3.8 16.8 - - + +
112B MET* 3.7 22.0 - - + -
154B GLY* 3.3 33.0 - - - +
158B PHE* 3.6 17.9 - - + +
104C LEU* 5.0 0.9 - - + -
146C SER 3.0 13.3 + - - +
147C VAL 3.2 7.8 + - - +
149C SER* 1.3 78.0 - - - +
151C SER* 1.3 62.6 + - - +
154C GLY* 3.3 6.4 + - - -
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Residues in contact with SER 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C GLN* 3.6 27.3 - - - +
104C LEU* 3.7 21.7 - - - +
107C ASN* 3.4 25.2 + - - +
108C LEU* 3.3 29.9 - - - +
147C VAL* 3.0 13.6 + - - -
148C TYR* 3.0 13.0 + - - -
150C ALA* 1.3 79.1 - - - +
152C LYS* 1.3 62.6 + - - +
153C GLY 3.5 0.2 + - - -
154C GLY 3.8 0.2 + - - -
155C LEU* 4.0 0.5 - - - +
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Residues in contact with LYS 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ASN 5.3 0.6 + - - -
83C ALA 5.3 2.8 + - - -
84C ALA 3.8 22.2 + - - -
85C GLY* 4.2 5.0 - - - -
107C ASN* 3.7 29.7 + - + +
111C SER* 5.6 1.4 + - - -
133C VAL 3.3 18.6 + - - -
134C GLY* 3.9 13.7 - - - -
135C SER* 4.4 13.9 + - - +
138C GLY* 4.1 12.3 - - - -
148C TYR* 3.0 53.2 + - + +
151C SER* 1.3 80.8 + - - +
153C GLY* 1.3 61.3 + - - +
154C GLY 3.4 0.2 - - - -
155C LEU* 3.6 33.2 - - + +
156C VAL* 4.4 6.2 + - - +
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Residues in contact with GLY 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B GLY 5.3 0.2 - - - +
153B GLY* 3.6 20.1 - - - +
154B GLY* 4.5 0.7 - - - -
157B GLY* 5.1 0.2 - - - -
138C GLY 3.1 26.8 - - - +
149C SER 2.9 14.3 + - - -
150C ALA 3.9 1.1 - - - -
151C SER 3.2 0.4 - - - -
152C LYS* 1.3 76.0 - - - +
154C GLY* 1.3 62.6 + - - +
155C LEU 3.1 3.2 + - - -
156C VAL* 3.4 19.7 + - - +
157C GLY 4.1 1.2 + - - -
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Residues in contact with GLY 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B ALA* 3.2 28.2 - - - -
153B GLY* 4.1 1.8 - - - -
154B GLY* 3.8 6.2 - - - -
108C LEU* 3.5 16.6 - - - -
150C ALA 3.3 9.7 + - - -
151C SER 3.8 0.8 + - - -
152C LYS 3.4 0.6 - - - -
153C GLY* 1.3 74.7 - - - +
155C LEU* 1.3 62.8 + - - +
156C VAL 3.2 0.2 - - - -
157C GLY 3.5 1.5 + - - -
158C PHE* 3.0 26.2 + - - +
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Residues in contact with LEU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ASN 5.9 0.2 - - - +
107C ASN 3.4 21.5 - - - +
108C LEU* 3.6 14.3 - - + +
111C SER* 3.7 26.5 - - - +
132C ASN* 4.7 14.4 - - + +
133C VAL 3.7 17.3 - - - +
134C GLY* 3.8 8.5 - - - +
151C SER 4.0 3.8 - - - +
152C LYS* 3.6 39.7 - - + +
153C GLY 3.1 0.6 - - - -
154C GLY* 1.3 78.0 - - - +
156C VAL* 1.3 57.7 + - + +
158C PHE* 4.4 5.4 - - + -
159C SER* 2.7 39.1 + - - +
175C VAL* 4.4 7.9 - - + -
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Residues in contact with VAL 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B GLY 5.3 1.3 - - - +
139B LEU* 4.1 13.2 - - + +
135C SER 6.1 0.4 - - - +
138C GLY* 5.5 0.9 - - - +
139C LEU* 4.9 23.6 - - + -
152C LYS 4.6 7.9 - - - +
153C GLY* 3.7 13.9 - - - +
154C GLY 3.2 0.4 - - - -
155C LEU* 1.3 77.0 - - - +
157C GLY* 1.3 64.3 + - - +
159C SER* 4.1 0.9 - - - -
160C ARG* 3.2 48.1 + - - +
175C VAL* 4.5 15.4 - - + +
226C VAL* 3.9 29.6 - - + -
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Residues in contact with GLY 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B VAL 4.3 1.6 - - - -
138B GLY 3.3 28.3 + - - -
139B LEU 4.4 5.8 - - - -
141B GLY* 3.7 2.8 - - - -
149B SER* 3.2 26.4 - - - -
153C GLY 4.1 1.2 + - - -
154C GLY 3.5 4.2 + - - -
156C VAL* 1.3 80.6 - - - +
158C PHE* 1.3 56.3 + - - +
160C ARG* 4.7 0.7 - - - -
161C ALA* 3.1 21.7 + - - +
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Residues in contact with PHE 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B LEU* 3.6 32.5 - - + -
146B SER* 3.4 40.6 - - - -
149B SER* 4.4 0.2 - - - -
150B ALA* 3.6 11.5 - - + +
108C LEU* 5.0 0.4 - - + -
111C SER 4.2 7.4 - - - -
112C MET* 3.5 51.4 - - + -
115C CYS* 4.3 6.1 - - + -
132C ASN* 4.6 4.0 - - - -
154C GLY 3.0 20.7 + - - +
155C LEU* 4.0 8.3 - - + +
157C GLY* 1.3 75.4 - - - +
159C SER* 1.3 65.0 + - - +
161C ALA* 3.1 2.6 + - - +
162C LEU* 2.7 50.7 + - + +
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Residues in contact with SER 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ASN* 2.6 26.0 + - - -
155C LEU 2.7 22.8 + - - -
156C VAL 4.1 0.7 - - - -
158C PHE* 1.3 80.8 - - - +
160C ARG* 1.3 55.6 + - - +
162C LEU* 3.7 2.6 - - - +
163C ALA* 2.7 36.4 + - - +
173C VAL* 3.7 26.5 - - - +
174C ASN* 4.6 0.9 - - - -
175C VAL* 3.3 20.2 - - - +
224C GLY* 5.9 0.7 - - - -
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Residues in contact with ARG 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B LEU* 2.8 33.0 + - - +
140B LYS* 3.5 20.8 - - - +
156C VAL* 3.2 29.9 + - + +
157C GLY 4.0 3.1 - - - +
159C SER* 1.3 76.4 - - - +
161C ALA* 1.3 64.1 + - - +
163C ALA* 3.4 3.4 + - - +
164C LYS* 3.1 29.8 + - - +
175C VAL* 6.4 0.4 - - + -
224C GLY* 3.3 29.5 + - - +
225C HIS* 5.3 1.6 - - - +
226C VAL* 3.7 24.9 - - + +
160D LYS* 5.0 7.3 - - - +
254D GLU* 5.3 4.2 + - - -
261D MET* 3.4 35.7 + - - +
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Residues in contact with ALA 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B GLY* 3.9 0.4 - - - -
142B ASN 3.4 40.4 - - - +
146B SER* 3.7 15.0 - - - -
149B SER* 3.5 9.6 - - - +
157C GLY 3.1 20.3 + - - +
158C PHE 3.6 3.1 - - - +
160C ARG* 1.3 76.5 - - - +
162C LEU* 1.3 61.7 + - - +
164C LYS* 3.3 5.5 + - - +
165C GLU* 3.3 27.2 + - - +
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Residues in contact with LEU 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B LEU* 3.7 26.7 - - + -
146B SER* 4.4 4.2 - - - -
115C CYS* 3.7 32.1 - - + -
119C MET* 3.7 29.2 - - + -
130C ILE* 4.7 0.2 - - + -
158C PHE* 2.7 35.4 + - + +
159C SER* 3.7 4.0 - - - +
161C ALA* 1.3 72.4 - - - +
163C ALA* 1.3 64.6 - - - +
165C GLU* 3.2 22.1 + - + +
166C VAL* 3.3 13.7 + - + +
173C VAL* 4.0 21.8 - - + -
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Residues in contact with ALA 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159C SER 2.7 22.6 + - - +
160C ARG* 3.7 6.3 - - - +
161C ALA 3.3 0.2 - - - -
162C LEU* 1.3 72.6 - - - +
164C LYS* 1.3 58.1 + - - +
166C VAL* 3.8 2.8 - - - +
167C ALA* 3.0 32.7 + - - +
171C ILE 4.4 0.9 - - - +
173C VAL* 3.7 22.9 - - + +
223C THR* 3.3 24.6 + - - +
224C GLY 4.2 4.7 - - - +
223D PRO* 5.1 0.2 - - - +
261D MET* 4.3 7.6 - - + -
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Residues in contact with LYS 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B LYS 3.5 8.7 + - - -
141B GLY 2.9 33.4 + - - +
142B ASN* 4.2 7.6 - - - +
143B SER* 4.2 17.0 + - - +
237B LEU* 3.5 38.2 + - - +
160C ARG 3.1 17.2 + - - +
161C ALA 3.6 6.1 - - - +
162C LEU 3.1 0.6 - - - -
163C ALA* 1.3 77.2 - - - +
165C GLU* 1.3 62.8 + - - +
166C VAL 3.2 0.8 + - - -
167C ALA* 3.9 10.9 + - - +
168C ARG* 5.2 2.9 + - - +
223D PRO* 5.0 13.7 - - + +
258D GLY 5.5 1.1 - - - -
261D MET* 3.8 26.5 - - + +
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Residues in contact with GLU 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B GLY 3.9 3.6 - - - +
91B LEU* 3.6 20.4 - - + +
92B LEU* 3.5 22.1 + - - +
143B SER* 3.3 22.9 - - - +
144B GLY* 2.9 31.8 + - - +
145B GLN 3.9 1.7 + - - -
146B SER* 3.9 18.2 + - - -
161C ALA 3.3 12.2 + - - +
162C LEU* 3.2 15.3 + - + +
164C LYS* 1.3 77.5 - - - +
166C VAL* 1.3 60.1 + - + +
167C ALA 3.7 0.2 - - - -
168C ARG* 5.2 3.0 + - - +
169C LYS* 5.7 1.6 - - - +
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Residues in contact with VAL 166 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C MET* 3.9 20.2 - - + -
123C ILE* 4.5 8.3 - - + -
162C LEU* 3.4 18.4 - - + +
163C ALA* 4.1 4.7 - - - +
164C LYS 3.2 0.2 - - - -
165C GLU* 1.3 79.8 - - + +
167C ALA* 1.3 66.9 + - - +
168C ARG 3.1 3.1 - - - +
169C LYS* 3.0 24.8 + - + +
171C ILE* 3.3 63.3 + - + +
173C VAL* 4.5 5.2 - - + -
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Residues in contact with ALA 167 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163C ALA 3.0 19.0 + - - +
164C LYS 3.9 5.7 + - - +
165C GLU 3.7 0.6 - - - -
166C VAL* 1.3 78.3 - - - +
168C ARG* 1.3 59.8 + - - +
169C LYS 3.2 0.2 - - - -
170C LYS* 3.3 13.9 + - - -
171C ILE 4.0 8.1 - - - +
223C THR* 5.2 4.9 - - + -
223D PRO* 3.2 41.0 - - + +
224D MET* 3.9 20.7 - - + +
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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