Contacts of the helix formed by residues 145 - 166 (chain C) in PDB entry 3QNQ
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 GLY 145 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81C ALA* 3.7 6.1 - - - -
111C PHE* 3.8 0.3 - - - -
140C LEU* 3.8 18.1 + - - -
142C GLY 2.9 8.4 + - - -
143C SER 2.8 0.8 + - - -
144C GLN* 1.3 80.2 - - - +
146C LEU* 1.3 54.8 + - - +
147C PHE 2.7 18.6 + - - -
148C VAL* 2.8 19.7 + - - +
149C ALA* 2.7 19.8 + - - +
213C HIS* 6.5 0.7 - - - -
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Residues in contact with LEU 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29C LEU* 4.4 16.8 - - + +
80C MET* 3.1 30.5 - - + -
81C ALA* 3.4 18.8 - - + +
84C ALA* 4.7 6.5 - - + -
88C ILE* 5.4 0.2 - - - +
143C SER 3.2 21.5 - - - +
145C GLY* 1.3 76.2 - - - +
147C PHE* 1.3 60.4 + - + +
149C ALA* 3.2 24.0 - - + +
150C MET* 3.2 21.1 - - - +
221C GLN* 3.9 6.5 - - - +
261C PRO* 3.4 34.5 - - + +
264C LEU* 3.3 19.5 - - + -
265C SER* 5.3 0.2 - - - -
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Residues in contact with PHE 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C GLY 2.7 2.0 + - - -
146C LEU* 1.3 81.1 - - + +
148C VAL* 1.3 60.8 + - - +
149C ALA 3.0 4.2 + - - -
150C MET* 3.4 23.2 + - + +
151C ILE* 3.2 28.1 + - + +
216C VAL* 4.1 11.4 - - + -
220C LEU* 4.5 25.1 - - + -
221C GLN* 3.5 41.9 + - + +
224C LEU* 3.8 31.0 - - + -
261C PRO* 3.6 24.7 - - + -
262C ILE* 3.6 24.5 - - + -
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Residues in contact with VAL 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C PHE* 3.1 22.7 - - + -
114C ALA* 6.3 1.6 - - + -
115C THR* 4.8 12.1 - - + -
140C LEU 5.5 0.2 - - - +
144C GLN 5.8 1.3 - - - +
145C GLY* 2.8 28.7 + - - +
147C PHE* 1.3 70.4 - - - +
149C ALA* 1.3 68.7 + - - +
151C ILE* 3.9 8.1 - - - -
152C ILE* 3.1 28.3 + - + +
212C ILE* 4.3 9.0 - - + +
213C HIS* 3.8 22.7 - - + +
216C VAL* 3.4 37.9 - - + -
221C GLN* 5.3 0.4 + - - +
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Residues in contact with ALA 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C ALA* 4.1 10.8 - - + +
84C ALA* 4.5 4.3 - - + -
85C VAL* 3.2 35.9 - - + +
88C ILE* 4.9 1.1 - - + -
111C PHE* 3.7 2.2 - - - -
145C GLY 2.7 6.7 + - - +
146C LEU* 3.2 28.5 - - + +
148C VAL* 1.3 77.4 - - - +
150C MET* 1.3 70.6 + - + +
153C ALA* 2.9 22.7 + - - +
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Residues in contact with MET 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ILE* 3.8 39.9 - - + -
29C LEU* 5.4 1.8 - - + -
88C ILE* 3.7 27.3 - - + +
146C LEU 3.2 21.0 + - - +
147C PHE* 3.4 35.2 - - + +
149C ALA* 1.3 82.0 - - - +
151C ILE* 1.3 67.9 + - + +
153C ALA* 2.9 9.9 + - - +
154C ILE* 2.9 19.7 + - + +
261C PRO* 3.4 33.4 - - + -
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Residues in contact with ILE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147C PHE* 3.2 15.4 + - + +
148C VAL* 4.1 5.2 - - + +
149C ALA 3.3 0.4 + - - -
150C MET* 1.3 79.5 - - + +
152C ILE* 1.3 64.3 + - + +
154C ILE* 4.1 4.9 - - - +
155C ILE* 3.0 51.5 + - + +
212C ILE* 6.5 1.1 - - + -
216C VAL* 3.8 39.5 - - + -
220C LEU* 4.0 19.7 - - + -
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Residues in contact with ILE 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85C VAL* 4.5 1.8 - - + -
107C SER* 3.7 11.0 - - - +
110C THR* 3.7 16.8 - - + -
111C PHE* 3.4 46.0 - - + +
114C ALA* 4.5 17.3 - - + -
148C VAL* 3.1 23.1 + - + +
149C ALA 3.8 2.2 - - - +
150C MET 2.9 1.0 + - - -
151C ILE* 1.3 79.6 - - + +
153C ALA* 1.3 62.4 + - - +
154C ILE 3.1 1.8 - - - -
155C ILE* 4.2 8.7 - - + -
156C SER* 2.6 41.7 + - - +
197C VAL* 4.5 11.2 - - + -
212C ILE* 5.0 14.1 - - + -
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Residues in contact with ALA 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C VAL* 3.6 33.2 - - + +
88C ILE* 4.0 16.6 - - + -
89C ALA* 3.7 6.8 - - + +
92C LEU* 4.6 0.2 - - - +
107C SER* 3.8 11.6 + - - -
149C ALA 2.9 18.4 + - - +
150C MET 3.5 2.5 - - - +
152C ILE* 1.3 78.7 - - - +
154C ILE* 1.3 57.7 + - - +
157C THR* 2.9 33.6 + - - -
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Residues in contact with ILE 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21C HIS* 4.0 37.7 - - + +
24C ALA* 5.8 0.7 - - + -
25C ILE* 3.9 29.6 - - + -
88C ILE* 4.5 13.0 - - + -
92C LEU* 4.1 20.5 - - + +
150C MET* 2.9 20.2 + - + +
151C ILE* 4.1 4.5 - - - +
153C ALA* 1.3 75.7 - - - +
155C ILE* 1.3 63.5 + - + +
158C GLU* 2.8 40.5 + - + +
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Residues in contact with ILE 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151C ILE* 3.0 42.5 + - + +
152C ILE* 3.9 9.4 - - + +
154C ILE* 1.3 77.8 - - + +
156C SER* 1.3 64.5 + - - +
158C GLU* 3.9 3.9 - - - +
159C ILE* 3.3 40.1 + - + +
196C VAL* 4.9 2.7 - - + -
197C VAL* 5.3 7.9 - - + -
200C ILE* 4.6 26.5 - - + -
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Residues in contact with SER 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106C LEU* 4.8 5.2 - - - -
107C SER* 3.2 19.0 + - - -
110C THR* 3.3 30.7 + - - +
152C ILE 2.6 27.2 + - - -
155C ILE* 1.3 73.7 - - - +
157C THR* 1.3 67.1 + - - +
158C GLU 3.1 0.3 + - - -
159C ILE* 3.9 1.6 - - - +
160C TYR* 2.9 23.5 + - - +
193C VAL* 4.2 21.7 - - - +
197C VAL* 4.1 4.9 - - - +
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Residues in contact with THR 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89C ALA* 3.0 39.3 + - - +
92C LEU* 3.7 38.1 - - + +
93C GLY* 3.8 5.8 - - - +
96C TYR* 4.8 3.1 - - + -
98C VAL* 5.5 1.1 - - + -
103C SER* 3.8 13.6 + - - -
106C LEU* 5.4 0.4 - - - +
107C SER* 4.2 0.2 + - - -
153C ALA 2.9 19.3 + - - -
156C SER* 1.3 77.6 - - - +
158C GLU* 1.3 64.8 + - - +
160C TYR* 3.2 8.5 - - + +
161C ARG* 3.2 21.2 + - + +
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Residues in contact with GLU 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21C HIS* 2.9 34.4 + - + -
92C LEU* 4.0 4.7 - - - +
96C TYR* 2.7 38.0 + - - -
154C ILE* 2.8 27.4 + - + +
155C ILE* 3.9 5.6 - - - +
157C THR* 1.3 76.0 - - - +
159C ILE* 1.3 65.3 + - + +
160C TYR 3.1 0.7 + - - -
161C ARG* 2.8 38.4 + - - +
162C PHE* 3.2 8.1 + - + +
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Residues in contact with ILE 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155C ILE* 3.3 27.8 + - + +
156C SER* 3.3 4.7 + - - +
158C GLU* 1.3 77.6 - - + +
160C TYR* 1.3 64.4 + - - +
162C PHE* 3.4 10.0 + - + +
163C LEU* 3.2 34.6 + - + +
192C ILE* 5.0 2.9 - - + -
193C VAL* 4.0 20.6 - - + -
196C VAL* 3.8 39.3 - - + -
197C VAL* 6.1 0.7 - - + -
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Residues in contact with TYR 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98C VAL* 4.5 11.9 - - + -
99C ASP* 4.0 26.5 + - + +
102C ALA* 3.6 15.2 - - + +
103C SER* 3.8 22.2 - - - -
106C LEU* 4.0 23.6 - - + -
156C SER 2.9 13.6 + - - +
157C THR* 3.2 13.5 - - - +
159C ILE* 1.3 75.9 - - - +
161C ARG* 1.3 64.6 - - - +
163C LEU* 3.0 9.3 + - - +
164C VAL* 2.9 39.4 + - + +
186C ALA* 3.4 28.0 - - + +
189C PRO* 3.5 30.3 - - + -
190C GLY* 4.4 4.3 - - - -
193C VAL* 3.9 6.5 - - - +
443C ZDM 5.9 1.6 - - + -
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Residues in contact with ARG 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20C ARG* 4.9 6.9 - - - +
96C TYR* 3.0 51.8 + - + -
98C VAL* 3.8 27.6 - - + -
157C THR 3.2 5.8 + - - +
158C GLU* 2.8 35.6 + - - +
160C TYR* 1.3 78.2 - - - +
162C PHE* 1.3 80.0 + - - +
164C VAL* 2.9 8.7 + - - -
165C GLN* 2.5 78.7 + - - +
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Residues in contact with PHE 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158C GLU 3.2 8.8 + - - +
159C ILE* 3.7 14.1 - - + +
160C TYR 3.3 0.2 - - - -
161C ARG* 1.3 93.5 - - - +
163C LEU* 1.3 77.3 + - + +
165C GLN* 4.1 6.2 - - + +
166C LYS* 2.9 56.7 + - + +
168C MET* 5.5 0.4 - - - -
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Residues in contact with LEU 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159C ILE* 3.2 24.3 + - + +
160C TYR 3.0 7.5 + - - +
161C ARG 3.0 0.4 - - - -
162C PHE* 1.3 93.3 - - + +
164C VAL* 1.3 65.0 + - - +
166C LYS* 3.2 3.0 + - - -
167C LYS 3.1 5.4 + - - -
168C MET* 3.0 57.2 + - + -
189C PRO* 3.7 26.7 - - + +
192C ILE* 3.7 43.7 - - + -
193C VAL* 4.7 0.4 - - + -
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Residues in contact with VAL 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98C VAL* 4.2 19.3 - - + -
160C TYR* 2.9 49.9 + - + +
161C ARG* 3.6 9.6 - - - +
163C LEU* 1.3 75.8 - - - +
165C GLN* 1.3 62.9 + - + +
167C LYS* 3.3 12.8 + - - -
169C ILE* 4.1 20.1 - - + +
185C ALA 5.1 4.5 - - - +
189C PRO* 4.1 11.6 - - + +
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Residues in contact with GLN 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96C TYR* 3.9 24.4 + - - +
98C VAL* 5.3 2.7 - - + -
161C ARG* 2.5 61.0 + - + +
162C PHE* 4.1 6.2 - - + +
164C VAL* 1.3 74.1 - - + +
166C LYS* 1.3 53.4 + - - +
167C LYS* 2.7 19.1 + - - +
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Residues in contact with LYS 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162C PHE* 2.9 48.3 + - + +
163C LEU 3.2 2.9 + - - +
165C GLN* 1.3 72.9 - - - +
167C LYS* 1.3 68.5 + - - +
168C MET* 3.2 30.2 + - + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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