Contacts of the helix formed by residues 174 - 194 (chain A) in PDB entry 1QWN
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 HIS 174 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A SER* 1.3 74.1 - - - +
175A TRP* 1.3 90.2 + + - +
176A ARG* 3.1 49.0 + - - +
177A ASN* 2.9 19.2 + - - +
178A VAL* 3.0 11.1 + - - +
430A ARG* 3.6 31.9 - - - +
433A MET* 3.5 29.8 - - + +
469A GLN* 4.5 2.8 + - - -
809A ASN* 3.6 7.6 - - - -
810A GLY* 3.7 18.5 + - - -
833A SER* 5.3 1.8 - - - -
926A LEU* 3.9 20.2 - - + +
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Residues in contact with TRP 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A HIS* 1.3 92.2 + + - +
176A ARG* 1.3 78.6 + - + +
178A VAL* 3.2 9.7 + - - +
179A LEU* 2.9 39.6 + - + +
211A THR* 3.7 23.3 - - + -
214A TYR* 5.6 2.7 - + - -
215A ILE* 3.6 13.7 - - + +
809A ASN* 2.8 33.9 + - + +
810A GLY 3.7 13.6 + - - -
811A LEU* 3.7 25.5 - - + +
960A SER* 3.5 33.9 - - - -
978A VAL* 4.2 0.9 - - + -
980A HIS* 3.9 21.2 - + + -
1014A LEU* 5.5 2.2 - - + -
1036A THR* 4.0 28.0 - - + -
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Residues in contact with ARG 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A HIS* 3.1 27.0 + - - +
175A TRP* 1.3 110.3 - - + +
177A ASN* 1.3 59.1 + - - +
179A LEU* 3.5 4.9 + - - +
180A LEU* 2.9 25.1 + - - +
433A MET* 3.7 37.4 + - + +
434A HIS* 4.5 0.2 - - - +
437A ARG* 3.3 35.5 - - - +
926A LEU* 4.8 3.4 - - - +
927A ASP* 2.8 42.0 + - - -
958A ASP* 5.1 2.7 + - - -
960A SER* 4.4 16.5 + - - +
961A VAL* 6.0 3.8 - - + -
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Residues in contact with ASN 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A HIS* 2.9 9.6 + - - +
176A ARG* 1.3 76.6 - - - +
178A VAL* 1.3 66.0 + - - +
179A LEU 3.2 0.2 - - - -
180A LEU* 3.6 9.1 - - + +
181A GLN* 3.0 26.3 + - - +
429A ASP* 3.6 26.7 + - - -
433A MET* 3.5 39.1 - - - +
465A LEU* 3.4 26.1 - - + +
469A GLN* 3.5 27.7 + - + +
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Residues in contact with VAL 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A PRO* 4.5 5.4 - - + -
169A ASP 4.6 3.1 - - - +
173A SER* 3.5 28.7 - - - +
174A HIS 3.0 17.2 + - - +
175A TRP* 3.2 8.7 + - - +
177A ASN* 1.3 76.2 - - - +
179A LEU* 1.3 63.2 + - - +
181A GLN* 3.1 20.3 + - - +
182A LEU* 3.1 22.4 + - + +
211A THR* 5.3 1.1 - - + -
212A MET* 3.6 40.4 - - + -
215A ILE* 3.7 20.0 - - + -
469A GLN* 5.3 0.9 - - - -
809A ASN* 4.8 4.5 - - - +
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Residues in contact with LEU 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A TRP* 2.9 36.1 + - + +
176A ARG* 3.7 6.3 - - - +
178A VAL* 1.3 79.1 - - - +
180A LEU* 1.3 63.1 + - - +
182A LEU* 3.6 4.0 - - + +
183A THR* 2.8 42.0 + - - +
215A ILE* 4.2 22.9 - - + +
961A VAL* 5.0 7.9 - - + -
978A VAL* 4.1 21.8 - - + -
1014A LEU* 3.7 43.1 - - + +
1015A THR* 4.4 7.4 - - + +
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Residues in contact with LEU 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ARG 2.9 19.5 + - - +
177A ASN* 3.6 10.1 - - + +
178A VAL 3.3 0.2 - - - -
179A LEU* 1.3 77.7 - - - +
181A GLN* 1.3 56.8 + - - +
183A THR* 3.3 5.8 + - - -
184A GLU* 2.9 27.9 + - - +
436A VAL* 4.3 9.0 - - + -
440A GLU* 4.3 3.1 - - - +
462A ARG* 3.9 34.3 - - + +
465A LEU* 3.7 32.8 - - + -
466A SER* 3.8 14.4 - - - +
961A VAL* 6.2 1.3 - - + -
963A ARG* 3.5 28.0 - - - +
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Residues in contact with GLN 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162A THR* 5.7 2.2 - - - +
164A GLY* 3.5 2.8 - - - -
165A TRP* 3.0 45.9 + - + +
166A VAL* 3.1 29.2 + - + +
168A PRO* 3.6 23.2 - - + +
177A ASN 3.0 16.6 + - - +
178A VAL* 3.1 25.2 + - - +
180A LEU* 1.3 74.7 - - - +
182A LEU* 1.3 82.9 + - - +
184A GLU* 3.3 0.8 + - - -
185A GLY 3.1 10.0 + - - -
212A MET* 5.3 1.4 - - - +
466A SER* 3.3 35.6 + - - +
469A GLN* 4.3 8.1 - - + -
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Residues in contact with LEU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162A THR* 3.8 39.0 - - + +
163A GLY 4.0 0.3 - - - +
164A GLY* 4.0 5.8 - - - +
178A VAL* 3.1 15.5 + - + +
179A LEU* 3.6 4.3 - - + +
181A GLN* 1.3 91.7 - - - +
183A THR* 1.3 57.8 + - - +
185A GLY* 3.4 0.5 + - - -
186A GLN* 2.9 45.2 + - + +
215A ILE* 4.0 18.8 - - + -
216A LEU* 4.2 13.5 - - + -
219A SER* 4.0 29.4 - - - +
221A PHE* 4.4 6.1 - - + -
1015A THR* 4.2 11.2 - - + -
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Residues in contact with THR 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A LEU* 2.8 40.6 + - - +
180A LEU* 3.6 6.5 - - - -
182A LEU* 1.3 78.3 - - - +
184A GLU* 1.3 56.4 + - - +
186A GLN* 4.5 0.7 - - - +
187A THR* 2.7 44.7 + - - +
963A ARG* 3.8 26.0 + - - +
1014A LEU 4.2 0.9 + - - -
1015A THR* 3.6 38.9 - - - +
1016A PHE* 4.9 1.1 - - + -
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Residues in contact with GLU 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A TRP* 3.9 18.0 - - + -
180A LEU 2.9 16.9 + - - +
181A GLN 3.7 4.7 - - - +
182A LEU 3.3 0.2 - - - -
183A THR* 1.3 79.1 - - - +
185A GLY* 1.3 61.6 + - - +
187A THR* 4.1 3.5 - - - -
188A TRP* 3.3 19.9 + - - +
459A GLU* 4.2 8.1 - - - +
462A ARG* 3.0 39.2 + - - +
463A ARG* 2.8 51.1 + - + +
466A SER* 4.1 12.1 - - - +
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Residues in contact with GLY 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ILE* 3.7 15.4 - - - +
163A GLY 3.0 17.9 - - - -
165A TRP* 3.8 15.1 - - - +
181A GLN 3.1 8.9 + - - -
184A GLU* 1.3 81.0 - - - +
186A GLN* 1.3 57.5 + - - +
188A TRP* 3.3 4.7 + - - +
189A LEU* 2.9 29.8 + - - +
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Residues in contact with GLN 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162A THR 2.9 23.3 + - - +
163A GLY* 3.6 12.3 - - - +
182A LEU* 2.9 30.3 + - + +
183A THR* 4.3 2.0 - - - +
185A GLY* 1.3 72.8 - - - +
187A THR* 1.3 61.5 + - - +
189A LEU* 3.7 7.4 - - - +
190A LYS* 2.9 25.6 + - - +
195A VAL 4.7 1.0 - - - +
196A THR* 3.6 19.1 + - + +
197A PRO* 3.4 21.9 + - + +
219A SER 4.6 3.3 - - - +
221A PHE* 3.3 23.2 - - - -
1015A THR* 3.9 16.3 + - + +
1017A LEU* 3.5 21.2 - - + +
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Residues in contact with THR 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183A THR* 2.7 35.3 + - - +
184A GLU* 4.1 4.5 - - - -
186A GLN* 1.3 76.6 - - - +
188A TRP* 1.3 63.0 + - - +
190A LYS* 3.4 2.4 + - - +
191A GLN* 3.1 30.0 + - + +
1015A THR 4.3 0.9 + - - -
1017A LEU* 3.8 25.9 - - + +
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Residues in contact with TRP 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ILE* 3.9 17.3 - - + -
134A PHE* 3.6 34.5 - + - -
135A ALA* 3.6 29.9 - - + +
138A TYR* 3.6 33.9 - + + -
139A HIS* 2.9 25.6 + - - -
165A TRP* 4.7 3.1 - + + -
184A GLU 3.3 12.4 + - - +
185A GLY 3.5 7.9 - - - +
186A GLN 3.3 0.2 - - - -
187A THR* 1.3 79.3 - - - +
189A LEU* 1.3 70.7 + - + +
191A GLN* 3.2 3.6 + - - -
192A PHE* 2.9 54.7 + + + -
193A MET* 3.9 18.8 - - + -
463A ARG* 3.9 23.8 - - - +
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Residues in contact with LEU 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ILE* 3.9 13.7 - - + -
160A PHE* 3.6 46.7 - - + -
163A GLY* 3.7 31.0 - - - +
185A GLY 2.9 18.1 + - - +
186A GLN* 3.3 6.3 + - - +
188A TRP* 1.3 95.6 - - + +
190A LYS* 1.3 58.8 + - - +
193A MET* 2.9 30.7 + - + +
194A ASN 2.9 6.6 + - - -
195A VAL* 3.5 13.8 + - + +
197A PRO* 3.9 18.6 - - + -
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Residues in contact with LYS 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186A GLN 2.9 18.3 + - - +
187A THR 3.8 3.6 - - - +
189A LEU* 1.3 76.3 - - - +
191A GLN* 1.3 64.9 + - - +
194A ASN* 3.2 25.6 + - - +
195A VAL 3.6 9.8 + - - +
196A THR* 4.4 14.6 - - - +
1016A PHE 5.4 0.2 + - - -
1017A LEU* 2.8 54.6 + - + +
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Residues in contact with GLN 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187A THR* 3.1 23.1 + - + +
188A TRP* 3.7 4.6 - - - +
190A LYS* 1.3 80.3 - - - +
192A PHE* 1.3 95.3 + - + +
194A ASN* 4.8 0.9 + - - +
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Residues in contact with PHE 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A TYR* 4.1 19.7 - + + -
139A HIS* 3.6 20.6 - + - -
146A LYS* 6.5 0.4 - - - -
150A LYS* 3.7 26.5 - - - +
188A TRP* 2.9 69.8 + + + +
191A GLN* 1.3 117.4 - - + +
193A MET* 1.3 65.9 + - - +
194A ASN 3.6 0.4 - - - -
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Residues in contact with MET 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A PHE* 4.2 7.9 - - + -
138A TYR* 3.0 45.5 - - + -
149A MET* 4.0 9.6 - - + -
150A LYS* 3.6 27.6 - - + +
153A VAL* 3.8 35.6 - - + +
154A LYS* 6.1 0.7 - - - +
160A PHE* 4.0 12.3 - - + -
188A TRP* 3.9 20.0 - - + -
189A LEU* 2.9 17.1 + - + +
192A PHE* 1.3 75.3 - - - +
194A ASN* 1.3 72.4 + - - +
195A VAL* 3.3 23.5 + - + +
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Residues in contact with ASN 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A LYS* 4.6 3.6 - - - +
189A LEU 2.9 4.6 + - - -
190A LYS* 3.2 24.4 + - - +
191A GLN 4.8 0.9 + - - +
192A PHE 3.6 1.4 - - - -
193A MET* 1.3 80.0 - - - +
195A VAL* 1.3 63.8 + - - +
2001A NAG 1.4 79.1 + - + +
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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
------------------------------------------------------------
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