Contacts of the helix formed by residues 181 - 198 (chain A) in PDB entry 1CXQ
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 PRO 181 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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176A PHE* 3.5 42.4 - - + -
179A ARG* 3.6 14.8 - - - +
180A ILE* 1.3 89.8 - - + +
182A THR* 1.3 67.8 + - - +
183A SER* 3.2 6.3 - - - +
184A LYS* 2.9 24.0 + - + -
185A GLN* 3.4 7.4 + - - +
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Residues in contact with THR 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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73A PRO* 4.0 17.2 - - + +
179A ARG* 2.9 24.2 + - - +
180A ILE 3.3 1.0 + - - -
181A PRO* 1.3 70.9 - - - +
183A SER* 1.3 61.3 + - - +
184A LYS 3.1 1.7 + - - -
185A GLN* 3.3 32.1 + - - +
186A GLY 4.6 1.6 + - - -
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Residues in contact with SER 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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181A PRO* 4.6 5.4 - - - +
182A THR* 1.3 77.5 - - - +
184A LYS* 1.3 79.9 + - - +
186A GLY 5.2 1.6 + - - -
187A GLU* 6.1 1.2 - - - +
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Residues in contact with LYS 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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174A ASP* 6.1 0.2 - - - +
176A PHE* 4.1 26.5 - - + -
180A ILE* 4.0 11.4 - - + -
181A PRO* 2.9 17.3 + - + +
183A SER* 1.3 94.8 - - - +
185A GLN* 1.3 64.2 + - - +
186A GLY 3.5 2.0 + - - -
187A GLU* 3.7 7.0 + - - +
188A LEU* 3.2 22.7 + - + +
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Residues in contact with GLN 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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70A ARG 3.8 0.4 + - - -
71A MET* 3.2 34.9 - - - +
72A ALA 2.9 27.3 + - - +
73A PRO* 4.9 0.5 - - - +
74A ARG* 5.0 2.4 + - - +
92A GLN* 3.2 25.3 + - - +
179A ARG* 3.7 3.8 - - - +
180A ILE* 2.9 34.0 + - + -
181A PRO 3.5 9.9 - - - +
182A THR* 3.3 22.3 + - - +
184A LYS* 1.3 75.2 - - - +
186A GLY* 1.3 68.8 + - - +
188A LEU* 3.2 1.8 + - - +
189A LEU* 2.8 25.6 + - - +
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Residues in contact with GLY 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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74A ARG* 6.1 1.3 - - - -
92A GLN* 4.2 9.8 + - - -
182A THR 4.6 2.2 + - - -
183A SER 5.2 1.4 + - - -
184A LYS 3.5 0.6 - - - -
185A GLN* 1.3 79.2 - - - +
187A GLU* 1.3 58.7 + - - +
189A LEU* 3.4 3.9 + - - +
190A ALA* 3.0 28.5 + - - +
301A GOL 4.3 5.2 + - - -
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Residues in contact with GLU 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 SER 5.8 0.2 + - - -
184A LYS* 3.7 7.6 + - - +
185A GLN 3.3 0.6 - - - -
186A GLY* 1.3 75.9 - - - +
188A LEU* 1.3 57.7 + - - +
190A ALA* 3.7 6.3 - - - +
191A LYS* 2.9 33.1 + - - +
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Residues in contact with LEU 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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71A MET* 3.9 16.2 - - + -
167A ILE* 4.0 26.7 - - + +
170A LEU* 4.0 15.9 - - + +
171A ALA* 3.7 29.6 - - + +
174A ASP* 4.1 17.3 - - - +
176A PHE* 4.7 3.4 - - + -
180A ILE* 4.0 19.5 - - + -
184A LYS* 3.2 17.1 + - + +
185A GLN* 3.2 7.2 + - - +
187A GLU* 1.3 77.7 - - - +
189A LEU* 1.3 57.3 + - - +
191A LYS* 3.2 11.6 + - + +
192A ALA* 2.9 24.8 + - - +
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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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71A MET* 3.9 12.5 - - + +
77A LEU* 4.4 5.8 - - + -
90A VAL* 3.9 39.0 - - + +
91A THR* 4.3 2.9 - - - -
92A GLN* 4.1 41.3 - - + +
163A LEU* 4.7 1.8 - - + -
167A ILE* 3.9 27.4 - - + -
185A GLN 2.8 17.0 + - - +
186A GLY* 3.8 5.2 - - - +
188A LEU* 1.3 77.4 - - - +
190A ALA* 1.3 63.9 + - - +
192A ALA* 3.2 6.6 + - - +
193A MET* 3.0 21.5 + - - +
301A GOL 4.5 8.5 - - - +
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Residues in contact with ALA 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 GLY 3.0 17.6 + - - +
187A GLU* 3.7 8.1 - - - +
189A LEU* 1.3 76.4 - - - +
191A LYS* 1.3 57.8 + - - +
193A MET* 3.3 3.9 + - - +
194A TYR* 2.9 29.3 + - - +
301A GOL 3.5 27.3 + - - +
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Residues in contact with LYS 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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170A LEU* 3.8 32.3 - - + +
174A ASP* 4.4 19.2 + - - -
187A GLU* 2.9 21.9 + - - +
188A LEU* 3.2 11.5 + - + +
190A ALA* 1.3 77.2 - - - +
192A ALA* 1.3 56.0 + - - +
194A TYR* 3.4 17.1 + - + +
195A ALA* 2.9 29.2 + - + +
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Residues in contact with ALA 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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163A LEU* 3.9 20.9 - - + -
166A LYS* 4.0 12.1 - - + -
167A ILE* 4.0 17.0 - - + -
170A LEU* 3.6 16.3 - - + +
188A LEU 2.9 12.0 + - - +
189A LEU* 3.2 8.0 + - - +
191A LYS* 1.3 77.1 - - - +
193A MET* 1.3 61.6 + - - +
195A ALA* 3.2 1.9 + - - +
196A LEU* 3.1 29.3 + - - +
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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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88A ILE* 3.4 28.9 - - + +
89A VAL* 4.0 16.4 - - + -
90A VAL* 3.8 32.5 - - + -
111A VAL* 4.5 12.3 - - + -
163A LEU* 4.7 2.8 - - - +
189A LEU 3.0 13.4 + - - +
190A ALA* 3.6 9.2 - - - +
192A ALA* 1.3 73.0 - - - +
194A TYR* 1.3 65.4 + - - +
196A LEU* 3.3 5.4 + - - +
197A ASN* 3.0 37.5 + - - +
301A GOL 4.1 32.1 - - - +
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Residues in contact with TYR 194 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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190A ALA 2.9 17.2 + - - +
191A LYS* 3.5 19.5 - - + +
193A MET* 1.3 76.1 - - - +
195A ALA* 1.3 77.9 + - + +
197A ASN 3.2 0.2 + - - -
198A HIS* 3.0 64.3 + + + +
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Residues in contact with ALA 195 (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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166A LYS* 3.9 33.3 + - + +
170A LEU* 5.3 2.9 - - + -
191A LYS* 2.9 18.6 + - + +
192A ALA* 3.2 5.8 + - - +
194A TYR* 1.3 88.8 - - + +
196A LEU* 1.3 63.9 + - - +
198A HIS 4.1 9.2 - - - +
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Residues in contact with LEU 196 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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86A SER 5.4 3.1 - - - +
88A ILE* 4.1 32.2 - - + +
162A LEU* 4.0 27.6 - - + +
163A LEU* 3.8 39.5 - - + +
166A LYS* 4.2 22.7 - - + -
192A ALA 3.1 17.9 + - - +
193A MET* 4.0 4.3 - - - +
195A ALA* 1.3 80.3 - - - +
197A ASN* 1.3 59.1 + - - +
198A HIS 5.5 0.2 - - - -
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Residues in contact with ASN 197 (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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86A SER 4.6 0.2 - - - +
87A ALA* 3.2 16.4 - - - +
88A ILE* 2.8 48.8 + - - +
111A VAL* 6.0 1.0 - - - +
193A MET* 3.0 33.3 + - - +
196A LEU* 1.3 80.5 - - - +
198A HIS* 1.3 86.7 + - + +
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Residues in contact with HIS 198 (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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194A TYR* 3.0 53.0 + + + +
195A ALA* 4.1 9.2 - - - +
196A LEU 3.8 0.4 - - - -
197A ASN* 1.3 110.1 + - + +
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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
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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