Contacts of the helix formed by residues 181 - 200 (chain A) in PDB entry 2QK9
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 THR 181 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A CYS* 3.7 8.5 - - - +
151A ASN* 3.5 9.0 - - - +
158A ALA* 4.2 3.2 - - - +
179A ARG* 3.5 39.2 + - + +
180A GLN* 1.3 81.1 - - - +
182A ASN* 1.3 65.7 + - - +
183A GLN 3.5 0.3 + - - -
184A ARG* 3.0 19.5 + - - +
185A ALA* 3.0 24.1 + - - +
29C G 3.3 24.2 - - - +
30C T 2.8 15.6 + - - -
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Residues in contact with ASN 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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146A GLY 4.8 1.6 - - - +
147A CYS 5.1 0.2 - - - -
148A CYS* 3.6 8.4 - - - +
151A ASN* 3.0 16.1 + - - +
181A THR* 1.3 71.1 - - - +
183A GLN* 1.3 78.6 + - - -
185A ALA* 3.0 5.8 + - - +
186A GLU* 2.8 26.2 + - - +
9B A 2.9 34.6 + - - +
10B C 3.1 35.8 + - - +
29C G 2.9 38.7 + - - +
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Residues in contact with GLN 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A THR 3.3 0.6 - - - -
182A ASN* 1.3 92.3 + - - +
184A ARG* 1.3 62.8 + - - +
186A GLU* 3.4 4.4 + - - +
187A ILE* 3.1 29.0 + - - +
211A SER* 4.7 3.8 + - - -
213A PHE* 3.3 52.0 - - + +
240A ASN* 4.3 1.8 - - - +
9B A 4.7 4.0 + - - -
29C G 3.1 43.5 + - - +
30C T 3.3 47.3 + - - +
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Residues in contact with ARG 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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176A LEU* 3.7 17.1 - - + +
177A PRO* 3.0 26.7 + - - +
178A GLY* 4.9 1.4 - - - -
179A ARG* 2.7 56.3 + - - +
181A THR* 3.0 20.2 + - - +
183A GLN* 1.3 75.9 - - - +
185A ALA* 1.3 57.8 + - - +
187A ILE* 3.3 3.4 + - - -
188A HIS* 2.8 58.6 + - + -
240A ASN* 3.7 8.7 - - - +
243A ASP* 2.9 36.5 + - - +
1002A GOL 3.4 25.7 - - - -
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A GLY* 3.6 9.4 - - - -
147A CYS 3.6 13.0 - - - +
158A ALA* 4.1 1.6 - - + -
159A GLY 3.6 21.8 - - - +
160A ILE* 3.5 7.0 - - - +
176A LEU* 3.7 16.5 - - + +
181A THR 3.0 15.7 + - - +
182A ASN 3.0 4.6 + - - +
184A ARG* 1.3 76.8 - - - +
186A GLU* 1.3 65.1 + - - +
188A HIS 3.2 0.7 + - - -
189A ALA* 2.9 26.5 + - - +
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Residues in contact with GLU 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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144A THR* 4.6 2.9 + - - +
145A ASP* 3.5 5.9 - - - +
146A GLY* 2.7 37.6 + - - +
182A ASN 2.8 15.2 + - - +
183A GLN* 3.6 8.3 - - - +
185A ALA* 1.3 78.5 - - - +
187A ILE* 1.3 63.1 + - - +
189A ALA* 3.4 8.5 + - - +
190A ALA* 3.6 10.4 + - - +
209A THR* 4.2 10.4 + - - +
210A ASN* 4.9 0.2 + - - -
211A SER* 2.9 39.5 - - - +
214A THR* 3.8 4.0 + - - +
9001A NA 2.5 25.9 - - - -
9B A 2.6 24.1 + - - +
10B C 3.8 0.3 - - - +
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Residues in contact with ILE 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 GLN 3.1 16.7 + - - +
184A ARG 3.8 3.4 - - - +
186A GLU* 1.3 76.5 - - - +
188A HIS* 1.3 63.6 + - + +
190A ALA* 3.2 7.8 + - - +
191A CYS* 3.1 20.7 + - - -
213A PHE* 3.6 17.3 - - + -
214A THR* 3.1 27.1 - - + +
240A ASN* 4.3 4.3 - - + +
243A ASP* 3.8 39.5 - - + +
244A PHE* 3.5 36.6 - - + +
247A LEU* 4.3 18.1 - - + +
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Residues in contact with HIS 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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160A ILE* 4.0 4.2 - - + +
176A LEU* 3.6 22.0 - - + +
177A PRO* 6.2 0.4 - - - +
184A ARG* 2.8 53.4 + - - +
185A ALA 4.0 1.1 - - - +
187A ILE* 1.3 69.9 - - - +
189A ALA* 1.3 64.3 + - - +
190A ALA 3.2 0.2 - - - -
191A CYS* 3.2 13.1 + - - +
192A LYS* 3.0 23.0 + - - +
242A GLU 6.0 0.2 - - - -
243A ASP* 2.9 41.9 + - + +
246A ALA* 4.8 8.3 - - + -
1003A GOL 3.0 38.1 + - - +
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Residues in contact with ALA 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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144A THR* 3.7 7.1 - - - +
145A ASP* 3.3 42.6 - - - +
160A ILE* 3.7 17.2 - - + +
161A GLY 4.1 3.4 - - - +
162A VAL* 3.6 7.9 - - - +
185A ALA 2.9 15.4 + - - +
186A GLU 3.8 4.7 - - - +
187A ILE 3.2 0.2 - - - -
188A HIS* 1.3 76.7 - - - +
190A ALA* 1.3 62.8 + - - +
192A LYS* 3.3 5.1 + - - +
193A ALA 3.1 17.3 + - - -
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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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144A THR* 4.0 12.9 - - - +
186A GLU 3.6 8.0 + - - +
187A ILE 3.2 9.7 + - - +
189A ALA* 1.3 78.4 - - - +
191A CYS* 1.3 65.3 + - - +
193A ALA* 3.2 2.4 + - - +
194A ILE* 3.2 27.6 + - - +
207A LEU* 3.9 8.7 - - + +
209A THR* 5.9 0.9 - - - -
214A THR* 4.6 5.2 - - + -
247A LEU* 4.6 2.7 - - + -
258A TRP* 3.8 34.1 - - + -
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Residues in contact with CYS 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 ILE* 3.1 22.4 + - - -
188A HIS* 3.2 18.3 + - - +
190A ALA* 1.3 75.6 - - - +
192A LYS* 1.3 59.2 + - - +
194A ILE* 3.1 5.5 + - - +
195A GLU* 2.8 30.7 + - - +
243A ASP 4.7 0.4 - - - -
246A ALA 4.4 1.6 - - - -
247A LEU* 3.7 39.9 - - - -
250A LEU* 3.4 22.4 - - + +
1003A GOL 3.6 21.8 - - - +
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Residues in contact with LYS 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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160A ILE* 3.9 16.8 - - + -
162A VAL* 3.8 15.0 - - + -
172A VAL* 4.2 8.1 - - + -
174A ILE* 3.7 25.4 - - + +
188A HIS 3.0 12.6 + - - +
189A ALA 3.4 9.2 - - - +
191A CYS* 1.3 77.6 - - - +
193A ALA* 1.3 62.5 + - - +
195A GLU* 3.4 14.8 + - - +
196A GLN* 2.9 53.3 + - + +
1003A GOL 3.9 26.8 + - - +
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Residues in contact with ALA 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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142A VAL* 4.1 17.7 - - + -
144A THR* 3.7 29.8 - - + -
162A VAL* 3.9 20.2 - - + +
164A TRP* 3.5 6.4 - - - -
189A ALA 3.1 6.3 + - - -
190A ALA 3.7 5.6 - - - +
191A CYS 3.2 0.4 - - - -
192A LYS* 1.3 77.0 - - - +
194A ILE* 1.3 59.6 + - - +
196A GLN* 3.1 3.5 + - - -
197A ALA* 2.8 29.5 + - - +
205A LEU* 4.7 1.3 - - + -
207A LEU* 4.3 4.5 - - + -
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Residues in contact with ILE 194 (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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190A ALA 3.2 14.3 + - - +
191A CYS* 3.1 6.4 + - - +
193A ALA* 1.3 75.4 - - - +
195A GLU* 1.3 64.6 + - - +
197A ALA* 3.0 8.6 + - - +
198A LYS* 3.0 26.4 + - - +
205A LEU* 4.1 11.9 - - + -
207A LEU* 4.3 3.8 - - + -
247A LEU* 3.7 26.5 - - + -
250A LEU* 3.5 32.3 - - + +
251A THR* 4.1 5.4 - - + -
254A MET* 4.1 17.7 - - + -
256A ILE* 3.5 27.8 - - + -
258A TRP* 4.5 5.4 - - + -
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Residues in contact with GLU 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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191A CYS 2.8 14.3 + - - +
192A LYS* 3.6 17.8 + - + +
194A ILE* 1.3 78.0 - - - +
196A GLN* 1.3 62.2 + - - +
198A LYS* 3.2 7.9 + - - +
199A THR* 3.1 21.5 + - - +
250A LEU* 4.2 21.4 - - + +
1003A GOL 3.0 46.6 + - - -
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Residues in contact with GLN 196 (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 VAL* 3.4 16.6 - - - +
164A TRP* 2.8 34.1 + - + -
170A LEU* 3.1 36.9 + - + +
172A VAL* 3.7 18.6 - - - +
192A LYS* 2.9 39.8 + - + +
193A ALA 3.6 3.1 - - - +
195A GLU* 1.3 76.7 - - + +
197A ALA* 1.3 64.1 + - - +
199A THR* 3.0 23.3 + - + +
200A GLN* 3.3 13.6 - - - +
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Residues in contact with ALA 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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164A TRP* 4.0 17.0 - - + -
193A ALA 2.8 14.4 + - - +
194A ILE* 3.0 14.3 + - - +
196A GLN* 1.3 78.2 - - - +
198A LYS* 1.3 60.7 + - - +
200A GLN* 3.0 10.2 + - - +
202A ILE* 2.9 43.4 + - + +
205A LEU* 4.1 17.9 - - + -
254A MET* 4.9 4.3 - - - -
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Residues in contact with LYS 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 ILE* 3.0 17.9 + - + +
195A GLU* 3.6 7.9 - - - +
197A ALA* 1.3 70.7 - - - +
199A THR* 1.3 60.6 + - - +
200A GLN 2.7 11.6 + - - -
201A ASN* 2.8 18.0 + - - +
202A ILE 4.2 4.7 - - - -
249A ARG 4.3 3.2 + - - -
250A LEU* 3.0 43.6 + - + +
252A GLN* 3.0 17.7 + - - +
254A MET* 3.5 34.8 - - + -
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Residues in contact with THR 199 (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* 5.5 4.7 - - + -
195A GLU* 3.1 13.6 + - - +
196A GLN* 3.1 18.1 - - + +
198A LYS* 1.3 78.3 - - - +
200A GLN* 1.3 65.1 + - + +
201A ASN* 3.5 4.2 + - - +
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Residues in contact with GLN 200 (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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164A TRP* 4.8 8.1 - - - -
168A HIS* 5.2 5.3 + - - -
170A LEU* 3.2 33.1 - - - +
196A GLN 3.3 16.3 - - - +
197A ALA* 3.0 6.0 + - - +
198A LYS 2.7 2.0 + - - -
199A THR* 1.3 91.2 - - + +
201A ASN* 1.3 79.0 + - - +
202A ILE* 3.1 27.3 + - + +
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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
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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