Contacts of the helix formed by residues 195 - 211 (chain B) in PDB entry 7KAC
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 LEU 195 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B HIS* 5.9 0.9 - - - +
193B ASN* 2.9 25.1 + - - +
194B GLU* 1.3 88.3 - - + +
196B CYS* 1.3 63.2 + - - +
197B ASP 3.2 0.2 - - - -
198B ILE* 3.2 17.6 + - + +
199B TRP 3.5 0.3 + - - -
259B PRO* 3.2 26.2 - - + +
260B LYS* 5.5 1.8 - - - +
262B ARG* 3.0 46.0 + - - +
263B PRO 3.4 25.6 - - - +
264B SER* 3.6 20.0 - - - +
265B ALA 5.1 0.2 - - - +
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Residues in contact with CYS 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A ALA* 4.1 5.4 - - + +
182A GLU* 4.0 7.0 + - - +
183A VAL* 3.6 26.9 - - + -
134B ILE* 3.7 25.6 - - - -
136B ARG* 4.2 11.9 - - - -
192B TYR* 4.0 12.8 - - + -
193B ASN 3.0 18.8 + - - +
195B LEU* 1.3 77.5 - - - +
197B ASP* 1.4 61.0 + - - +
199B TRP* 3.3 5.0 + - - +
200B SER* 3.1 30.6 + - - -
262B ARG* 3.9 9.8 - - - +
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Residues in contact with ASP 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B LEU* 3.7 25.5 - - + +
129B HIS* 2.9 27.9 + - + +
134B ILE* 3.6 6.7 - - - +
135B HIS* 2.9 25.0 + - - +
136B ARG* 2.8 30.0 + - - -
138B ILE* 4.1 7.4 - - + +
194B GLU 3.1 11.4 + - - +
196B CYS* 1.4 74.3 - - - +
198B ILE* 1.3 59.4 + - - +
200B SER* 3.5 7.8 + - - -
201B LEU* 3.0 27.9 + - - +
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Residues in contact with ILE 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B LEU* 4.2 12.6 - - + -
125B LEU* 4.3 9.0 - - + -
129B HIS* 4.6 5.2 - - + -
194B GLU 4.7 1.1 - - - +
195B LEU* 3.2 25.7 + - + +
197B ASP* 1.3 73.4 - - - +
199B TRP* 1.4 64.1 + - - +
201B LEU* 3.3 7.5 + - + +
202B GLY 3.2 16.3 + - - -
254B THR* 3.7 33.9 - - + +
262B ARG* 4.1 6.5 - - + -
263B PRO* 3.5 24.7 - - + +
264B SER 4.0 0.4 - - - -
265B ALA* 3.6 37.2 - - + +
268B MET* 4.2 8.1 - - + -
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Residues in contact with TRP 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A TYR 5.2 0.4 + - - -
178A TRP 3.7 4.0 - - - -
179A MET 3.5 11.1 + - - -
180A ALA* 3.5 28.3 - - + -
181A PRO* 3.7 31.4 - - + -
195B LEU 3.5 3.0 + - - -
196B CYS 3.3 9.3 + - - +
198B ILE* 1.4 77.3 - - - +
200B SER* 1.3 63.3 + - - +
202B GLY 3.0 3.6 + - - -
203B ILE* 3.0 41.0 + - + +
227B MET* 5.5 3.7 - - + +
232B TYR* 4.1 14.8 - + - -
234B PRO* 4.0 20.4 - - + -
235B PRO* 4.0 17.0 - - + -
254B THR 3.5 11.7 + - - -
255B LEU* 3.3 42.9 - - + +
256B THR 3.8 9.0 - - - -
257B LYS* 4.1 2.7 - - - -
262B ARG* 3.7 24.7 - - - +
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Residues in contact with SER 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A TRP* 2.7 29.0 + - - +
179A MET* 4.6 2.3 - - - -
180A ALA 4.7 0.3 + - - -
136B ARG* 5.4 4.5 + - - -
137B ASP* 5.7 0.2 - - - -
138B ILE* 3.6 29.4 + - - -
196B CYS* 3.1 18.0 + - - +
197B ASP* 3.7 8.3 + - - -
198B ILE 3.4 0.2 - - - -
199B TRP* 1.3 75.8 - - - +
201B LEU* 1.3 56.5 + - - +
203B ILE* 3.3 4.9 + - - +
204B THR* 2.8 33.4 + - - -
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Residues in contact with LEU 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B VAL* 5.9 1.3 - - + -
118B CYS* 4.2 20.2 - - - +
121B VAL* 3.7 32.3 - - + -
122B LEU* 3.5 39.9 - - + -
125B LEU* 4.7 4.9 - - + -
138B ILE* 3.9 11.8 - - + +
197B ASP 3.0 14.2 + - - +
198B ILE* 3.5 10.5 - - - +
199B TRP 3.2 0.4 - - - -
200B SER* 1.3 76.9 - - - +
202B GLY* 1.3 56.4 + - - +
204B THR* 3.2 9.0 + - + -
205B ALA* 2.9 27.4 + - - +
250B PHE* 4.0 20.2 - - + -
254B THR* 5.1 2.7 - - + -
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Residues in contact with GLY 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198B ILE 3.2 4.8 + - - -
199B TRP 3.0 8.2 + - - -
201B LEU* 1.3 79.1 - - - +
203B ILE* 1.3 59.8 + - - +
205B ALA* 3.3 9.3 + - - +
206B ILE* 3.3 24.6 + - - +
250B PHE* 4.9 0.9 - - - -
251B ILE* 3.8 5.1 - - - +
254B THR* 3.3 27.0 + - - -
255B LEU* 4.0 10.8 - - - -
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Residues in contact with ILE 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A TYR 3.5 21.5 - - - +
178A TRP* 3.5 23.8 - - + -
199B TRP* 3.0 44.7 + - + +
200B SER 3.3 6.3 + - - +
202B GLY* 1.3 74.7 - - - +
204B THR* 1.4 57.5 + - - +
206B ILE* 3.2 7.8 + - + +
207B GLU* 2.9 25.1 + - - +
213B PRO* 3.7 17.3 - - + +
214B PRO* 3.9 10.3 - - + -
227B MET* 6.0 2.0 - - + -
235B PRO* 3.8 25.1 - - + -
255B LEU* 3.7 14.1 - - + -
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Residues in contact with THR 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A TRP* 3.5 2.8 - - - -
117B VAL* 5.8 0.2 - - + -
138B ILE* 3.6 4.3 + - + +
139B LYS* 3.3 21.0 + - - -
140B GLY* 3.7 24.5 - - - +
143B ILE* 3.8 22.0 - - + -
200B SER 2.8 18.2 + - - -
201B LEU* 3.2 16.3 + - + -
203B ILE* 1.4 73.5 - - - +
205B ALA* 1.3 58.1 + - - +
207B GLU* 3.1 11.5 + - - +
208B LEU* 2.9 45.4 + - + +
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Residues in contact with ALA 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B ILE* 4.1 9.4 - - + +
118B CYS* 4.0 19.9 - - - -
201B LEU* 2.9 12.9 + - - +
202B GLY* 3.5 11.0 - - - +
203B ILE 3.3 0.2 - - - -
204B THR* 1.3 75.9 - - - +
206B ILE* 1.4 60.1 + - - +
208B LEU* 3.4 6.7 + - - +
209B ALA* 3.2 21.8 + - - +
247B PHE* 3.9 18.6 - - + -
250B PHE* 4.5 2.5 - - + -
251B ILE* 3.6 17.9 - - + -
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Residues in contact with ILE 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202B GLY 3.3 7.1 + - - +
203B ILE* 3.2 10.2 + - - +
205B ALA* 1.4 72.8 - - - +
207B GLU* 1.3 61.6 + - - +
209B ALA* 3.1 6.0 + - - +
210B GLU* 2.8 55.2 + - - +
212B GLN 4.0 4.3 - - - +
214B PRO* 3.8 35.0 - - + -
235B PRO* 4.5 0.2 - - + -
236B ARG 4.3 16.8 - - - +
237B LEU* 4.2 12.3 - - + -
251B ILE* 3.9 32.1 - - + -
255B LEU* 3.9 15.9 - - + -
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Residues in contact with GLU 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178A TRP* 3.0 31.6 + - + +
100B GLN* 4.4 5.7 - - - +
103B TYR* 2.6 36.9 + - + +
140B GLY* 3.0 35.8 + - - -
141B ALA 4.4 0.3 + - - -
203B ILE 2.9 12.9 + - - +
204B THR* 3.1 12.6 + - - +
206B ILE* 1.3 76.9 - - - +
208B LEU* 1.3 56.8 + - - +
211B LEU* 2.9 29.5 + - - -
212B GLN 3.5 13.9 + - - +
213B PRO* 4.1 15.9 - - + -
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Residues in contact with LEU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B LEU* 4.0 24.0 - - + -
103B TYR* 4.0 27.1 - - + -
108B SER* 3.8 3.6 - - - -
109B LEU* 3.0 45.7 + - + +
114B ILE* 3.8 28.0 - - + -
117B VAL* 4.0 28.0 - - + -
118B CYS* 5.7 0.9 - - - -
140B GLY* 4.8 2.9 - - - -
204B THR* 2.9 34.9 + - + +
205B ALA* 3.8 5.2 - - - +
206B ILE 3.2 0.2 - - - -
207B GLU* 1.3 75.1 - - - +
209B ALA* 1.3 61.3 + - - +
211B LEU* 4.5 2.6 + - - +
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Residues in contact with ALA 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108B SER* 2.6 25.8 + - - -
114B ILE* 3.7 11.8 - - + +
205B ALA 3.2 12.8 + - - +
206B ILE 3.1 7.9 + - - +
208B LEU* 1.3 78.8 - - - +
210B GLU* 1.3 59.0 + - + +
211B LEU 3.8 0.2 - - - -
237B LEU* 4.0 19.1 - - + -
242B LYS* 4.2 4.2 + - - -
243B TRP* 3.6 30.0 - - + -
247B PHE* 4.2 2.0 - - + -
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Residues in contact with GLU 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B SER* 5.4 0.2 - - - -
206B ILE* 2.8 35.5 + - - +
209B ALA* 1.3 82.4 - - + +
211B LEU* 1.3 64.6 + - - +
212B GLN* 3.1 18.5 + - + +
214B PRO* 5.7 2.1 - - - +
236B ARG 5.0 1.0 - - - +
237B LEU* 3.3 15.9 - - + +
238B LYS* 2.8 63.8 + - + +
239B GLU 4.7 0.5 + - - -
243B TRP* 5.3 3.6 + - + +
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Residues in contact with LEU 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B TYR* 3.6 51.2 + - + +
104B GLN* 6.2 0.7 - - - -
107B GLY* 3.6 13.2 - - - -
108B SER* 3.4 37.0 - - - +
207B GLU 2.9 15.9 + - - -
208B LEU 4.7 2.2 - - - +
210B GLU* 1.3 78.6 - - - +
212B GLN* 1.3 65.3 + - + +
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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
------------------------------------------------------------
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