Contacts of the helix formed by residues 194 - 213 (chain B) in PDB entry 3ZUT
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 ASP 194 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B GLU* 4.8 2.1 - - - +
193B TYR* 1.3 75.7 - - - +
195B GLY* 1.3 62.6 + - - +
196B LYS* 2.7 31.7 + - - +
197B VAL* 3.3 33.9 + - + +
198B ALA* 3.3 11.4 + - - +
262B PRO* 6.3 1.7 - - + +
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Residues in contact with GLY 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B CYS* 4.3 7.5 - - - +
138B HIS* 3.8 28.7 - - - +
193B TYR* 3.5 10.3 + - - -
194B ASP* 1.3 72.7 + - - +
196B LYS* 1.3 60.3 + - - +
197B VAL 3.3 0.2 - - - -
198B ALA* 3.3 6.4 + - - +
199B ASP* 2.9 32.2 + - - +
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Residues in contact with LYS 196 (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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132B HIS* 3.0 73.7 + - + +
135B GLN* 3.1 23.7 + - - +
137B CYS* 4.1 23.5 - - + +
194B ASP* 2.7 21.6 + - - +
195B GLY* 1.3 71.2 - - - +
197B VAL* 1.3 61.7 + - + +
199B ASP* 3.2 11.8 + - - +
200B VAL* 3.2 14.3 + - - +
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Residues in contact with VAL 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B GLU* 4.1 0.4 - - - +
194B ASP* 3.3 29.2 + - + +
195B GLY 3.3 0.8 - - - -
196B LYS* 1.3 74.7 - - + +
198B ALA* 1.3 66.3 + - - +
200B VAL* 3.2 19.4 + - + +
201B TRP 3.4 3.5 + - - -
262B PRO* 3.6 36.6 - - + +
265B ARG* 3.0 41.4 + - + +
266B ILE 5.7 0.4 - - - +
267B SER* 6.4 3.1 - - - -
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Residues in contact with ALA 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B HIS* 4.0 15.5 - - + +
182B TYR 5.1 1.2 - - - +
184B ALA* 4.1 6.4 - - + +
186B GLU* 3.8 10.7 + - - +
187B VAL* 3.8 29.2 - - + -
193B TYR* 4.4 0.4 - - + -
194B ASP 3.3 11.5 + - - +
195B GLY* 3.6 9.9 - - - +
196B LYS 3.3 0.4 - - - -
197B VAL* 1.3 77.3 - - - +
199B ASP* 1.3 64.8 + - - +
201B TRP* 3.2 6.9 + - - +
202B SER* 3.1 19.8 + - - -
265B ARG* 4.1 2.0 - - - +
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Residues in contact with ASP 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B VAL* 4.6 3.4 - - + -
132B HIS* 2.9 27.2 + - + +
137B CYS 3.7 0.2 - - - -
138B HIS* 2.7 46.3 + - - +
141B LEU* 4.2 5.2 - - - +
143B LEU* 3.7 22.0 - - + +
195B GLY 2.9 10.0 + - - +
196B LYS 3.3 10.3 - - - +
197B VAL 3.1 0.2 - - - -
198B ALA* 1.3 77.8 - - - +
200B VAL* 1.3 56.9 + - - +
202B SER* 3.1 9.1 + - - -
203B CYS* 2.9 32.9 + - - -
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Residues in contact with VAL 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B LYS 3.2 13.2 + - - +
197B VAL* 3.2 13.6 + - + +
199B ASP* 1.3 73.0 - - - +
201B TRP* 1.3 66.8 + - - +
203B CYS* 3.2 9.6 + - - +
204B GLY 2.9 17.8 + - - -
257B ILE* 3.3 17.4 - - + +
265B ARG* 3.9 9.0 - - + -
266B ILE* 3.4 29.4 - - + +
267B SER* 4.5 1.8 - - - -
268B ILE* 3.8 33.8 - - + +
271B ILE* 4.0 15.7 - - + -
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Residues in contact with TRP 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B ALA 3.1 18.8 + - - -
182B TYR 3.8 9.2 - - - -
183B ILE 3.7 4.6 + - - -
184B ALA* 3.7 24.2 - - + -
185B PRO* 3.5 38.6 - - + -
197B VAL 3.4 2.4 + - - -
198B ALA 3.2 10.0 + - - +
200B VAL* 1.3 79.2 - - - +
202B SER* 1.3 64.9 + - - +
204B GLY* 2.9 13.0 + - - -
205B VAL* 3.0 18.5 + - + +
217B PHE* 3.3 39.7 - + - -
233B ILE* 4.0 17.3 - - + -
236B VAL* 4.3 6.3 - - + -
257B ILE* 3.8 24.2 - - - -
258B PHE* 3.7 26.9 - + - -
259B VAL 4.0 9.4 - - - -
265B ARG* 3.8 16.3 - - - +
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Residues in contact with SER 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B LEU* 3.5 24.7 - - - +
144B GLU* 4.3 3.9 + - - -
182B TYR* 3.1 46.8 - - - -
198B ALA 3.1 9.1 + - - -
199B ASP* 3.3 14.1 - - - -
201B TRP* 1.3 84.1 - - - +
203B CYS* 1.3 61.5 + - - +
205B VAL* 3.1 2.4 + - - -
206B THR* 3.1 18.9 + - - -
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Residues in contact with CYS 203 (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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121B PHE* 3.7 10.6 - - + -
124B LEU* 3.7 28.4 - - + +
125B ILE* 4.0 24.9 - - + -
128B VAL* 4.0 24.9 - - - -
143B LEU* 4.4 6.5 - - - -
199B ASP 2.9 20.1 + - - -
200B VAL* 3.2 10.5 + - + +
202B SER* 1.3 76.1 - - - +
204B GLY* 1.3 57.5 + - - +
206B THR* 3.3 4.5 + - - -
207B LEU* 2.9 28.2 + - - +
257B ILE* 5.5 1.3 - - + -
268B ILE* 5.0 0.9 - - - -
271B ILE* 5.9 0.9 - - + -
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Residues in contact with GLY 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200B VAL 2.9 6.9 + - - -
201B TRP 2.9 8.4 + - - -
203B CYS* 1.3 77.5 - - - +
205B VAL* 1.3 56.1 + - - +
207B LEU* 3.1 7.8 + - - +
208B TYR* 2.9 29.5 + - - +
254B ILE* 5.6 3.3 - - - +
257B ILE* 3.6 30.9 - - - +
258B PHE* 3.5 11.2 - - - -
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Residues in contact with VAL 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B ALA* 3.4 27.8 - - + +
182B TYR* 3.6 28.0 - - + -
201B TRP* 3.0 28.6 + - + +
202B SER 3.1 7.8 + - - +
204B GLY* 1.3 76.3 - - - +
206B THR* 1.3 56.2 + - - +
208B TYR* 3.2 4.0 + - - +
209B VAL* 2.9 27.2 + - - +
215B TYR* 4.0 11.0 - - + -
216B PRO* 3.9 21.2 - - + +
217B PHE* 4.7 0.7 - - + -
258B PHE* 3.8 15.7 - - + -
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Residues in contact with THR 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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102B LEU* 3.8 29.2 - - + -
124B LEU* 4.3 19.1 - - + +
143B LEU* 3.6 11.9 + - - +
146B THR* 5.0 4.0 - - - +
182B TYR* 2.7 32.1 + - - +
202B SER 3.1 6.8 + - - -
203B CYS* 3.6 9.1 - - - -
205B VAL* 1.3 76.6 - - - +
207B LEU* 1.3 62.0 + - - +
209B VAL* 3.0 21.4 - - + +
210B MET* 3.0 17.7 + - + +
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Residues in contact with LEU 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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117B ALA* 4.4 1.6 - - + -
121B PHE* 3.8 27.6 - - + -
203B CYS 2.9 13.5 + - - +
204B GLY* 3.1 9.8 + - - +
206B THR* 1.3 76.2 - - - +
208B TYR* 1.3 65.2 + - - +
210B MET* 3.3 18.6 + - + +
211B LEU* 3.1 40.1 + - + +
250B CYS* 5.0 1.6 - - - -
253B LEU* 4.0 23.1 - - + -
254B ILE* 3.9 23.6 - - + -
257B ILE* 4.7 4.5 - - + -
276B TRP* 3.7 28.3 - - + -
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Residues in contact with TYR 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204B GLY 2.9 15.3 + - - +
205B VAL 3.2 4.7 + - - +
207B LEU* 1.3 77.9 - - - +
209B VAL* 1.3 54.5 + - - +
211B LEU* 3.0 7.6 + - - -
212B VAL* 2.7 68.6 + - + +
214B ALA 3.2 23.6 - - - -
215B TYR 3.7 2.3 + - - -
216B PRO* 3.4 44.7 - - + +
238B TYR* 4.0 20.6 - + + -
239B ALA 3.3 24.3 + - - -
240B ILE* 4.1 12.1 - - + -
241B PRO* 4.1 0.5 - - - +
254B ILE* 4.9 12.5 - - + +
258B PHE* 4.1 13.0 - + + -
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Residues in contact with VAL 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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103B PHE* 4.2 17.7 - - + -
106B ILE* 3.6 21.4 - - + +
182B TYR* 4.6 2.5 - - - +
205B VAL 2.9 15.3 + - - +
206B THR* 3.0 27.8 - - + +
208B TYR* 1.3 78.2 - - - +
210B MET* 1.3 56.2 + - + +
213B GLY* 2.7 33.3 + - - -
214B ALA* 3.6 32.3 - - - +
215B TYR* 3.9 30.3 - - + +
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Residues in contact with MET 210 (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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102B LEU* 4.2 12.8 - - + -
106B ILE* 3.5 25.5 - - + +
111B ARG* 3.7 2.4 - - - +
112B PHE* 2.8 55.6 + - + +
117B ALA* 3.5 28.5 - - + +
120B PHE* 3.7 24.5 - - + -
121B PHE* 4.1 17.5 - - + +
124B LEU* 5.9 0.2 - - + -
206B THR* 3.0 29.3 + - + +
207B LEU* 3.6 17.3 - - + +
208B TYR 3.2 0.2 - - - -
209B VAL* 1.3 79.1 - - - +
211B LEU* 1.3 59.8 + - - +
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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
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111B ARG* 3.3 24.8 + - - +
112B PHE 4.2 5.8 - - - +
113B SER 4.5 0.4 - - - +
114B GLU* 3.8 26.5 - - + +
117B ALA* 3.6 24.0 - - + -
207B LEU* 3.1 28.3 + - + +
208B TYR* 3.0 4.7 + - - +
210B MET* 1.3 78.3 - - - +
212B VAL* 1.3 65.5 + - + +
244B VAL* 3.7 9.5 - - + +
246B ILE* 4.3 21.1 - - + -
250B CYS* 3.5 28.5 - - - -
254B ILE* 3.9 16.2 - - + -
276B TRP* 5.1 0.2 - - + -
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Residues in contact with VAL 212 (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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25A LYS* 4.0 13.0 - - - +
111B ARG* 3.9 12.3 - - - -
208B TYR* 2.7 60.1 + - + +
211B LEU* 1.3 83.3 - - + +
213B GLY* 1.3 57.6 + - - +
214B ALA* 4.0 14.4 - - + +
240B ILE* 4.8 6.5 - - + -
241B PRO* 3.8 35.7 - - + -
243B TYR* 4.7 2.2 + - - +
244B VAL* 4.4 14.2 - - + +
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Residues in contact with GLY 213 (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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25A LYS* 3.7 16.3 + - - -
103B PHE* 5.6 2.1 - - - -
106B ILE* 4.0 7.2 - - - +
107B CYS* 5.5 7.6 - - - -
110B GLY 3.2 25.6 - - - +
111B ARG* 3.8 3.2 - - - +
209B VAL* 2.7 26.0 + - - +
211B LEU 3.7 0.8 - - - -
212B VAL* 1.3 72.7 - - - +
214B ALA* 1.3 61.3 + - - +
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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