Contacts of the helix formed by residues 190 - 210 (chain B) in PDB entry 3ASZ
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 ASN 190 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A ASP* 2.9 26.9 + - - +
22B LEU* 5.1 3.9 - - + +
184B VAL* 4.7 2.5 - - + -
185B PRO* 3.0 21.9 + - - +
186B ARG* 3.2 37.5 + - - +
187B GLY* 4.8 4.2 + - - -
188B GLY 4.0 0.6 - - - -
189B GLN* 1.3 75.2 - - - +
191B PRO* 1.3 65.5 - - - +
192B VAL* 3.6 8.0 + - - +
193B ALA* 3.0 28.1 + - + +
194B LEU* 3.0 21.2 + - - +
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Residues in contact with PRO 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B ARG* 5.4 1.3 - - - +
189B GLN* 3.7 17.0 - - - +
190B ASN* 1.3 87.8 - - - +
192B VAL* 1.3 64.1 + - + +
194B LEU* 3.6 12.9 - - + +
195B GLU* 2.9 31.8 + - - +
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Residues in contact with VAL 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ASP 4.1 14.8 - - - +
127A LEU* 3.8 20.0 - - + -
181A ASP* 3.7 43.1 - - + +
200A LYS* 6.0 5.1 - - - -
190B ASN* 3.2 2.3 + - - +
191B PRO* 1.3 83.1 - - + +
193B ALA* 1.3 58.3 + - - +
195B GLU* 3.3 7.2 + - - +
196B MET* 2.9 28.8 + - + +
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Residues in contact with ALA 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A ASP 3.6 10.5 + - - +
182A VAL* 4.0 17.5 - - + -
22B LEU* 5.2 0.9 - - + -
184B VAL* 3.7 22.4 - - + -
190B ASN* 3.0 31.4 + - - +
192B VAL* 1.3 77.9 - - - +
194B LEU* 1.3 62.1 + - - +
196B MET* 3.4 3.4 + - - +
197B LEU* 3.0 32.0 + - + +
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Residues in contact with LEU 194 (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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22B LEU* 4.4 17.6 - - + +
25B ALA* 3.9 21.1 - - + +
26B LEU* 3.7 40.4 - - + +
29B THR* 4.2 14.6 - - + +
190B ASN 3.0 18.4 + - - +
191B PRO* 3.6 11.9 - - + +
192B VAL 3.2 0.2 - - - -
193B ALA* 1.3 77.6 - - - +
195B GLU* 1.3 57.9 + - - +
197B LEU* 3.3 4.4 + - + +
198B ALA* 2.9 29.8 + - + +
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Residues in contact with GLU 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A LYS* 2.8 38.0 + - - +
191B PRO 2.9 18.2 + - - +
192B VAL* 3.6 6.9 - - - +
194B LEU* 1.3 77.4 - - - +
196B MET* 1.3 54.8 + - - +
198B ALA* 3.3 6.7 + - - +
199B ALA* 2.8 42.9 + - - +
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Residues in contact with MET 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A LEU* 3.5 41.7 - - + -
182A VAL* 4.0 19.1 - - + -
196A MET* 3.4 40.8 - - + +
197A LEU* 3.7 18.4 - - + -
200A LYS* 3.9 24.9 - - + -
192B VAL* 2.9 17.7 + - + +
193B ALA* 3.7 5.6 - - - +
195B GLU* 1.3 85.1 + - - +
197B LEU* 1.3 61.1 + - - +
199B ALA* 3.4 4.6 + - - +
200B LYS* 3.0 23.2 + - - +
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Residues in contact with LEU 197 (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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196A MET* 4.4 17.9 - - + -
9B ILE* 5.1 6.6 - - + +
11B ILE* 5.2 1.8 - - + -
22B LEU* 4.0 34.5 - - + -
26B LEU* 4.0 24.1 - - + +
127B LEU* 4.1 25.0 - - + +
129B VAL* 4.1 19.1 - - + -
182B VAL* 4.6 3.4 - - + -
184B VAL* 4.6 11.0 - - + -
193B ALA* 3.0 23.0 + - - +
194B LEU* 3.7 3.4 - - + +
196B MET* 1.3 76.7 - - + +
198B ALA* 1.3 63.0 + - - +
200B LYS* 3.4 7.5 + - - +
201B ALA* 3.1 21.7 + - - +
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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
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26B LEU* 3.7 15.6 - - + +
29B THR* 3.8 29.6 - - + -
30B LEU* 4.1 5.0 - - + +
194B LEU* 2.9 18.4 + - + +
195B GLU* 3.6 7.4 - - + +
197B LEU* 1.3 77.6 - - - +
199B ALA* 1.3 56.0 + - - +
201B ALA* 3.2 6.0 + - - +
202B LEU* 2.9 37.9 + - + +
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Residues in contact with ALA 199 (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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200A LYS* 5.2 9.4 - - + -
195B GLU* 2.8 37.2 + - - +
196B MET* 3.7 6.5 - - - +
198B ALA* 1.3 72.5 - - - +
200B LYS* 1.3 57.8 + - - +
202B LEU* 3.2 12.9 + - - +
203B ALA* 2.9 29.7 + - - +
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Residues in contact with LYS 200 (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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192A VAL* 6.1 4.9 - - - -
195A GLU* 2.7 37.0 + - - +
196A MET* 4.4 25.6 - - + -
199A ALA* 5.6 8.1 - - + -
7B PHE* 3.7 33.7 - - + -
127B LEU* 4.4 11.4 - - + -
196B MET 3.0 17.0 + - - +
197B LEU* 3.6 6.1 - - - +
198B ALA 3.3 0.2 - - - -
199B ALA* 1.3 75.7 - - - +
201B ALA* 1.3 62.8 + - - +
203B ALA* 3.2 11.3 + - + +
204B ARG* 3.0 34.9 + - - +
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Residues in contact with ALA 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B PHE* 3.7 25.9 - - + -
9B ILE* 4.7 3.6 - - + -
26B LEU* 5.4 0.2 - - + -
30B LEU* 3.8 28.0 - - + -
107B VAL* 4.5 7.6 - - + +
197B LEU 3.1 11.3 + - - +
198B ALA 3.5 8.5 - - - +
200B LYS* 1.3 80.3 - - - +
202B LEU* 1.3 51.1 - - - +
204B ARG* 3.0 5.0 + - - +
205B LEU* 2.7 38.6 + - - +
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Residues in contact with LEU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B THR* 6.0 2.5 - - + -
30B LEU* 3.9 13.9 - - + -
33B ARG* 3.4 41.3 - - - +
198B ALA* 2.9 25.7 + - + +
199B ALA* 3.5 11.9 - - - +
201B ALA* 1.3 76.2 - - - +
203B ALA* 1.3 57.7 + - - +
205B LEU* 3.2 5.7 + - + +
206B ALA* 2.9 30.1 + - - +
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Residues in contact with ALA 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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199A ALA* 5.7 8.7 - - + -
199B ALA 2.9 13.6 + - - +
200B LYS* 3.3 18.2 - - + +
201B ALA 3.2 0.2 - - - -
202B LEU* 1.3 75.7 - - - +
204B ARG* 1.3 62.1 + - + +
206B ALA* 3.5 7.1 + - - +
207B ARG* 3.2 27.3 + - - +
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Residues in contact with ARG 204 (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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5B LYS* 4.4 14.8 + - - +
6B PRO 4.5 1.2 + - - -
7B PHE* 3.6 57.2 - - + +
126B ASP* 3.1 30.7 + - - +
200B LYS* 3.0 28.0 + - - +
201B ALA 3.0 9.3 + - - +
203B ALA* 1.3 75.6 - - - +
205B LEU* 1.3 64.1 + - - +
207B ARG* 3.3 14.5 + - - +
208B MET* 3.3 30.9 + - + +
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Residues in contact with LEU 205 (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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30B LEU* 4.5 7.0 - - + -
33B ARG* 3.6 45.3 - - + +
106B PRO* 3.5 40.2 - - + -
107B VAL* 3.7 21.1 - - + -
201B ALA 2.7 21.7 + - - +
202B LEU* 3.5 17.0 - - + +
204B ARG* 1.3 70.9 - - - +
206B ALA* 1.3 65.3 + - - +
208B MET* 3.1 26.2 + - - +
209B GLY 3.5 4.3 + - - -
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Residues in contact with ALA 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 LEU 2.9 15.7 + - - +
203B ALA* 3.7 7.6 - - - +
205B LEU* 1.3 76.2 - - - +
207B ARG* 1.3 63.2 + - + +
209B GLY* 3.3 3.7 + - - -
210B ALA* 3.1 24.2 + - - +
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Residues in contact with ARG 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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203B ALA 3.2 14.6 + - - +
204B ARG* 3.5 18.4 - - - +
205B LEU 3.2 0.6 - - - -
206B ALA* 1.3 79.6 - - - +
208B MET* 1.3 61.0 + - + +
210B ALA* 3.3 25.2 - - - +
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Residues in contact with MET 208 (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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4B PRO* 4.4 40.5 - - + +
5B LYS 3.9 11.0 - - - +
6B PRO* 4.9 0.7 - - - -
7B PHE* 3.7 22.7 - - + +
106B PRO* 3.4 43.5 - - - +
204B ARG* 3.4 28.0 - - + +
205B LEU* 3.1 19.2 + - + +
207B ARG* 1.3 80.3 - - + +
209B GLY* 1.3 58.8 + - - +
210B ALA 4.0 2.9 - - - +
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Residues in contact with GLY 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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205B LEU 3.5 4.8 + - - -
206B ALA* 3.3 6.3 + - - -
208B MET* 1.3 78.0 - - - +
210B ALA* 1.3 61.1 + - - +
211B ALA* 4.0 2.6 + - - +
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Residues in contact with ALA 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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206B ALA 3.1 16.3 + - - +
207B ARG* 3.3 23.8 - - - +
208B MET 3.4 3.9 - - - +
209B GLY* 1.3 77.7 - - - +
211B ALA* 1.3 64.9 + - - +
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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