Contacts of the helix formed by residues 191 - 209 (chain A) in PDB entry 3M0V
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 191 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190A SER* 1.3 73.1 - - - +
192A PHE* 1.3 63.5 + - - +
193A THR* 3.2 10.7 + - - -
194A ARG* 2.9 44.7 + - + +
195A ALA* 3.0 22.2 + - - +
198A ARG* 4.9 3.7 + - - +
308C GLU* 6.1 1.1 - - - -
311C ASP* 3.9 12.7 + - - -
315C ARG* 3.5 33.2 + - - +
365C GLN* 3.5 28.5 + - + +
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Residues in contact with PHE 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A SER* 4.7 2.5 - - - -
188A GLY 6.0 1.6 - - - -
190A SER* 3.5 13.9 + - - -
191A ASN* 1.3 71.8 + - - +
193A THR* 1.3 62.6 + - - +
195A ALA* 3.5 5.5 + - - +
196A PHE* 3.2 17.5 + - - +
228A TYR* 3.6 30.5 - + - -
229A SER* 3.4 27.6 - - - -
263C ASN* 4.2 5.6 - - - -
265C GLU* 3.8 20.9 - - + -
266C MET* 3.6 35.7 - - + -
269C ALA* 3.9 14.6 - - + -
270C ARG* 3.4 21.2 + - - +
308C GLU* 3.3 36.2 + - - +
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Residues in contact with THR 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A ASN* 3.2 7.4 + - - -
192A PHE* 1.3 73.9 - - - +
194A ARG* 1.3 63.5 + - + +
196A PHE* 3.2 3.1 + - - +
197A GLU* 2.9 46.1 + - - +
269C ALA* 3.6 27.9 + - - +
270C ARG* 4.5 1.7 + - - +
272C ILE* 5.9 0.3 - - - +
273C GLN* 3.5 38.8 + - + +
308C GLU* 5.3 1.1 + - - -
315C ARG* 6.0 1.8 - - - -
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Residues in contact with ARG 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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191A ASN* 2.9 31.9 + - + +
193A THR* 1.3 73.8 - - + +
195A ALA* 1.3 62.9 + - - +
197A GLU* 3.3 21.8 + - - +
198A ARG* 3.0 43.0 + - + +
315C ARG* 3.4 30.3 - - - +
366C GLU* 4.8 12.1 - - - -
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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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147A SER* 3.3 18.0 - - - +
190A SER* 4.7 11.4 - - - +
191A ASN 3.0 19.1 + - - +
192A PHE* 3.7 6.1 - - - +
194A ARG* 1.3 78.8 - - - +
196A PHE* 1.3 60.3 + - - +
198A ARG* 3.4 23.6 + - - +
199A TYR 3.1 17.0 + - - -
231A VAL* 4.2 19.5 - - + -
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Residues in contact with PHE 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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192A PHE 3.2 10.8 + - - +
193A THR 3.2 7.7 + - - +
195A ALA* 1.3 77.3 - - - +
197A GLU* 1.3 59.0 + - - +
199A TYR* 3.1 6.3 + + - +
200A LEU* 2.8 55.5 + - + +
231A VAL* 3.9 20.6 - - + +
237A THR* 3.6 22.7 - - + -
240A LEU* 4.3 7.6 - - + -
241A ILE* 3.5 33.0 - - + -
270C ARG* 3.7 29.8 - - - +
273C GLN* 3.2 24.0 - - - +
274C PHE* 3.9 19.7 - + - -
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Residues in contact with GLU 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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193A THR* 2.9 35.6 + - - +
194A ARG* 3.3 29.6 + - - +
196A PHE* 1.3 76.6 - - - +
198A ARG* 1.3 61.1 + - + +
200A LEU* 3.2 11.2 + - - +
201A SER* 3.0 23.7 + - - -
273C GLN* 4.0 18.9 + - - +
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Residues in contact with ARG 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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146A LEU 3.4 7.0 - - - +
147A SER* 2.7 25.7 + - - -
148A HIS 3.3 18.7 + - - -
149A THR* 3.6 29.4 - - - +
154A ARG* 3.5 30.5 - - - +
190A SER* 5.6 2.6 - - - +
191A ASN* 4.9 5.7 + - - +
194A ARG* 3.0 38.0 + - + +
195A ALA* 3.4 32.4 - - - +
197A GLU* 1.3 75.2 - - + +
199A TYR* 1.3 64.8 + - - +
201A SER* 3.2 7.8 + - - -
202A ALA* 3.0 18.5 + - - +
366C GLU* 4.3 12.5 + - - -
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Residues in contact with TYR 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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146A LEU* 3.5 21.9 + - + -
147A SER* 3.9 7.9 - - - -
178A VAL* 4.9 5.5 + - + +
180A ILE* 3.5 35.0 - - + -
195A ALA 3.1 11.0 + - - +
196A PHE* 3.4 20.4 - + - +
198A ARG* 1.3 79.3 - - - +
200A LEU* 1.3 61.7 + - + +
202A ALA* 3.2 2.3 + - - +
203A MET* 2.9 66.0 + - + +
218A SER* 3.6 17.7 - - - -
231A VAL* 4.1 11.0 - - + -
232A VAL* 3.6 18.8 - - + +
241A ILE* 3.4 28.3 - - + +
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Residues in contact with LEU 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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196A PHE* 2.8 59.8 + - + +
197A GLU* 3.2 11.4 + - + +
199A TYR* 1.3 79.2 - - + +
201A SER* 1.3 57.3 + - - +
203A MET* 3.6 3.2 + - - +
204A ALA* 3.0 28.1 + - - +
241A ILE* 4.2 24.7 - - + +
244A THR* 4.3 26.1 - - + +
245A LEU* 4.1 7.3 - - + +
273C GLN* 4.1 12.3 - - - +
274C PHE* 4.8 6.7 - - + -
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Residues in contact with SER 201 (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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154A ARG* 5.7 4.9 + - - -
197A GLU 3.0 11.9 + - - -
198A ARG* 3.6 10.5 - - - -
200A LEU* 1.3 74.5 - - - +
202A ALA* 1.3 65.0 + - - +
204A ALA* 3.3 9.1 + - - +
205A GLU* 3.3 27.9 + - - +
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Residues in contact with ALA 202 (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 LEU* 3.3 47.8 - - + +
154A ARG* 4.8 7.8 - - + +
158A VAL* 3.7 15.0 - - + +
198A ARG 3.0 6.3 + - - +
199A TYR 3.2 4.7 + - - +
201A SER* 1.3 77.8 - - - +
203A MET* 1.3 61.3 + - - +
205A GLU* 3.1 18.0 + - - +
206A ILE* 3.2 17.6 + - - +
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Residues in contact with MET 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A LEU* 4.0 13.9 - - + -
178A VAL* 4.1 19.5 - - + -
199A TYR* 2.9 58.1 + - + +
200A LEU* 4.0 1.8 - - - +
202A ALA* 1.3 73.6 - - - +
204A ALA* 1.3 60.5 + - - +
206A ILE* 3.1 23.9 + - - +
207A TYR* 2.8 30.3 + - - +
216A LEU* 3.9 31.2 - - + +
218A SER* 4.3 11.2 - - - -
245A LEU* 3.8 26.8 - - + +
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Residues in contact with ALA 204 (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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200A LEU 3.0 18.8 + - - +
201A SER* 3.4 9.6 - - - +
202A ALA 3.2 0.2 - - - -
203A MET* 1.3 77.7 - - - +
205A GLU* 1.3 61.9 + - + +
207A TYR* 3.3 6.1 + - - +
208A LYS* 3.3 38.1 + - - +
245A LEU* 3.6 13.9 - - + +
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Residues in contact with GLU 205 (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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155A ALA* 5.7 3.4 - - - +
158A VAL* 3.9 28.5 - - + +
162A LEU* 4.4 5.5 - - - +
201A SER* 3.3 15.6 + - - +
202A ALA* 3.1 11.8 + - - +
203A MET 3.1 0.6 - - - -
204A ALA* 1.3 77.4 - - - +
206A ILE* 1.3 64.2 + - - +
208A LYS* 3.1 32.2 + - + +
209A GLY 3.7 3.1 + - - -
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Residues in contact with ILE 206 (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 LEU* 4.0 17.7 - - + -
158A VAL* 4.1 14.4 - - + +
161A ASN* 3.4 39.7 - - + +
162A LEU* 4.1 8.2 - - + +
165A ILE* 4.1 12.4 - - + +
176A LEU* 3.9 24.7 - - + -
178A VAL* 5.0 0.2 - - + -
202A ALA 3.6 7.9 - - - +
203A MET* 3.1 27.0 + - - +
205A GLU* 1.3 76.4 - - - +
207A TYR* 1.3 64.3 + - - +
209A GLY* 2.9 16.1 + - - -
210A LEU* 3.7 4.2 + - + +
216A LEU* 4.1 14.8 - - + -
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Residues in contact with TYR 207 (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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203A MET 2.8 13.4 + - - +
204A ALA* 3.3 14.6 - - - +
205A GLU 3.2 0.2 - - - -
206A ILE* 1.3 78.4 - - - +
208A LYS* 1.3 64.1 + - + +
210A LEU* 3.1 35.6 + - + +
216A LEU* 4.2 6.7 - - + +
245A LEU* 3.5 42.6 - - + -
247A PRO* 3.2 17.7 - - - +
248A LYS* 3.0 45.8 + - + +
249A ALA* 3.7 25.8 - - + -
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Residues in contact with LYS 208 (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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204A ALA* 3.3 29.8 + - - +
205A GLU* 3.1 21.0 + - + +
206A ILE 3.1 0.6 - - - -
207A TYR* 1.3 79.8 - - + +
209A GLY* 1.3 57.0 + - - +
210A LEU 3.3 4.5 + - - +
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Residues in contact with GLY 209 (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 LEU* 4.0 16.1 - - - +
165A ILE* 3.7 17.5 - - - +
166A GLU* 5.4 1.2 - - - +
169A LYS* 5.4 1.7 + - - -
205A GLU 3.7 3.0 + - - -
206A ILE 2.9 12.2 + - - -
208A LYS* 1.3 77.6 - - - +
210A LEU* 1.3 61.0 + - - +
211A PRO* 3.4 10.0 - - - +
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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