Contacts of the helix formed by residues 185 - 204 (chain A) in PDB entry 6M0X
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 PRO 185 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118A ILE* 3.4 17.3 - - + +
183A VAL 4.7 0.7 - - - +
184A PHE* 1.3 93.0 - - + +
186A THR* 1.3 62.8 + - - +
187A SER* 3.2 22.4 - - - +
188A ALA* 3.3 15.8 + - + +
189A TYR* 3.2 22.6 + - - -
593A ASN* 6.5 0.9 - - - -
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Residues in contact with THR 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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116A ARG* 2.7 36.0 + - + +
117A GLY 2.9 9.2 + - - -
118A ILE 2.6 28.8 + - - -
119A SER* 3.7 14.8 - - - -
184A PHE 3.6 0.6 + - - -
185A PRO* 1.3 70.0 - - - +
187A SER* 1.3 60.2 + - - +
189A TYR* 3.7 4.0 - - + +
190A ARG* 2.8 28.6 + - - +
219A LEU* 4.7 2.0 - - + +
220A THR* 4.0 35.0 - - + +
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Residues in contact with SER 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A PRO* 3.2 19.1 - - - +
186A THR* 1.3 76.8 - - - +
188A ALA* 1.3 54.8 + - - -
190A ARG* 3.3 7.2 + - - +
191A SER* 2.7 30.4 + - - -
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Residues in contact with ALA 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A LYS 6.0 0.2 - - - +
151A PRO* 3.5 25.2 - - + +
184A PHE* 5.9 0.4 - - + -
185A PRO* 3.3 22.0 + - + +
186A THR 3.3 0.4 - - - -
187A SER* 1.3 79.0 + - - +
189A TYR* 1.3 60.4 + - - +
191A SER* 3.2 8.1 + - - -
192A GLU* 2.7 31.0 + - - +
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Residues in contact with TYR 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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92A ARG* 4.2 14.1 - - - -
112A MET* 4.0 21.8 - - + +
115A HIS* 3.1 29.9 + - + +
116A ARG* 3.5 18.8 - - - +
117A GLY* 3.6 12.8 - - - -
151A PRO* 3.7 22.2 - - + +
155A GLN* 3.1 21.9 + - - -
182A ASN 4.4 5.4 + - - -
184A PHE* 3.4 31.0 - + + -
185A PRO 3.2 21.9 + - - -
186A THR* 3.7 7.0 - - - +
187A SER 3.3 0.2 - - - -
188A ALA* 1.3 77.6 - - - +
190A ARG* 1.3 57.1 + - - +
192A GLU* 3.3 7.0 + - - +
193A ALA* 2.8 31.2 + - - +
219A LEU* 4.2 13.6 - - + +
19B A 4.7 1.0 + - - -
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Residues in contact with ARG 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A THR 2.8 18.4 + - - +
187A SER* 3.6 7.0 - - - +
189A TYR* 1.3 73.0 - - - +
191A SER* 1.3 66.2 + - - +
193A ALA* 3.3 0.7 + - - +
194A LEU* 2.9 35.3 + - + +
216A LEU* 3.6 37.2 - - + +
219A LEU* 3.9 9.3 - - - +
220A THR* 3.7 26.9 + - + +
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Residues in contact with SER 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A THR* 6.0 0.7 - - - +
187A SER 2.7 20.9 + - - -
188A ALA* 3.4 10.3 - - - -
190A ARG* 1.3 75.4 - - - +
192A GLU* 1.3 63.4 + - - +
194A LEU* 3.7 7.8 - - - +
195A ARG* 3.3 31.9 + - - +
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Residues in contact with GLU 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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92A ARG* 2.5 40.5 + - - +
96A LEU* 4.0 2.3 - - + +
112A MET* 4.0 6.1 - - - -
150A THR* 3.6 31.9 + - + +
151A PRO* 3.2 15.2 - - - +
152A GLY* 3.0 29.2 + - - -
188A ALA 2.7 18.9 + - - +
189A TYR* 3.5 7.2 - - - +
191A SER* 1.3 71.9 - - - +
193A ALA* 1.3 65.2 + - - +
195A ARG* 3.2 7.2 + - - +
196A ILE* 3.1 32.6 + - + +
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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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109A LEU* 4.8 1.6 - - + -
112A MET* 3.8 15.9 - - + -
189A TYR 2.8 19.6 + - - +
190A ARG 4.0 2.9 - - - +
192A GLU* 1.3 73.4 - - - +
194A LEU* 1.3 63.7 + - - +
196A ILE* 3.2 11.7 + - - +
197A LEU* 3.1 29.5 + - - +
215A TYR* 3.8 28.9 - - + -
216A LEU* 4.2 6.7 - - + -
219A LEU* 4.4 3.1 - - + -
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Residues in contact with LEU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A ARG* 2.9 25.1 + - + +
191A SER* 3.7 7.9 - - - +
193A ALA* 1.3 78.4 - - - +
195A ARG* 1.3 64.6 - - + +
197A LEU* 3.4 2.9 + - - +
198A GLN* 3.0 52.7 + - + +
212A ILE* 4.2 23.6 - - + -
216A LEU* 4.3 17.8 - - + +
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Residues in contact with ARG 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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96A LEU* 3.2 43.2 + - + +
97A THR* 5.7 2.8 - - - +
149A LYS 5.7 2.8 - - - +
150A THR* 3.4 22.2 - - - +
153A GLN* 5.1 2.4 + - - +
191A SER* 3.3 23.1 + - - +
192A GLU 3.2 6.3 + - - +
194A LEU* 1.3 79.5 - - + +
196A ILE* 1.3 58.3 + - - +
198A GLN* 4.0 8.1 - - - +
199A THR* 2.6 34.7 + - - +
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Residues in contact with ILE 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ARG* 3.5 38.8 - - + +
95A GLY* 3.9 19.1 - - - +
96A LEU* 3.6 18.6 - - + +
100A LEU* 4.8 4.0 - - + -
105A LEU* 4.2 23.3 - - + -
108A ALA* 5.6 2.7 - - + -
109A LEU* 5.1 3.6 - - + -
112A MET* 4.3 5.2 - - + -
192A GLU* 3.1 30.2 + - + +
193A ALA* 3.5 11.7 - - - +
194A LEU 3.2 0.4 - - - -
195A ARG* 1.3 76.2 - - - +
197A LEU* 1.3 61.2 + - + +
199A THR* 3.0 5.4 + - - -
200A GLN* 2.8 31.0 + - - +
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Residues in contact with LEU 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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105A LEU* 3.5 33.2 - - + -
109A LEU* 4.0 19.1 - - + -
193A ALA 3.1 17.7 + - - +
194A LEU* 4.2 1.8 - - - +
196A ILE* 1.3 75.3 - - + +
198A GLN* 1.3 58.0 + - - +
200A GLN* 3.1 5.1 + - - +
201A GLN* 2.8 28.6 + - - +
207A ILE* 4.2 9.0 - - + +
211A PHE* 4.1 22.7 - - + -
212A ILE* 4.0 35.4 - - + -
215A TYR* 4.1 26.5 - - + -
216A LEU* 5.5 1.3 - - + -
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Residues in contact with GLN 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 LEU* 3.0 49.9 + - + +
195A ARG* 4.2 7.6 - - - +
197A LEU* 1.3 75.8 - - - +
199A THR* 1.3 62.3 + - - +
201A GLN* 3.3 30.3 + - - +
202A GLU* 3.6 18.3 + - - +
212A ILE* 4.3 8.0 - - + +
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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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95A GLY 3.6 13.9 - - - +
96A LEU 3.2 25.5 + - - +
97A THR* 3.8 19.1 - - - +
98A ASP 4.5 0.9 - - - +
195A ARG* 2.6 23.6 + - - +
196A ILE 3.0 5.2 + - - -
198A GLN* 1.3 77.9 - - - +
200A GLN* 1.3 60.6 + - - +
201A GLN 3.5 0.2 + - - -
202A GLU* 3.5 17.6 + - - +
203A PHE* 3.1 26.3 - - + -
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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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95A GLY* 3.4 27.5 - - - +
98A ASP 3.7 0.8 + - - +
99A GLU* 3.0 21.8 - - - +
100A LEU* 2.7 46.4 + - + +
102A ASN* 6.3 0.4 - - - +
105A LEU* 4.4 12.6 - - + -
196A ILE* 2.8 14.8 + - - +
197A LEU* 3.1 11.4 + - - +
199A THR* 1.3 75.1 - - - +
201A GLN* 1.3 54.6 + - - +
203A PHE* 2.8 6.5 + - - +
204A ASN* 2.6 41.2 + - + +
207A ILE* 3.6 24.2 - - + -
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Residues in contact with GLN 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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197A LEU 2.8 11.2 + - - +
198A GLN* 3.4 20.5 - - - +
199A THR 3.3 0.4 - - - -
200A GLN* 1.3 77.2 - - - +
202A GLU* 1.3 61.5 + - + +
204A ASN 2.9 21.9 + - - +
205A PRO* 4.8 1.7 - - + +
207A ILE* 3.1 31.3 + - + +
208A THR* 3.6 1.8 - - - +
209A ASP* 3.6 35.5 + - - +
212A ILE* 3.7 20.1 - - - +
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Residues in contact with GLU 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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198A GLN* 3.6 21.7 + - - +
199A THR* 3.5 15.8 + - - +
200A GLN 3.1 0.8 - - - -
201A GLN* 1.3 80.6 - - + +
203A PHE* 1.3 64.6 + - + +
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Residues in contact with PHE 203 (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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97A THR 4.0 15.7 - - - -
98A ASP* 4.0 6.5 - - - -
99A GLU* 3.5 69.9 - - + +
199A THR* 3.1 33.0 - - + -
200A GLN* 2.8 7.2 + - - +
202A GLU* 1.3 85.5 - - + +
204A ASN* 1.3 59.8 + - + +
205A PRO* 3.9 5.9 - - - +
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Residues in contact with ASN 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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75A LEU* 5.1 0.5 - - - +
99A GLU* 5.3 5.8 + - + +
102A ASN* 4.2 21.3 + - - +
200A GLN* 2.6 19.4 + - + +
201A GLN* 2.9 27.8 + - - +
203A PHE* 1.3 77.7 + - + +
205A PRO* 1.3 70.2 - - - +
206A GLN* 2.9 34.0 + - - +
207A ILE* 3.2 33.5 + - + +
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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