Contacts of the helix formed by residues 146 - 164 (chain L) in PDB entry 3Q3G
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 ILE 146 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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105K GLY* 5.7 7.0 - - - +
143L GLY 5.3 1.3 - - - +
144L SER 3.3 10.7 + - - +
145L ILE* 1.3 73.1 - - - +
147L PRO* 1.4 75.9 - - + +
148L HIS* 3.6 36.6 - - + +
149L ASP* 3.0 39.2 + - - +
150L PHE* 3.0 10.0 + - - +
152L ARG* 5.0 1.8 - - - +
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Residues in contact with PRO 147 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145L ILE 3.9 1.5 - - - +
146L ILE* 1.4 86.9 - - + +
148L HIS* 1.3 63.6 + - + +
150L PHE* 3.3 4.4 + - + +
151L ARG* 2.9 40.9 + - - +
204L GLN* 4.4 12.8 - - - +
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Residues in contact with HIS 148 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146L ILE* 3.3 20.1 - - + +
147L PRO* 1.3 81.0 - - + +
149L ASP* 1.3 57.2 + - - +
151L ARG* 3.4 24.3 + - - +
152L ARG* 3.0 54.6 + - - +
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Residues in contact with ASP 149 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145L ILE* 3.8 10.6 - - + -
146L ILE* 3.0 30.1 + - + +
148L HIS* 1.3 74.3 - - - +
150L PHE* 1.3 60.1 + - - +
152L ARG* 2.8 25.5 + - - +
153L MET* 3.0 24.4 + - - +
301L ASN* 5.9 0.4 - - - +
302L PHE* 3.4 52.5 + - + +
303L GLU 4.9 0.3 + - - -
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Residues in contact with PHE 150 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139L ILE* 4.2 6.5 - - + -
140L ASP 4.1 3.4 - - - -
141L GLY* 4.1 5.4 - - - -
145L ILE* 3.5 8.6 - - + +
146L ILE 3.0 8.2 + - - +
147L PRO* 3.3 8.5 + - + +
149L ASP* 1.3 74.0 - - - +
151L ARG* 1.4 57.6 + - - +
153L MET* 3.3 30.7 + - + +
154L LYS* 3.1 45.4 + - + +
175L GLN* 3.6 37.9 - - - -
202L ILE* 3.8 26.2 - - + -
204L GLN* 3.6 54.5 - - + +
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Residues in contact with ARG 151 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147L PRO* 2.9 23.9 + - - +
148L HIS* 3.4 30.8 + - - +
149L ASP 3.2 0.2 - - - -
150L PHE* 1.4 73.6 - - - +
152L ARG* 1.4 58.2 + - + +
154L LYS* 3.4 19.8 + - - +
155L GLU* 3.0 34.9 + - + +
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Residues in contact with ARG 152 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146L ILE* 5.0 2.2 - - - +
148L HIS* 3.0 40.2 + - - +
149L ASP* 2.8 33.2 + - - +
151L ARG* 1.4 76.4 - - + +
153L MET* 1.4 56.5 + - - +
155L GLU* 3.3 9.4 - - - +
156L PHE* 3.0 26.3 + - - +
302L PHE* 3.9 14.4 - - + +
303L GLU* 3.5 60.0 + - - +
305L LEU* 5.0 1.1 - - - +
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Residues in contact with MET 153 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139L ILE* 3.8 30.3 - - + -
140L ASP* 3.5 25.4 - - - +
145L ILE* 5.3 0.9 - - + -
149L ASP 3.0 15.4 + - - +
150L PHE* 3.3 28.2 + - + +
152L ARG* 1.4 73.6 - - - +
154L LYS* 1.4 59.0 + - - +
156L PHE* 3.3 2.9 + - - +
157L VAL* 3.0 29.2 + - - +
240L ILE* 3.5 45.5 - - + +
302L PHE* 4.1 18.4 - - + -
305L LEU* 4.2 12.6 - - + -
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Residues in contact with LYS 154 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139L ILE* 5.2 7.9 - - + -
150L PHE* 3.1 36.6 + - + +
151L ARG* 3.5 20.6 - - - +
153L MET* 1.4 71.7 - - + +
155L GLU* 1.4 54.8 + - - +
157L VAL* 3.3 6.3 + - - +
158L SER* 2.9 28.9 + - - -
199L VAL* 3.4 40.8 + - + +
200L LYS* 2.8 32.5 + - - +
202L ILE* 3.0 34.6 + - + +
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Residues in contact with GLU 155 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151L ARG* 3.0 20.0 + - + +
152L ARG* 3.3 14.6 - - - +
154L LYS* 1.4 74.2 - - - +
156L PHE* 1.4 55.5 + - - +
158L SER* 3.4 5.0 + - - -
159L THR* 3.0 35.9 + - - +
196L ARG* 2.6 33.2 + - - -
306L LYS* 6.0 6.7 - - - -
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Residues in contact with PHE 156 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137L PHE* 5.4 1.1 - + - -
152L ARG 3.0 13.6 + - - +
153L MET 3.3 6.7 + - - +
155L GLU* 1.4 72.1 - - - +
157L VAL* 1.3 63.9 - - + +
159L THR* 4.6 0.2 - - - -
160L VAL* 3.0 51.6 + - + +
238L VAL* 5.0 2.2 - - + -
240L ILE* 3.7 27.6 - - + -
269L ILE* 3.7 23.3 - - + -
305L LEU* 3.4 54.1 - - + -
306L LYS* 4.8 2.2 - - + -
308L ILE* 4.4 5.2 - - + -
309L GLN* 3.1 43.6 + - - +
312L LEU* 3.8 12.6 - - + -
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Residues in contact with VAL 157 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137L PHE* 3.7 37.0 - - + -
139L ILE* 4.2 14.8 - - + -
153L MET 3.0 21.2 + - - +
154L LYS* 3.3 7.2 + - - +
156L PHE* 1.3 77.3 - - + +
158L SER* 1.4 56.4 + - - +
160L VAL* 3.2 5.7 + - - +
161L MET* 3.0 45.3 + - + +
173L LEU* 3.8 17.3 - - + -
199L VAL* 4.1 3.1 - - + -
240L ILE* 4.0 24.5 - - + -
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Residues in contact with SER 158 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154L LYS 2.9 14.5 + - - -
155L GLU* 3.5 4.3 - - - -
156L PHE 3.4 0.2 - - - -
157L VAL* 1.4 76.7 - - - +
159L THR* 1.4 56.7 + - - +
161L MET* 3.8 9.4 - - - -
162L GLU* 3.1 33.9 + - - +
195L PRO* 3.8 4.6 + - - +
196L ARG* 3.4 42.6 + - - +
199L VAL* 3.3 27.2 - - - +
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Residues in contact with THR 159 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155L GLU* 3.0 18.2 + - - +
157L VAL 3.3 0.2 - - - -
158L SER* 1.4 73.1 - - - +
160L VAL* 1.4 58.5 + - - +
161L MET 3.3 1.3 - - - -
162L GLU* 3.2 10.4 + - + +
163L GLN* 2.9 46.8 + - + +
196L ARG* 3.2 18.0 + - - +
309L GLN* 3.4 33.0 - - - +
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Residues in contact with VAL 160 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137L PHE* 3.6 25.1 - - + -
156L PHE* 3.0 43.2 + - + +
157L VAL* 3.9 2.9 - - - +
159L THR* 1.4 73.9 - - - +
161L MET* 1.4 57.2 + - - +
163L GLN* 3.3 7.1 + - - +
164L LEU* 2.9 52.7 + - + +
238L VAL* 6.1 0.2 - - + -
309L GLN* 3.5 23.8 - - + +
312L LEU* 4.0 17.5 - - + -
313L ARG* 5.8 2.9 - - + +
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Residues in contact with MET 161 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137L PHE* 3.7 19.3 - - + -
157L VAL* 3.0 25.5 + - + +
158L SER* 3.8 4.0 - - - +
160L VAL* 1.4 76.8 - - - +
162L GLU* 1.3 58.6 + - - +
165L LYS* 3.5 20.3 + - - +
171L PHE* 3.5 39.6 - - + -
184L PHE* 4.0 20.6 - - + -
189L PHE* 4.9 4.2 - - - -
195L PRO* 3.6 45.1 - - + +
199L VAL* 3.5 32.1 - - + -
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Residues in contact with GLU 162 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158L SER 3.1 15.5 + - - +
159L THR* 3.2 10.2 + - + +
161L MET* 1.3 75.3 - - - +
163L GLN* 1.4 62.4 + - + +
165L LYS* 3.4 26.2 - - - +
195L PRO* 3.9 20.1 - - + +
196L ARG* 2.8 55.1 + - - +
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Residues in contact with GLN 163 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159L THR* 2.9 37.4 + - + +
160L VAL* 3.3 6.8 + - - +
162L GLU* 1.4 77.9 - - + +
164L LEU* 1.4 58.0 + - - +
165L LYS 3.3 4.0 + - - +
309L GLN* 3.7 24.4 - - - +
310L ASN* 5.4 1.8 + - - -
313L ARG* 2.8 52.8 + - + +
317L PHE* 4.0 7.4 - - - -
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Residues in contact with LEU 164 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135L ILE* 3.9 23.6 - - + -
160L VAL* 2.9 38.5 + - + +
161L MET 4.0 2.2 - - - -
162L GLU 3.5 0.2 - - - -
163L GLN* 1.4 75.1 - - - +
165L LYS* 1.4 63.3 + - - +
166L LYS* 3.1 14.5 + - + +
169L THR* 3.4 15.6 - - + +
171L PHE* 3.7 14.8 - - + -
313L ARG* 3.7 28.9 - - + +
316L ILE* 3.9 28.9 - - + -
317L PHE* 3.7 30.3 - - + -
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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
------------------------------------------------------------
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