Contacts of the helix formed by residues 146 - 164 (chain I) 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 I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105H GLY* 5.8 6.7 - - - +
143I GLY 5.3 1.3 - - - +
144I SER 3.3 11.1 + - - +
145I ILE* 1.3 73.2 - - - +
147I PRO* 1.4 75.2 - - + +
148I HIS* 3.8 39.0 - - + -
149I ASP* 3.0 37.5 + - - +
150I PHE* 3.0 10.0 + - - +
152I ARG* 5.0 1.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 147 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145I ILE 3.9 1.3 - - - +
146I ILE* 1.4 85.9 - - + +
148I HIS* 1.3 62.7 + - + +
150I PHE* 3.3 4.6 + - + +
151I ARG* 2.9 39.3 + - - +
204I GLN* 4.4 12.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 148 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I ILE* 3.1 21.0 + - + -
147I PRO* 1.3 81.9 - - + +
149I ASP* 1.3 56.3 + - - +
151I ARG* 2.7 41.1 + - - +
152I ARG* 3.0 53.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 149 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145I ILE* 3.8 10.6 - - + -
146I ILE* 3.0 30.3 + - + +
148I HIS* 1.3 73.9 - - - +
150I PHE* 1.3 58.9 + - - +
152I ARG* 2.8 25.4 + - - +
153I MET* 2.9 28.4 + - - +
301I ASN* 5.8 0.6 - - - +
302I PHE* 3.4 47.5 + - + +
303I GLU 5.0 0.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 150 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139I ILE* 4.3 6.7 - - + -
140I ASP 4.2 2.9 - - - -
141I GLY* 4.1 4.0 - - - -
145I ILE* 3.5 7.9 - - + +
146I ILE 3.0 8.4 + - - +
147I PRO* 3.7 8.1 - - + +
149I ASP* 1.3 75.5 - - - +
151I ARG* 1.4 57.1 + - - +
153I MET* 3.3 31.3 + - + +
154I LYS* 2.9 42.5 + - + +
175I GLN* 3.6 37.5 - - - -
202I ILE* 3.8 28.5 - - + -
203I THR* 4.5 0.2 - - - -
204I GLN* 3.6 56.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 151 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147I PRO* 2.9 23.4 + - - +
148I HIS* 2.7 47.4 + - - +
149I ASP 3.2 0.2 - - - -
150I PHE* 1.4 73.3 - - - +
152I ARG* 1.3 58.6 + - + +
154I LYS* 3.2 19.1 + - + +
155I GLU* 3.0 31.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 152 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I ILE* 5.0 1.8 - - - +
148I HIS* 3.0 40.0 + - - +
149I ASP* 2.8 36.9 + - - +
151I ARG* 1.3 74.1 - - + +
153I MET* 1.4 57.1 + - - +
155I GLU* 3.3 9.4 - - - +
156I PHE* 2.9 29.5 + - - +
302I PHE* 3.8 12.3 - - + +
303I GLU* 3.8 52.4 + - - +
305I LEU* 4.4 2.9 - - - +
306I LYS* 6.3 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 153 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139I ILE* 3.6 32.3 - - + -
140I ASP* 3.2 30.3 - - - +
145I ILE* 5.2 1.1 - - + -
149I ASP 2.9 13.5 + - - +
150I PHE* 3.4 30.3 - - + +
152I ARG* 1.4 72.3 - - - +
154I LYS* 1.3 65.7 + - + +
156I PHE* 3.5 3.2 + - + +
157I VAL* 3.1 29.2 + - + +
240I ILE* 3.8 31.0 - - + +
302I PHE* 3.7 25.4 - - + -
305I LEU* 4.0 10.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 154 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139I ILE* 5.3 5.8 - - + -
150I PHE* 2.9 37.5 + - + +
151I ARG* 3.4 19.2 - - + +
153I MET* 1.3 76.2 - - + +
155I GLU* 1.4 54.3 + - - +
157I VAL* 3.3 6.7 + - - +
158I SER* 2.9 25.5 + - - -
199I VAL* 3.3 41.3 + - + +
200I LYS* 2.8 33.3 + - - +
202I ILE* 3.4 30.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 155 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151I ARG* 3.0 16.0 + - + +
152I ARG* 3.3 14.8 - - - +
154I LYS* 1.4 71.5 - - - +
156I PHE* 1.4 59.3 + - - +
158I SER* 3.3 5.4 + - - -
159I THR* 3.0 56.5 + - - -
196I ARG* 2.6 28.5 + - - +
306I LYS* 6.1 3.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 156 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137I PHE* 5.5 1.8 - + - -
152I ARG 2.9 17.1 + - - +
153I MET* 3.8 7.0 - - + +
155I GLU* 1.4 74.9 - - - +
157I VAL* 1.4 64.5 + - + +
159I THR* 4.6 0.2 - - - -
160I VAL* 3.2 32.1 + - + +
238I VAL* 5.3 1.6 - - + -
240I ILE* 4.8 9.2 - - + -
269I ILE* 3.6 32.8 - - + -
305I LEU* 3.0 58.1 - - + -
306I LYS* 6.5 0.9 - - + -
308I ILE* 4.1 8.3 - - + -
309I GLN* 3.3 45.6 + - - +
312I LEU* 3.9 19.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 157 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137I PHE* 3.9 32.0 - - + -
139I ILE* 3.9 23.1 - - + -
153I MET* 3.1 18.7 + - + +
154I LYS* 3.4 9.4 - - - +
155I GLU 3.2 0.2 - - - -
156I PHE* 1.4 77.8 - - + +
158I SER* 1.3 59.3 + - - +
160I VAL* 3.4 3.3 + - - +
161I MET* 3.0 40.3 + - - +
173I LEU* 3.8 24.2 - - + -
199I VAL* 3.8 17.7 - - + -
240I ILE* 4.5 5.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 158 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154I LYS 2.9 10.8 + - - -
155I GLU* 3.5 5.8 - - - -
157I VAL* 1.3 77.1 - - - +
159I THR* 1.4 56.4 + - - +
161I MET* 3.3 9.1 + - - +
162I GLU* 3.1 34.4 + - - +
195I PRO* 3.9 1.9 + - - +
196I ARG* 3.4 43.9 + - - +
199I VAL* 3.4 29.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 159 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155I GLU* 3.0 29.3 + - - -
157I VAL 3.3 0.2 - - - -
158I SER* 1.4 71.9 - - - +
160I VAL* 1.3 60.1 + - - +
162I GLU* 3.2 10.3 + - + +
163I GLN* 2.9 51.1 + - + +
196I ARG* 3.2 11.6 + - - +
309I GLN* 3.5 30.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 160 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135I ILE* 6.3 0.2 - - + -
137I PHE* 3.7 24.7 - - + -
156I PHE* 3.2 28.5 + - + +
157I VAL* 3.4 3.3 + - - +
159I THR* 1.3 74.9 - - - +
161I MET* 1.3 56.4 + - - +
163I GLN* 4.5 5.6 - - - +
164I LEU* 3.1 51.4 + - + +
171I PHE* 5.4 0.4 - - + -
238I VAL* 5.8 1.3 - - + -
309I GLN* 3.7 23.6 - - + +
312I LEU* 3.9 30.1 - - + -
313I ARG* 5.7 3.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 161 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137I PHE* 3.8 19.3 - - + -
157I VAL* 3.0 19.4 + - - +
158I SER 3.4 9.2 - - - +
159I THR 3.3 0.2 - - - -
160I VAL* 1.3 75.8 - - - +
162I GLU* 1.3 60.2 + - - +
164I LEU 4.3 0.4 - - - -
165I LYS* 3.9 13.5 + - - +
171I PHE* 3.5 41.8 - - + -
184I PHE* 3.9 20.4 - - + -
189I PHE* 3.6 32.5 - - + -
195I PRO* 3.6 30.2 - - + +
198I LEU* 5.1 0.9 - - + -
199I VAL* 4.0 23.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 162 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158I SER 3.1 14.5 + - - +
159I THR* 3.2 9.5 + - - +
161I MET* 1.3 77.8 - - - +
163I GLN* 1.3 62.7 + - + +
164I LEU 3.5 0.4 - - - -
165I LYS* 3.4 22.5 - - + +
195I PRO* 3.9 18.8 - - + +
196I ARG* 2.8 56.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 163 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159I THR* 2.9 40.6 + - + +
160I VAL* 4.2 5.6 - - - +
162I GLU* 1.3 77.3 - - + +
164I LEU* 1.4 58.2 + - - +
165I LYS 3.3 4.4 + - - +
309I GLN* 3.9 22.2 - - - +
310I ASN* 5.5 1.6 + - - -
313I ARG* 2.8 51.1 + - + +
317I PHE* 4.0 12.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 164 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135I ILE* 3.9 23.6 - - + -
160I VAL* 3.1 39.7 + - + +
161I MET 4.5 2.0 - - - -
162I GLU 3.5 0.2 - - - -
163I GLN* 1.4 74.2 - - + +
165I LYS* 1.4 62.9 + - - +
166I LYS* 3.1 16.4 + - - +
169I THR* 3.6 14.1 - - + +
171I PHE* 4.1 11.7 - - + -
238I VAL* 6.5 0.4 - - + -
313I ARG* 3.7 31.9 - - + +
316I ILE* 3.9 28.5 - - + -
317I PHE* 3.7 28.7 - - + -
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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