Contacts of the helix formed by residues 149 - 175 (chain A) in PDB entry 2RGZ
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 LEU 149 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A LEU* 4.3 19.1 - - + -
84A GLU* 4.0 18.8 - - + +
85A MET* 3.8 33.7 - - + -
88A ASN* 4.1 14.4 - - + +
94A PHE* 3.9 24.9 - - + -
138A ILE* 4.8 8.3 - - + +
141A ILE* 3.8 21.7 - - + +
142A GLY* 5.5 0.9 - - - -
146A PRO* 3.2 16.9 + - + +
148A LEU* 1.3 73.7 - - - +
150A VAL* 1.3 56.4 + - - +
151A ALA 3.0 5.4 - - - -
152A HIS* 2.8 26.5 + - + +
153A ALA* 3.3 8.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A LEU* 4.9 4.3 - - + -
93A ALA 5.1 6.1 - - - +
94A PHE* 4.3 3.7 - - + -
97A LEU* 3.2 39.5 - - + -
146A PRO 5.0 0.2 + - - -
147A GLU 4.1 7.6 - - - +
148A LEU 4.4 0.9 - - - -
149A LEU* 1.3 77.7 - - - +
151A ALA* 1.3 59.0 + - - +
153A ALA* 3.8 6.5 - - - -
154A TYR* 2.8 30.4 + - + +
202A TYR* 5.1 1.6 - - + +
206A MET* 3.5 29.6 - - + -
209A LEU* 5.0 4.5 - - + -
211A LEU* 5.5 0.2 - - + -
219A ILE* 3.7 35.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 5.6 0.9 - - - -
148A LEU 3.1 15.8 + - - +
149A LEU 3.0 0.8 - - - -
150A VAL* 1.3 81.7 - - - +
152A HIS* 1.3 59.2 + - - +
154A TYR* 4.1 4.7 - - - +
155A THR* 2.9 28.1 + - - -
219A ILE* 3.5 33.7 - - + +
222A GLU* 3.6 18.2 - - + -
223A ALA* 3.6 12.0 - - - +
226A ALA* 4.2 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A LEU* 3.5 26.2 - - + +
134A TYR* 3.9 25.1 + + - +
137A ARG* 4.3 14.6 - - + +
138A ILE* 4.1 13.1 - - + +
141A ILE* 4.4 18.1 - - + +
148A LEU 4.0 14.1 - - - -
149A LEU* 2.8 11.9 + - + +
151A ALA* 1.3 81.4 - - - +
153A ALA* 1.3 62.2 + - - +
154A TYR 3.4 0.2 - - - -
155A THR* 4.2 2.4 - - - -
156A ARG* 3.5 26.7 + - - +
222A GLU* 3.2 30.0 + - + +
226A ALA* 3.8 22.0 - - + +
229A TYR* 4.5 2.5 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A LEU* 4.5 2.1 - - - +
85A MET* 4.0 23.8 - - + -
94A PHE* 4.3 5.2 - - + -
149A LEU 3.3 9.8 + - - +
150A VAL* 3.9 10.5 - - - +
152A HIS* 1.3 74.9 - - - +
154A TYR* 1.3 59.3 + - - +
157A TYR* 2.8 51.2 + - + +
202A TYR* 3.3 22.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A SER* 5.3 2.9 - - - -
37A LEU* 4.0 23.5 + - + -
38A LYS* 4.0 15.2 + - - -
41A THR* 4.1 12.4 + - - -
150A VAL 2.8 19.8 + - - +
151A ALA* 4.1 3.6 - - - +
153A ALA* 1.3 75.9 - - - +
155A THR* 1.3 85.9 - - - +
158A MET* 3.0 52.3 + - + +
202A TYR* 4.3 5.1 + - - -
203A ARG* 6.4 1.6 - - + -
206A MET* 3.6 30.3 - - + -
223A ALA* 4.3 12.8 - - + -
227A PHE* 4.6 2.2 - + - -
300A HEM 2.6 58.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A TYR* 5.0 0.7 - - - +
151A ALA 2.9 19.7 + - - -
152A HIS 4.5 2.0 - - - -
154A TYR* 1.3 87.3 - - - +
156A ARG* 1.3 64.4 + - - +
159A GLY* 3.7 0.7 + - - -
223A ALA* 3.5 22.9 + - - +
226A ALA* 3.8 15.4 - - + +
227A PHE* 3.6 31.0 - - + -
230A ASN* 4.1 12.3 - - - +
300A HEM 3.5 37.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LEU* 3.6 17.1 - - - +
77A THR* 4.1 9.6 - - + -
78A TYR* 2.6 58.6 + - + +
81A LEU* 4.3 11.9 - - + -
134A TYR* 3.1 23.6 + - + +
152A HIS 3.5 17.7 + - - +
153A ALA 4.2 0.2 - - - +
154A TYR 3.3 0.8 - - - -
155A THR* 1.3 81.3 - - - +
157A TYR* 1.3 64.0 + - + +
159A GLY* 3.9 0.5 - - - -
160A ASP* 2.9 38.6 + - - +
186A PHE* 5.2 0.4 - - - -
230A ASN* 2.8 32.0 + - - +
234A PHE* 4.8 9.5 - - - -
300A HEM 3.1 22.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A TYR* 3.7 24.9 + + - -
81A LEU* 3.8 18.9 - - + +
82A GLU* 2.5 44.1 + - + +
85A MET* 3.1 25.3 - - + +
103A LEU* 3.9 50.7 - - + -
104A HIS* 4.8 0.7 - - - -
105A ARG* 4.1 8.5 - - + -
153A ALA* 2.8 37.9 + - + +
156A ARG* 1.3 68.9 - - - +
158A MET* 1.3 69.4 + - + +
160A ASP* 2.9 20.2 + - - +
161A LEU* 2.9 16.7 + - - +
189A PHE* 4.8 3.7 - + + -
202A TYR* 5.1 2.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LEU* 5.8 0.2 - - + -
154A TYR* 3.0 44.2 + - + +
157A TYR* 1.3 77.3 - - + +
159A GLY* 1.3 61.8 + - - +
161A LEU* 3.1 26.4 + - + +
162A SER* 3.0 19.3 + - - -
198A PHE* 5.3 0.2 - - + -
199A LYS* 3.4 43.8 - - + +
202A TYR* 3.5 46.9 - - + -
203A ARG* 5.3 5.6 - - - -
206A MET* 5.5 0.4 - - - +
300A HEM 3.8 22.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A THR 3.7 2.4 + - - -
156A ARG 3.5 6.3 + - - -
157A TYR 3.2 0.4 - - - -
158A MET* 1.3 78.6 - - - +
160A ASP* 1.3 62.8 + - - +
162A SER* 3.0 13.7 + - - -
163A GLY* 3.5 10.2 + - - -
164A GLY 4.6 0.2 + - - -
300A HEM 3.4 43.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A TYR* 2.4 41.3 + - - -
105A ARG* 4.6 0.3 - - - +
156A ARG* 2.9 24.5 + - - +
157A TYR* 2.9 15.3 + - - +
159A GLY* 1.3 77.6 - - - +
161A LEU* 1.3 56.9 + - - +
164A GLY* 3.4 23.7 + - - +
186A PHE* 4.5 13.8 - - - -
189A PHE* 3.8 29.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LEU* 4.0 8.3 - - + -
157A TYR 2.9 10.9 + - - +
158A MET* 3.1 32.9 + - + +
160A ASP* 1.3 77.1 - - - +
162A SER* 1.3 61.5 + - - +
164A GLY 4.8 0.8 + - - -
189A PHE* 3.9 33.2 - - + -
192A VAL* 4.3 11.4 - - + -
195A ALA* 3.3 40.7 - - + +
196A GLN* 5.8 0.2 - - - +
198A PHE* 3.4 30.7 - - + -
199A LYS* 3.8 17.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A MET 3.0 10.9 + - - -
159A GLY 3.0 8.9 + - - -
161A LEU* 1.3 79.2 - - - +
163A GLY* 1.3 59.1 + - - +
164A GLY 3.9 0.2 - - - -
199A LYS* 3.0 26.3 + - - +
300A HEM 3.2 43.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A GLY 3.5 6.0 + - - -
162A SER* 1.3 80.0 - - - +
164A GLY* 1.3 65.7 + - - +
165A GLN* 3.2 4.3 - - - -
166A VAL* 3.1 14.0 + - - +
167A LEU* 3.1 30.4 + - - +
300A HEM 6.0 2.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A GLY 4.6 0.4 + - - -
160A ASP* 3.4 23.5 + - - +
161A LEU 4.8 0.6 - - - -
162A SER 3.9 0.6 - - - -
163A GLY* 1.3 77.0 - - - +
165A GLN* 1.3 60.7 - - - +
167A LEU* 3.3 13.0 + - - +
168A LYS* 3.0 25.1 + - - +
187A TYR* 3.8 24.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A GLY* 3.2 1.7 - - - -
164A GLY* 1.3 76.7 - - - +
166A VAL* 1.3 73.1 + - + +
168A LYS* 3.5 23.3 - - - +
169A LYS* 3.1 40.1 + - - +
187A TYR 4.4 2.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A LEU* 4.4 19.5 - - + -
163A GLY* 3.1 13.5 + - - +
165A GLN* 1.3 90.1 - - + +
167A LEU* 1.3 68.9 + - + +
169A LYS* 3.0 17.7 + - - +
170A VAL* 3.0 19.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A VAL* 6.5 0.4 - - + -
57A PHE* 3.3 32.9 - - + -
58A LEU* 3.5 24.0 - - + -
163A GLY 3.1 16.4 + - - +
164A GLY* 3.7 10.5 - - - +
166A VAL* 1.3 78.1 - - + +
168A LYS* 1.3 63.6 + - - +
170A VAL* 3.3 3.1 + - - +
171A ALA* 2.9 26.7 + - - +
187A TYR* 3.9 28.0 - - + -
300A HEM 6.5 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A GLY 3.0 16.8 + - - +
165A GLN* 3.5 24.0 - - - +
167A LEU* 1.3 77.5 - - - +
169A LYS* 1.3 80.1 + - - +
171A ALA* 3.4 4.1 + - - +
172A GLN* 3.0 44.3 + - - +
181A GLY* 6.1 1.8 - - - -
184A THR* 4.0 24.0 - - - +
187A TYR* 3.7 26.7 + - + +
188A LEU* 4.6 30.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A GLN* 3.1 34.3 - - - +
166A VAL* 3.0 7.7 + - - +
168A LYS* 1.3 94.2 - - - +
170A VAL* 1.3 64.6 + - + +
172A GLN* 2.7 33.1 + - - +
173A ARG* 3.3 24.1 + - - +
179A SER* 5.1 11.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A PHE* 3.4 39.0 - - + +
58A LEU* 3.7 25.4 - - + +
60A GLY* 4.3 9.0 - - - +
166A VAL* 3.0 26.2 + - + +
167A LEU* 3.3 9.4 + - - +
169A LYS* 1.3 76.5 - - + +
171A ALA* 1.3 65.7 + - - +
173A ARG* 3.8 5.9 - - - +
174A ALA* 3.1 22.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A PHE* 4.4 8.3 - - + -
67A PHE* 3.9 32.3 - - + -
167A LEU 2.9 17.9 + - - +
168A LYS* 3.6 4.9 - - - +
170A VAL* 1.3 80.1 - - - +
172A GLN* 1.3 61.8 + - - +
174A ALA* 4.1 2.4 - - - -
175A LEU* 3.1 34.3 + - + +
177A LEU* 3.8 3.1 - - + -
184A THR* 4.2 11.7 - - + -
187A TYR* 5.0 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A LYS* 3.0 24.0 + - - +
169A LYS* 2.7 37.2 + - - +
171A ALA* 1.3 75.5 - - - +
173A ARG* 1.3 57.7 + - - +
176A LYS* 2.8 9.9 + - - -
177A LEU* 2.6 51.6 + - + +
178A PRO 2.8 22.9 + - - -
179A SER* 3.8 17.0 + - - +
181A GLY* 4.0 3.2 - - - +
184A THR* 3.4 25.9 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LYS 3.3 16.3 + - - +
170A VAL* 3.8 4.9 - - - +
172A GLN* 1.3 80.2 - - - +
174A ALA* 1.3 64.0 + - - +
175A LEU 3.6 0.2 + - - -
176A LYS* 3.6 18.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A GLY* 4.0 31.6 - - - +
62A ILE 4.6 8.7 - - - +
170A VAL* 3.1 17.7 + - + +
171A ALA* 4.2 3.1 - - - +
173A ARG* 1.3 81.2 - - + +
175A LEU* 1.3 69.3 + - + +
176A LYS* 3.4 4.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ILE 4.1 8.1 - - - +
63A LYS* 3.7 8.3 - - - -
64A LYS* 3.7 50.3 + - + +
67A PHE* 3.4 48.9 - - + -
116A PHE* 4.6 5.8 - - + -
171A ALA* 3.1 18.8 + - - +
174A ALA* 1.3 85.4 - - + +
176A LYS* 1.3 75.4 + - - +
177A LEU* 3.6 20.0 - - + +
----------------------------------------------------------
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