Contacts of the strand formed by residues 182 - 192 (chain A) in PDB entry 2QH5
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 PHE 182 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A SER* 4.9 0.9 - - - -
143A ILE* 3.4 29.8 + - + +
152A TYR* 4.2 12.3 - + + -
153A ILE 3.5 12.8 - - - -
154A GLU* 3.4 45.8 - - + -
163A ARG* 4.1 2.5 - - - -
165A ILE* 3.7 20.0 - - + -
176A PHE* 3.6 67.1 - + + +
179A SER* 4.5 8.1 - - - -
180A GLY* 3.3 11.6 - - - -
181A GLY* 1.3 78.7 - - - +
183A TYR* 1.3 67.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 183 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A GLY* 3.8 20.9 - - - -
141A VAL 3.4 21.1 - - - +
142A SER* 4.1 12.1 - - - -
143A ILE* 4.0 6.0 - - - +
152A TYR* 3.5 6.2 - - - +
153A ILE* 2.9 37.7 + - + +
155A SER* 3.2 32.0 + - - -
156A PRO 5.5 1.0 + - - -
158A GLY* 4.0 6.9 + - - -
181A GLY* 4.3 8.1 - - - -
182A PHE* 1.3 80.7 - - - +
184A PHE* 1.3 59.7 + - - +
257A MET* 3.7 31.2 - - + -
259A GLU* 3.8 29.5 + - + -
261A ASN* 6.1 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 184 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A PHE 3.5 2.4 - - - +
140A GLY* 3.6 1.4 - - - -
141A VAL* 2.7 53.0 + - + +
142A SER 4.8 0.7 - - - -
143A ILE* 3.6 41.8 - - + +
144A ASP* 4.4 6.5 - - - -
145A LYS 3.3 26.0 - - - -
147A ASN* 3.9 15.0 - - - -
150A PHE* 3.6 36.1 - + + -
151A GLY 3.5 4.3 - - - -
152A TYR* 3.6 29.4 - + - -
153A ILE* 4.5 0.7 - - - -
183A TYR* 1.3 72.6 - - - +
185A ASN* 1.3 69.0 + - - +
186A SER 3.4 1.2 + - - -
264A TRP* 5.1 7.4 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 185 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A THR* 2.9 23.7 + - - -
139A PHE 3.9 0.2 - - - +
150A PHE* 4.0 21.7 - - - -
151A GLY* 2.7 25.1 + - - +
153A ILE* 3.8 11.4 - - + +
164A PHE* 3.2 23.4 - - + -
183A TYR 3.6 1.6 + - - -
184A PHE* 1.3 72.7 - - - +
186A SER* 1.3 70.5 + - - +
187A GLY* 3.2 17.2 + - - +
188A MET 4.4 0.2 - - - +
189A PHE* 3.9 9.5 - - - -
245A ASP* 2.7 29.5 + - - -
264A TRP* 4.6 0.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 186 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A PRO* 4.7 0.2 - - - +
112A HIS* 3.1 29.1 + - - -
139A PHE* 3.0 37.4 + - - +
141A VAL* 4.4 6.3 - - - -
150A PHE* 5.7 0.6 - - - -
184A PHE 3.4 1.5 + - - -
185A ASN* 1.3 76.1 + - - +
187A GLY* 1.3 55.6 + - - +
188A MET* 3.0 23.8 + - - +
260A LEU* 4.0 15.7 - - - -
264A TRP* 3.5 22.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 187 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 5.5 1.7 - - - +
107A VAL* 4.4 2.6 - - - +
109A PRO* 3.6 21.2 - - - +
185A ASN* 3.2 22.8 + - - -
186A SER* 1.3 77.9 + - - +
188A MET* 1.3 59.4 + - - +
189A PHE* 3.3 21.2 - - - -
245A ASP* 5.5 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 188 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A ARG* 5.8 0.4 - - - -
106A ILE* 5.3 1.3 - - + -
107A VAL 3.3 8.5 - - - +
108A THR* 3.9 14.1 - - + -
109A PRO* 4.0 6.1 - - + -
112A HIS* 3.8 22.4 - - + +
114A ILE* 4.4 9.4 - - - -
120A TYR* 3.4 38.6 - - + +
124A ILE* 4.1 13.9 - - + -
138A THR* 4.1 5.2 + - - -
139A PHE* 3.9 24.1 - - + -
186A SER* 3.0 15.4 + - - +
187A GLY* 1.3 80.2 - - - +
189A PHE* 1.3 74.9 + - - +
260A LEU* 3.8 23.8 - - - -
264A TRP* 5.2 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 189 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ILE* 4.6 5.6 - - + -
105A LEU 4.4 0.2 - - - -
106A ILE* 4.6 0.5 - - - +
107A VAL* 2.7 52.2 + - + +
137A VAL 3.3 13.9 - - - -
138A THR* 3.6 21.1 - - - -
139A PHE* 4.3 1.7 - - - -
164A PHE* 5.3 0.7 - + - -
185A ASN* 3.9 20.4 - - - -
187A GLY* 3.3 28.3 - - - -
188A MET* 1.3 80.4 - - - +
190A VAL* 1.3 65.4 + - - +
191A PHE* 3.4 23.3 - + + -
244A ILE* 3.5 32.5 - - + -
245A ASP* 4.1 4.0 - - - -
249A MET* 3.7 32.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 190 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LEU* 5.3 1.3 - - + -
105A LEU 3.2 14.1 - - - +
106A ILE* 4.2 19.7 - - + -
124A ILE* 4.8 2.7 - - + +
127A ALA* 3.8 29.4 - - + +
128A ILE* 3.9 26.2 - - + -
131A ALA* 3.9 15.9 - - + -
137A VAL* 2.7 43.9 + - + +
139A PHE* 3.8 12.1 - - + -
188A MET* 6.1 0.2 - - + -
189A PHE* 1.3 80.1 - - - +
191A PHE* 1.3 69.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 191 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A ILE* 3.9 14.6 - - + -
104A LEU* 4.4 1.3 - - - -
105A LEU* 2.9 39.4 + - + +
107A VAL* 3.8 24.9 - - + -
131A ALA* 4.0 8.7 - - - -
135A PHE 3.9 10.8 - - - +
136A LEU* 3.6 39.0 - - + -
137A VAL 4.5 0.7 - - - -
189A PHE* 3.4 32.3 - + + -
190A VAL* 1.3 83.0 - - - +
192A GLN* 1.3 66.1 + - - +
195A VAL* 5.1 0.7 - - + -
196A PHE* 3.8 31.4 - + + -
249A MET* 4.0 18.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 192 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LYS* 3.2 23.6 - - - +
102A GLU* 3.6 23.0 + - - +
103A ASP 3.5 11.9 - - - +
104A LEU* 3.9 17.9 - - + +
131A ALA* 4.4 8.1 + - - +
135A PHE 4.8 0.2 + - - -
191A PHE* 1.3 77.9 - - - +
193A ALA* 1.3 64.9 + - - +
194A GLY* 3.3 3.3 + - - -
195A VAL* 3.3 37.7 + - + +
196A PHE* 3.0 23.1 + - - +
----------------------------------------------------------
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