Contacts of the helix formed by residues 137 - 153 (chain A) in PDB entry 1UHG
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 ALA 137 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ASN* 3.3 23.9 - - - +
134A PHE 3.8 0.8 + - - -
135A GLN 3.7 0.2 - - - -
136A THR* 1.3 81.5 - - - +
138A ALA* 1.3 52.3 + - - +
139A ASP 3.4 2.2 - - - -
140A GLN* 2.9 37.5 + - + +
141A ALA 2.7 31.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A PHE 3.5 18.4 + - - +
136A THR 3.8 1.0 - - - -
137A ALA* 1.3 72.2 - - - +
139A ASP* 1.3 64.5 + - - +
141A ALA* 3.0 6.2 + - - +
142A ARG* 2.8 30.3 + - - +
166A VAL* 3.6 19.8 - - + +
167A ASP* 3.6 28.0 - - - -
168A SER 4.2 1.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ALA 3.4 0.4 - - - -
138A ALA* 1.3 80.1 - - - +
140A GLN* 1.3 62.8 + - - +
142A ARG* 3.5 15.7 + - - +
143A GLU* 3.1 22.7 + - - +
164A DSN 4.4 14.4 + - - -
166A VAL 4.7 3.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 140 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A ASN* 4.4 6.2 + - - +
137A ALA* 2.9 41.0 + - + +
139A ASP* 1.3 78.9 - - - +
141A ALA* 1.3 59.8 + - - +
143A GLU* 3.2 13.1 + - - +
144A LEU* 3.0 24.7 + - + +
189B LYS* 3.7 21.0 - - + +
341B VAL* 3.3 33.3 - - + +
342B VAL 3.3 24.9 + - - +
343B GLY* 4.9 5.2 - - - -
344B SEP 5.6 0.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ILE* 3.6 25.6 - - + -
133A ASN 3.6 15.3 - - - +
134A PHE* 3.7 21.5 - - + -
137A ALA 2.7 15.9 + - - +
138A ALA 3.5 8.1 - - - +
140A GLN* 1.3 75.1 - - - +
142A ARG* 1.3 56.5 + - - +
144A LEU* 3.2 5.7 + - - +
145A ILE* 2.9 35.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ALA 2.8 15.0 + - - +
139A ASP* 3.7 14.5 + - - +
141A ALA* 1.3 75.7 - - - +
143A GLU* 1.3 60.4 + - - +
145A ILE* 3.8 6.2 - - - +
146A ASN* 2.9 45.2 + - - +
159A ASN* 4.8 4.8 + - - +
161A LEU* 2.8 34.0 + - + +
162A GLN* 3.8 8.9 - - - +
163A PRO* 3.0 49.5 - - - +
164A DSN 4.7 2.7 - - - -
165A SER* 4.6 3.4 - - - +
166A VAL* 4.6 14.3 - - + +
74C GLY 5.4 0.8 + - - -
75C THR* 3.0 19.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A ASP 3.1 13.9 + - - +
140A GLN* 3.2 13.9 + - - +
142A ARG* 1.3 83.3 - - - +
144A LEU* 1.3 63.2 + - + +
146A ASN* 4.2 3.7 - - - +
147A SER* 3.0 32.8 + - - -
188B PHE 4.1 3.8 - - - +
189B LYS* 3.7 12.0 - - - +
190B ASP* 3.0 57.5 + - - +
191B GLU* 4.7 3.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A TYR* 4.6 3.7 + - + -
132A ILE* 3.8 28.3 - - + -
140A GLN* 3.0 18.1 + - + +
141A ALA* 3.2 8.3 + - - +
143A GLU* 1.3 79.6 - - + +
145A ILE* 1.3 60.7 + - - +
147A SER* 3.0 19.5 + - - +
148A TRP* 3.1 12.5 + - - +
187B ALA* 4.4 9.2 - - + -
338B GLY 3.6 23.5 - - - +
339B ARG 4.1 16.2 - - - +
340B GLU* 5.4 0.4 - - - -
341B VAL* 3.9 37.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A TYR* 3.7 52.2 + - + -
132A ILE* 4.0 3.4 - - + -
134A PHE* 3.9 26.0 - - + -
141A ALA 2.9 21.0 + - - +
142A ARG* 3.8 3.4 - - - +
143A GLU 3.3 0.2 - - - -
144A LEU* 1.3 75.5 - - - +
146A ASN* 1.3 64.3 + - - +
148A TRP* 3.2 12.5 + - - +
149A VAL* 3.2 15.6 + - + +
160A VAL* 4.8 0.2 - - + -
161A LEU* 3.5 32.1 - - + -
166A VAL* 5.3 0.2 - - + -
173A VAL* 4.7 3.6 - - + -
175A VAL* 3.7 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A ARG* 2.9 37.2 + - - +
143A GLU* 4.2 4.0 - - - +
145A ILE* 1.3 77.5 - - - +
147A SER* 1.3 58.0 + - - +
149A VAL* 3.5 2.1 + - - +
150A GLU* 3.0 30.8 + - - +
157A ILE 4.6 1.4 - - - +
159A ASN* 3.7 24.0 + - - +
160A VAL* 3.2 19.3 + - - +
161A LEU* 2.7 51.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLU* 3.0 22.3 + - - -
144A LEU* 3.0 18.2 + - - +
146A ASN* 1.3 74.5 - - - +
148A TRP* 1.3 60.1 + - - +
150A GLU* 3.9 7.6 - - - +
151A SER* 3.0 30.7 + - - -
183B LEU* 4.9 0.3 - - - +
190B ASP* 6.0 0.9 - - - -
337B ALA* 3.9 29.6 - - - +
338B GLY 4.4 6.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ALA* 3.8 24.2 - - + -
103A SER 3.8 20.0 - - - -
104A ARG* 3.4 52.4 - - + +
106A TYR* 3.4 28.9 - + - +
127A GLY* 4.4 4.0 - - - -
144A LEU 3.1 8.1 + - - +
145A ILE 3.2 4.7 + - - +
147A SER* 1.3 79.6 + - - +
149A VAL* 1.3 79.2 + - + +
151A SER* 3.4 3.5 + - - -
152A GLN* 2.9 55.1 + - + +
175A VAL* 4.2 6.3 - - + -
95B ASP* 2.9 31.5 + - + -
183B LEU* 3.4 31.9 - - + -
338B GLY 6.1 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ALA* 4.6 7.6 - - + +
145A ILE 3.2 12.4 + - - +
146A ASN 3.8 6.7 - - - +
148A TRP* 1.3 96.1 - - + +
150A GLU* 1.3 62.8 + - - +
152A GLN 3.3 1.6 + - - -
153A THR* 3.0 27.0 + - + +
157A ILE* 3.7 32.8 - - + +
160A VAL* 4.0 24.2 - - + +
175A VAL* 4.2 17.7 - - + -
177A ALA* 3.8 17.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ASN* 3.0 19.0 + - - +
147A SER* 3.9 8.6 - - - +
149A VAL* 1.3 77.1 - - - +
151A SER* 1.3 59.6 + - - +
153A THR* 3.2 7.4 + - - -
155A GLY* 2.7 50.8 + - - +
157A ILE 3.3 13.4 + - - +
158A ARG* 3.9 32.6 - - + +
159A ASN* 5.0 3.1 + - - +
1401B SO4 4.4 12.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A SER 3.0 19.8 + - - -
148A TRP 3.7 3.8 - - - -
149A VAL 3.4 0.2 - - - -
150A GLU* 1.3 76.9 - - - +
152A GLN* 1.3 68.6 + - - +
153A THR 3.5 0.3 + - - -
154A ASN* 3.8 6.4 + - - -
155A GLY 4.9 0.4 - - - +
98B SER* 4.9 5.0 - - - -
181B LYS* 3.2 52.3 + - - +
182B GLY 4.4 5.9 + - - -
183B LEU* 3.7 22.7 + - - +
337B ALA* 4.5 2.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A SER* 3.9 16.1 + - - -
101A LEU 5.5 4.0 + - - +
102A ALA* 4.0 17.9 - - + +
148A TRP* 2.9 45.3 + - + +
149A VAL 3.3 3.3 + - - +
151A SER* 1.3 85.2 + - - +
153A THR* 1.3 59.4 + - - +
154A ASN* 3.5 2.3 + - - -
94B ASN 2.7 29.9 + - - -
95B ASP* 3.5 17.9 - - - +
96B VAL 3.9 17.0 - - - +
97B TYR* 3.9 11.2 + - - -
98B SER* 4.7 8.6 + - - -
181B LYS 5.2 0.5 - - - +
183B LEU* 5.6 1.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A SER* 4.7 8.3 - - - +
102A ALA* 4.3 15.9 - - + -
149A VAL 3.0 18.1 + - - +
150A GLU 3.2 5.1 + - - -
152A GLN* 1.3 80.6 - - - +
154A ASN* 1.3 67.3 + - - +
155A GLY 3.2 0.2 - - - -
156A ILE* 3.0 25.1 + - - +
157A ILE* 3.0 46.0 + - + +
177A ALA* 4.4 7.4 - - + +
179A VAL* 3.6 20.1 - - + +
----------------------------------------------------------
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