Contacts of the helix formed by residues 158 - 175 (chain A) in PDB entry 1ORZ
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 ARG 158 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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64A VAL 5.5 0.4 - - - -
66A ALA 4.0 1.3 - - - -
155A VAL 3.7 7.6 - - - +
156A ALA* 3.1 4.6 - - + -
157A ASP* 1.3 78.1 - - + +
159A THR* 1.3 52.9 + - - +
160A GLY 3.2 2.7 - - - -
161A HIS* 2.7 42.3 + - + -
162A ALA* 3.0 7.3 + - - -
344A PRO* 5.0 14.9 + - + +
345A GLY* 5.2 16.3 - - - +
71B ILE* 6.2 2.7 - - + +
157B TYR* 4.0 33.9 + - + -
158B GLU* 3.2 43.8 + - - +
228B LYS* 4.0 31.9 + - - +
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Residues in contact with THR 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A ALA 3.5 1.6 + - - -
67A GLN 2.7 27.0 + - - +
69A GLY* 3.3 19.7 + - - -
70A ILE* 5.2 5.7 - - - +
121A VAL* 5.8 0.3 - - - +
123A PHE* 6.4 0.4 - - + -
153A CYS 4.5 0.9 - - - +
154A ALA* 3.5 13.7 - - + -
155A VAL* 2.8 44.5 + - + +
156A ALA 3.6 4.5 - - - +
157A ASP 3.5 2.2 + - - -
158A ARG* 1.3 71.5 - - - +
160A GLY* 1.3 63.4 + - - +
162A ALA* 3.2 4.0 + - - +
163A LEU* 2.9 24.7 + - - +
422A LEU* 4.1 8.3 - - - +
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Residues in contact with GLY 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A THR 3.4 20.6 - - - +
66A ALA* 2.6 31.8 + - - -
159A THR* 1.3 73.3 + - - +
161A HIS* 1.3 51.8 + - - +
163A LEU* 3.1 9.0 + - - +
164A LEU* 2.7 38.5 + - - +
422A LEU* 4.4 4.7 - - - -
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Residues in contact with HIS 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A VAL* 3.2 36.3 + - + +
158A ARG* 2.7 30.3 + - + +
160A GLY* 1.3 71.2 - - - +
162A ALA* 1.3 65.1 + - - +
165A HIS* 2.7 69.0 + + + -
71B ILE* 4.6 10.5 - - + -
157B TYR* 3.2 32.1 + - - -
158B GLU* 3.4 16.4 + - - -
159B CYS 3.2 16.0 + - - -
160B ILE* 4.1 4.8 - - + -
228B LYS* 5.7 2.2 - - - -
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Residues in contact with ALA 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A VAL* 4.1 9.2 - - + -
122A PRO* 3.9 32.5 - - + +
155A VAL* 4.6 9.9 - - + -
158A ARG* 3.0 10.0 + - - +
159A THR* 3.6 11.4 - - - +
161A HIS* 1.3 82.2 + - - +
163A LEU* 1.3 58.8 + - - +
165A HIS* 3.9 2.4 - - - +
166A THR* 2.8 34.3 + - - -
157B TYR* 4.8 6.7 - - + -
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Residues in contact with LEU 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A GLY* 4.9 15.5 - - - -
63A THR* 5.5 2.5 - - - -
70A ILE* 4.6 15.9 - - + -
116A LEU* 3.7 35.2 - - + -
121A VAL* 4.8 7.8 - - + +
123A PHE* 6.4 0.4 - - + -
159A THR 2.9 17.5 + - - +
160A GLY* 3.4 5.2 - - - +
162A ALA* 1.3 78.0 - - - +
164A LEU* 1.3 63.4 + - - +
166A THR* 3.9 3.9 - - - -
167A LEU* 3.2 30.3 + - + +
422A LEU* 4.0 39.3 - - + +
425A LEU* 5.1 2.0 - - + -
426A VAL* 4.3 18.2 - - + -
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Residues in contact with LEU 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32A ALA 5.5 0.2 - - - +
33A GLY 5.8 0.2 - - - -
34A GLY* 5.8 3.4 - - - +
37A LEU* 4.0 9.8 - - + +
58A PRO 3.6 6.5 - - - +
59A THR* 3.2 50.9 - - + +
61A SER* 3.2 15.7 - - - +
63A THR* 2.9 27.6 - - - +
64A VAL* 3.2 20.9 - - + +
160A GLY 2.7 19.9 + - - +
161A HIS* 4.0 2.9 - - - +
163A LEU* 1.3 78.1 - - - +
165A HIS* 1.3 69.6 + - + +
167A LEU* 3.3 5.6 + - - +
168A TYR* 3.0 20.3 + - + -
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Residues in contact with HIS 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A THR* 3.8 33.2 + - + +
64A VAL* 4.4 5.3 - - + +
161A HIS* 2.7 65.5 + + + +
162A ALA* 4.1 2.5 - - - +
164A LEU* 1.3 80.5 - - + +
166A THR* 1.3 67.8 + - - +
168A TYR* 3.1 7.1 + - - +
169A GLY* 2.8 20.4 + - - -
124B TYR* 5.2 9.0 + - - +
157B TYR 5.4 0.9 - - - +
159B CYS 3.5 18.1 + - - -
160B ILE* 4.2 7.2 + - - -
161B LEU* 4.1 15.2 - - + +
187B GLN* 6.0 0.4 + - - -
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Residues in contact with THR 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A LEU* 5.1 1.8 - - + -
119A TYR* 3.6 41.3 - - + +
120A GLY 4.2 2.2 + - - -
121A VAL* 3.6 32.4 - - + +
122A PRO* 3.8 5.7 - - - +
162A ALA 2.8 22.5 + - - -
163A LEU 3.9 2.5 - - - -
165A HIS* 1.3 75.1 - - - +
167A LEU* 1.3 65.7 + - - +
169A GLY* 2.8 13.0 + - - -
170A GLN* 2.9 14.4 + - - +
191B TRP* 6.2 2.5 - - + -
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Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A GLY* 3.5 29.6 - - - +
37A LEU* 3.9 19.3 - - + +
38A ARG* 4.2 27.6 - - + +
41A PHE* 6.0 1.3 - - + -
116A LEU* 3.4 28.0 - - + -
119A TYR* 5.1 0.4 - - + -
163A LEU* 3.2 30.9 + - + +
164A LEU* 3.8 4.3 - - - +
166A THR* 1.3 78.6 - - - +
168A TYR* 1.3 62.7 + - - +
170A GLN* 3.0 29.6 - - + +
171A ALA* 3.0 19.6 + - - +
426A VAL* 4.7 4.5 - - + -
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Residues in contact with TYR 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A LEU* 3.9 10.9 - - + +
57A PHE* 2.9 40.6 - + - -
58A PRO* 3.9 29.6 - - + -
59A THR* 4.2 16.8 - - + -
164A LEU* 3.0 14.9 + - + +
165A HIS* 3.1 13.2 + - - +
167A LEU* 1.3 76.3 - - - +
169A GLY* 1.3 59.2 + - - +
171A ALA* 2.9 20.5 + - + +
172A LEU* 2.7 62.8 + - + +
178A PHE* 5.6 7.2 - + + +
121B TYR* 5.1 4.5 - + - +
124B TYR* 4.9 17.0 - + - -
161B LEU* 5.4 2.9 - - + -
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Residues in contact with GLY 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165A HIS 2.8 13.8 + - - -
166A THR* 2.8 4.9 + - - -
168A TYR* 1.3 78.9 - - - +
170A GLN* 1.3 60.4 + - - +
172A LEU* 3.0 26.7 + - - +
173A ARG 3.1 5.4 + - - -
124B TYR* 5.7 2.5 - - - -
129B PRO* 4.4 19.7 - - - -
130B TYR* 4.0 14.0 - - - +
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Residues in contact with GLN 170 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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38A ARG* 5.6 0.3 - - - -
41A PHE* 3.7 25.5 - - + -
119A TYR* 2.9 67.1 + - + +
166A THR* 2.9 18.8 + - - +
167A LEU* 3.0 39.1 + - + +
169A GLY* 1.3 74.5 - - - +
171A ALA* 1.3 64.6 + - - +
173A ARG* 3.0 7.0 + - + +
174A HIS* 2.7 43.3 + - + +
130B TYR* 4.9 4.2 - - + +
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Residues in contact with ALA 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A LEU* 5.3 10.8 - - + -
40A ALA* 6.5 0.2 - - + -
41A PHE* 5.7 4.9 - - + +
167A LEU 3.0 10.7 + - - +
168A TYR* 2.9 21.1 + - + +
170A GLN* 1.3 76.7 - - - +
172A LEU* 1.4 56.5 + - + +
174A HIS* 3.5 4.7 - - - -
175A ASP* 2.7 29.8 + - - -
176A THR* 3.1 36.0 + - + +
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Residues in contact with LEU 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A TYR* 2.7 70.4 - - + +
169A GLY* 3.1 12.1 - - - +
170A GLN 3.0 0.2 - - - -
171A ALA* 1.4 80.2 - - + +
173A ARG* 1.3 63.4 + - - +
175A ASP* 3.1 14.0 + - - +
124B TYR* 5.1 11.0 - - + -
125B LYS* 4.3 29.6 - - + -
129B PRO* 5.1 7.6 - - + -
130B TYR* 4.9 8.1 - - + -
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Residues in contact with ARG 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119A TYR* 5.4 10.1 - - - -
169A GLY 3.1 3.8 + - - +
170A GLN* 3.0 12.2 + - - +
172A LEU* 1.3 79.2 - - - +
174A HIS* 1.3 87.6 + - + +
175A ASP* 3.2 4.9 + - - +
130B TYR* 3.8 49.5 - - + +
131B LEU 5.3 5.7 + - - -
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Residues in contact with HIS 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41A PHE* 2.8 46.9 - + + -
44A ALA* 5.0 16.4 - - + +
45A GLU* 3.4 18.9 + - - -
119A TYR* 5.6 1.3 - + - -
170A GLN* 2.7 32.2 + - + +
171A ALA* 4.0 4.7 - - - +
173A ARG* 1.3 110.7 + - + +
175A ASP* 1.3 71.5 + - - +
176A THR* 3.3 4.5 + - - +
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Residues in contact with ASP 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A ALA 2.7 11.3 + - - -
172A LEU* 3.1 10.5 + - - +
173A ARG 3.1 6.4 - - - +
174A HIS* 1.3 82.9 - - - +
176A THR* 1.3 64.4 + - - +
177A HIS* 3.7 1.9 + - - -
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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
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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