Contacts of the helix formed by residues 155 - 168 (chain A) in PDB entry 4Z4H
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 PRO 155 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142A ALA* 4.3 16.8 - - + +
143A LEU* 4.3 6.5 - - + -
146A ALA* 3.5 20.2 - - + -
151A LEU* 4.5 6.7 - - + -
153A SER 3.7 3.8 - - - +
154A VAL* 1.3 85.1 - - + +
156A PHE* 1.3 64.2 + - - +
157A GLU* 3.3 3.6 - - + +
158A THR* 3.1 33.6 + - - +
159A ILE* 3.4 12.5 + - - +
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Residues in contact with PHE 156 (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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154A VAL* 3.2 8.6 + - - +
155A PRO* 1.3 71.1 - - - +
157A GLU* 1.3 63.8 + - + +
159A ILE* 2.9 14.4 + - + -
160A GLN* 2.8 74.0 + - + +
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Residues in contact with GLU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A TYR* 4.7 3.1 + - - -
136A SER* 5.5 2.8 + - - -
138A VAL* 4.5 15.0 - - + +
155A PRO* 3.3 2.2 - - + -
156A PHE* 1.3 90.0 - - + +
158A THR* 1.3 60.6 + - - +
160A GLN* 3.7 13.1 - - - +
161A ALA* 3.3 21.5 + - - +
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Residues in contact with THR 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A VAL* 3.8 19.9 - - + +
139A SER 4.1 9.6 + - - +
140A LEU* 3.7 28.4 - - + +
142A ALA* 5.7 0.5 - - - +
143A LEU* 3.8 26.2 - - + -
155A PRO* 3.1 30.0 + - - +
156A PHE 3.0 0.6 - - - -
157A GLU* 1.3 77.5 - - - +
159A ILE* 1.3 65.5 + - - +
160A GLN 3.2 0.2 - - - -
161A ALA* 3.2 3.3 + - - +
162A LEU* 3.2 22.6 + - - +
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Residues in contact with ILE 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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143A LEU* 3.7 22.4 - - + -
154A VAL* 3.7 18.2 - - + -
155A PRO 3.6 13.7 - - - +
156A PHE* 2.9 14.4 + - + +
158A THR* 1.3 77.3 - - - +
160A GLN* 1.3 63.3 + - - +
162A LEU* 3.4 7.9 + - - +
163A ASP* 3.1 21.9 + - + +
206A VAL* 3.9 29.0 - - + +
208A PRO* 4.1 13.2 - - + -
213A MET* 3.6 26.5 - - + -
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Residues in contact with GLN 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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95A ASP* 5.3 9.7 + - - +
99A ASN* 5.3 10.1 - - - +
101A TYR* 4.5 13.1 + - - +
156A PHE* 2.8 52.3 + - + +
157A GLU* 3.7 13.3 - - - +
159A ILE* 1.3 78.6 - - - +
161A ALA* 1.3 62.8 + - - +
163A ASP* 3.2 8.6 + - + +
164A VAL* 3.2 28.7 + - + +
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Residues in contact with ALA 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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54A ILE* 3.8 22.4 - - + -
101A TYR* 3.5 38.4 + - + -
138A VAL* 4.5 4.9 - - + -
157A GLU 3.3 9.2 + - - +
158A THR 3.2 9.5 + - - +
160A GLN* 1.3 78.9 - - - +
162A LEU* 1.3 62.8 + - - +
164A VAL* 3.1 5.5 + - - +
165A VAL* 3.1 25.8 + - - +
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Residues in contact with LEU 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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47A MET* 5.4 2.2 - - + -
49A ILE* 3.9 29.6 - - + -
54A ILE* 5.8 2.0 - - + -
140A LEU* 4.2 15.3 - - + -
143A LEU* 3.5 31.6 - - + -
158A THR 3.2 10.1 + - - +
159A ILE* 3.4 8.7 + - - +
161A ALA* 1.3 78.1 - - - +
163A ASP* 1.3 61.1 - - - +
165A VAL* 3.2 8.5 + - + +
166A MET* 3.1 28.5 + - - +
206A VAL* 4.2 12.6 - - + -
213A MET* 4.0 18.6 - - + -
399A ILE* 3.5 29.6 - - + -
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Residues in contact with ASP 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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95A ASP* 5.6 0.9 - - - +
159A ILE* 3.1 14.5 + - + +
160A GLN* 3.4 13.5 - - + +
161A ALA 3.2 0.2 - - - -
162A LEU* 1.3 77.4 - - - +
164A VAL* 1.3 60.3 + - + +
166A MET* 3.3 3.1 + - - +
167A ARG* 2.8 75.6 + - - +
204A GLN* 5.8 1.0 + - - +
205A SER* 4.3 1.6 - - - -
206A VAL* 3.9 29.8 + - + +
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Residues in contact with VAL 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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93A VAL* 4.0 8.0 - - + +
94A PHE* 3.5 40.2 - - - +
95A ASP* 3.4 32.5 - - + +
101A TYR* 4.1 19.3 - - + -
160A GLN* 3.2 21.2 + - + +
161A ALA 3.1 7.7 + - - +
163A ASP* 1.3 74.6 - - + +
165A VAL* 1.3 65.6 + - - +
167A ARG* 3.8 5.3 - - - +
168A HIS* 3.1 23.2 + - - +
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Residues in contact with VAL 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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54A ILE* 5.5 2.7 - - + -
93A VAL* 3.9 24.4 - - + +
101A TYR* 5.4 1.6 - - + -
161A ALA 3.1 17.5 + - - +
162A LEU* 3.4 12.6 - - + +
163A ASP 3.2 0.2 - - - -
164A VAL* 1.3 78.1 - - - +
166A MET* 1.3 64.1 + - - +
167A ARG 3.3 0.5 + - - -
168A HIS* 3.5 11.8 + - - +
169A LEU 4.9 1.0 + - - -
391A ASP* 5.1 1.2 - - - +
393A TYR* 4.0 24.4 - - - +
394A VAL* 4.1 14.9 - - - +
397A PHE* 4.0 27.1 - - + -
399A ILE* 3.9 23.8 - - + -
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Residues in contact with MET 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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47A MET* 3.9 16.8 - - + -
162A LEU 3.1 16.6 + - - +
163A ASP* 3.3 3.8 + - - +
165A VAL* 1.3 76.2 - - - +
167A ARG* 1.3 55.5 + - - +
168A HIS 3.5 0.2 - - - -
170A PRO* 3.4 16.0 - - - +
204A GLN* 2.8 29.6 + - - +
206A VAL* 4.0 21.8 - - + -
215A LEU* 4.1 11.4 - - + -
388A PHE* 3.7 35.8 - - + -
391A ASP* 5.0 2.5 - - - +
394A VAL* 3.9 21.9 - - + +
399A ILE* 4.3 14.1 - - + -
401A VAL* 3.9 20.4 - - + -
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Residues in contact with ARG 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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72A ARG* 5.5 2.5 - - - +
95A ASP* 6.2 0.2 - - - -
163A ASP* 2.8 48.0 + - - +
164A VAL* 4.1 4.9 - - - +
165A VAL 3.2 0.2 - - - -
166A MET* 1.3 78.4 - - - +
168A HIS* 1.3 63.0 + - - +
169A LEU 3.5 1.3 - - - -
170A PRO* 3.6 5.8 - - - -
171A SER* 2.4 38.8 + - - +
178A GLY 4.6 2.7 + - - -
179A ARG* 3.0 54.5 + - - +
181A PHE* 3.5 22.8 - - + -
204A GLN* 2.3 40.4 + - - +
205A SER* 4.0 1.6 - - - +
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Residues in contact with HIS 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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72A ARG* 4.8 8.9 + - + +
75A VAL* 6.0 2.9 - - + -
92A PRO 3.7 3.1 + - - -
93A VAL* 3.6 20.9 - - + -
94A PHE* 3.0 42.5 + - + -
164A VAL 3.1 15.5 + - - +
165A VAL 3.8 4.5 - - - +
166A MET 3.5 1.4 - - - -
167A ARG* 1.3 80.0 - - - +
169A LEU* 1.3 65.5 + - - +
171A SER* 3.4 11.2 + - - -
172A MET* 3.8 29.9 - - + +
393A TYR* 3.5 51.9 + + + -
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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