Contacts of the strand formed by residues 157 - 166 (chain A) in PDB entry 7MHN
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 VAL 157 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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12A LYS* 3.6 34.5 - - + -
13A VAL* 4.1 8.7 - - + -
99A PRO* 4.1 9.2 - - + -
100A LYS 3.0 13.1 + - - +
101A TYR* 2.8 30.7 - - + +
102A LYS 2.9 5.0 + - - +
150A PHE* 3.7 27.6 - - + -
152A ILE* 3.7 16.4 - - + +
155A ASP 5.5 1.8 - - - +
156A CYS* 1.3 69.5 - - - +
158A SER* 1.3 60.6 + - - +
159A PHE* 3.6 30.7 + - + -
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Residues in contact with SER 158 (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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102A LYS* 3.5 10.3 - - - -
104A VAL* 4.3 14.6 - - - +
150A PHE* 3.3 14.8 - - - -
151A ASN* 2.4 47.5 + - - +
152A ILE* 2.8 10.1 + - - +
153A ASP* 2.6 35.6 + - - -
157A VAL* 1.3 71.8 - - - +
159A PHE* 1.3 61.1 + - - +
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Residues in contact with PHE 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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13A VAL* 4.2 20.4 - - + -
16A CYS* 4.7 7.2 - - - -
30A LEU* 3.7 36.1 - - + -
32A LEU* 4.2 15.0 - - + -
99A PRO* 4.8 3.1 - - + -
101A TYR* 3.5 30.3 - + + -
102A LYS 2.9 18.4 + - - +
103A PHE* 3.5 17.0 - + + +
104A VAL 3.4 22.0 + - - +
148A VAL* 4.2 12.6 - - + -
149A GLY 3.5 6.3 - - - +
150A PHE* 4.4 2.2 - - + -
157A VAL* 3.6 24.7 - - + -
158A SER* 1.3 69.8 - - - +
160A CYS* 1.3 59.4 + - - +
161A TYR 3.8 0.2 - - - -
177A LEU* 3.9 24.3 + - + +
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Residues in contact with CYS 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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104A VAL 3.6 8.5 - - - +
106A ILE* 3.6 31.9 - - + -
112A PHE* 3.5 31.4 - - - -
149A GLY 2.9 11.5 + - - -
151A ASN* 2.9 31.2 - - - +
158A SER* 3.4 0.6 + - - +
159A PHE* 1.3 75.0 - - - +
161A TYR* 1.3 60.8 + - - +
176A ASP* 3.8 3.9 - - - -
177A LEU* 4.2 4.9 - - - -
182A TYR* 2.6 32.2 + - - -
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Residues in contact with TYR 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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106A ILE* 6.2 0.2 - - + -
112A PHE* 3.6 34.3 - + + -
114A VAL* 5.0 2.5 - - + -
130A MET* 4.6 8.3 - - + -
136A ILE* 3.8 27.8 - - + +
140A PHE* 4.6 4.0 - + - -
147A SER 4.5 1.8 - - - -
148A VAL* 3.1 12.6 - - - +
149A GLY* 2.7 34.2 + - - +
160A CYS* 1.3 81.0 - - - +
162A MET* 1.3 65.7 + - - +
163A HIS* 3.3 33.0 + - + -
173A ALA* 3.1 29.6 + - - -
174A GLY* 3.5 19.3 - - - -
175A THR 3.3 9.0 - - - -
177A LEU* 3.7 7.1 - - - +
182A TYR* 4.1 14.1 - + + -
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Residues in contact with MET 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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28A ASN 4.5 0.4 - - - +
30A LEU* 4.5 5.8 - - + +
37A TYR* 3.5 18.2 - - + +
38A CYS* 3.4 30.5 - - - +
39A PRO* 3.7 16.4 - - - -
86A VAL* 4.1 16.8 - - - -
146A GLY* 3.6 33.4 - - - +
147A SER 3.5 3.1 - - - -
148A VAL* 4.5 9.0 - - + -
161A TYR* 1.3 77.8 - - - +
163A HIS* 1.3 66.0 + - - +
164A HIS* 3.3 5.3 - - - +
174A GLY* 3.1 5.5 - - - -
175A THR* 2.8 43.7 + - - +
176A ASP 4.6 1.1 - - - +
177A LEU* 4.5 15.0 - - + -
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Residues in contact with HIS 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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39A PRO* 3.8 3.5 - - - +
140A PHE* 3.5 53.0 - + + +
144A SER* 4.0 12.5 + - - +
145A CYS* 3.5 19.4 - - - -
146A GLY 2.9 26.8 + - - +
147A SER 3.0 16.0 + - - +
161A TYR* 3.3 26.8 + - + -
162A MET* 1.3 72.7 - - - +
164A HIS* 1.3 64.8 + - - +
165A MET 3.1 35.9 + - - -
166A GLU* 4.3 2.4 + - - +
172A HIS* 3.7 11.8 - + + -
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Residues in contact with HIS 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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39A PRO* 3.6 25.3 - - + +
41A HIS* 3.3 32.6 + - + +
85A CYS* 3.3 29.6 - - + -
86A VAL* 4.3 1.0 - - + +
145A CYS* 3.6 10.7 - - - -
162A MET* 3.3 28.1 - - + +
163A HIS* 1.3 81.2 - - - +
165A MET* 1.3 60.6 + - + +
173A ALA 3.1 7.5 + - - +
175A THR* 3.1 34.3 + - + -
181A PHE* 3.8 27.2 - + + -
187A ASP* 4.6 6.9 + - + +
403A ZN 4.0 0.5 - - - -
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Residues in contact with MET 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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163A HIS* 3.1 14.4 - - - -
164A HIS* 1.3 80.7 - - + +
166A GLU* 1.3 73.1 - - - +
167A LEU* 3.0 45.3 - - + +
168A PRO* 4.7 1.1 - - + -
172A HIS* 3.5 0.3 - - - -
173A ALA* 2.9 47.2 + - + +
181A PHE* 5.1 5.4 - - + -
185A PHE* 4.6 9.2 - - - -
186A VAL 4.4 4.9 - - - +
187A ASP* 6.0 2.7 - - - -
188A ARG 3.9 9.6 - - - +
189A GLN* 5.4 1.3 - - - -
190A THR 3.7 11.4 - - - +
192A GLN* 3.3 30.1 - - - +
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Residues in contact with GLU 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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140A PHE* 3.8 14.4 - - + +
163A HIS* 4.3 3.2 + - - +
165A MET* 1.3 81.4 - - - +
167A LEU* 1.3 74.9 + - - +
168A PRO* 3.9 1.9 - - - +
170A GLY* 4.2 12.0 - - - +
171A VAL 3.6 9.9 - - - +
172A HIS* 3.1 28.2 + - + -
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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