Contacts of the strand formed by residues 149 - 155 (chain A) in PDB entry 3ZWG
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 TRP 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A GLY* 1.3 71.6 - - - -
150A HIS* 1.3 61.5 + - - +
151A SER* 4.3 2.0 + - - +
161A ARG* 3.3 43.1 - - + -
162A GLY* 3.5 37.0 - - - -
163A PHE* 3.5 28.3 - + + -
173A GLU* 3.8 26.0 - - + -
175A HIS* 4.4 1.3 - + - -
47B ALA* 3.5 32.7 - - + +
48B MET* 2.7 17.2 + - - +
60B VAL* 3.3 22.4 - - + -
61B LEU* 2.9 22.5 + - + -
63B HIS* 3.7 24.7 + - + +
127B ARG* 3.2 22.2 + - - +
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Residues in contact with HIS 150 (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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117A TRP* 3.7 14.8 - + + -
143A PHE* 3.3 52.8 - + + +
144A ARG 4.0 5.9 + - - -
146A ASP* 2.7 39.3 + - - -
148A GLY 3.3 19.0 + - - -
149A TRP* 1.3 75.1 + - - +
151A SER* 1.3 62.3 + - - +
160A SER 3.6 1.7 - - - +
161A ARG* 3.5 1.7 - - - -
162A GLY 2.9 30.8 + - - +
127B ARG* 3.4 21.0 + - - -
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Residues in contact with SER 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A PHE* 4.6 4.4 - - - -
149A TRP* 4.3 1.8 - - - +
150A HIS* 1.3 76.5 + - - +
152A ARG* 1.3 62.4 + - - +
159A LYS* 5.3 11.9 - - - -
160A SER 3.1 8.5 - - - -
161A ARG* 3.6 24.4 - - - +
63B HIS* 5.8 0.9 - - - -
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Residues in contact with ARG 152 (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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118A ASN* 3.4 14.8 + - - -
119A VAL 4.2 8.2 + - - -
120A ARG* 2.5 45.5 - - - +
140A ARG 3.8 1.5 + - - -
141A SER* 2.7 29.0 + - - -
143A PHE* 3.4 42.7 - - + -
150A HIS 4.3 0.2 + - - -
151A SER* 1.3 75.7 - - - +
153A GLY* 1.3 76.9 + - - +
154A LEU* 3.6 2.2 + - - +
159A LYS* 4.3 4.9 - - - +
160A SER* 3.0 36.1 + - - +
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Residues in contact with GLY 153 (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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120A ARG* 4.9 4.0 + - - -
152A ARG* 1.3 89.5 - - - +
154A LEU* 1.3 61.6 + - - +
155A GLY 3.5 2.7 - - - -
158A LEU 4.0 1.8 - - - -
159A LYS* 3.9 14.1 - - - +
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Residues in contact with LEU 154 (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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100A LEU* 4.1 14.6 - - + -
119A VAL* 3.3 39.0 - - + +
120A ARG* 3.9 16.5 + - - +
121A VAL* 3.7 32.6 + - + +
152A ARG* 4.4 3.4 - - - +
153A GLY* 1.3 74.7 - - - +
155A GLY* 1.3 60.4 + - - +
156A TYR* 3.8 12.6 - - - -
158A LEU* 2.9 27.4 + - + +
159A LYS 4.1 4.3 - - - -
160A SER* 3.8 30.1 - - - +
176A VAL* 4.3 6.5 - - + -
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Residues in contact with GLY 155 (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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153A GLY 3.5 3.0 - - - -
154A LEU* 1.3 80.3 - - - +
156A TYR* 1.3 63.9 + - - +
157A GLY 2.8 16.6 + - - -
158A LEU* 2.8 20.1 + - - +
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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