Contacts of the strand formed by residues 149 - 158 (chain A) in PDB entry 3C3P
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 LEU 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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125A ASP* 4.2 5.2 - - - +
126A ILE* 3.7 20.4 - - + +
129A LEU* 4.1 32.1 - - + -
142A LEU* 4.3 8.5 - - + -
145A MSE 3.7 13.2 - - - +
146A ASN* 3.2 34.7 + - - +
147A ARG 4.5 3.6 - - - +
148A CYS* 1.3 80.7 - - - +
150A ALA* 1.3 63.4 + - - +
151A LYS 4.1 0.2 + - - -
153A ALA* 4.0 12.3 - - + -
154A LEU 5.9 1.3 - - - +
155A LEU* 5.9 4.7 - - + +
191A PHE* 4.1 12.3 - - + -
207A ARG* 3.4 31.1 + - - +
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Residues in contact with ALA 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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125A ASP* 3.6 28.7 - - + +
126A ILE 2.9 20.7 + - - +
127A ASP* 3.5 21.1 - - - +
149A LEU* 1.3 77.4 - - - +
151A LYS* 1.3 70.9 + - - +
152A ASN 3.2 0.5 + - - -
153A ALA* 3.1 15.3 + - + +
207A ARG* 3.3 9.3 + - - -
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Residues in contact with LYS 151 (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 LYS* 4.9 3.6 + - - -
125A ASP* 5.2 0.4 + - - -
127A ASP* 4.9 1.6 - - - +
150A ALA* 1.3 80.3 - - - +
152A ASN* 1.3 90.2 + - - +
153A ALA 3.2 0.3 + - - -
207A ARG* 3.9 10.0 - - - +
209A SER* 3.8 28.4 + - - +
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Residues in contact with ASN 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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54A LYS* 3.1 22.2 + - - +
150A ALA 3.2 1.0 + - - -
151A LYS* 1.3 94.2 - - - +
153A ALA* 1.3 67.1 + - - +
206A TYR* 3.0 34.8 + - + +
207A ARG* 2.9 29.6 + - - +
208A LEU 5.0 1.4 + - - -
209A SER* 3.1 32.2 + - - +
52B ARG* 4.5 0.9 + - - -
55B GLN* 4.0 16.2 + - - +
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Residues in contact with ALA 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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54A LYS* 4.2 1.6 - - - +
126A ILE 3.2 26.2 - - - +
127A ASP* 3.4 11.2 - - - +
149A LEU* 4.0 24.7 - - + -
150A ALA 3.1 14.1 + - - +
151A LYS 3.2 1.3 - - - -
152A ASN* 1.3 79.8 - - - +
154A LEU* 1.3 60.6 + - - +
155A LEU 4.2 0.2 - - - -
191A PHE* 5.0 1.0 - - - -
205A GLY 3.7 0.9 - - - +
206A TYR* 3.7 1.9 - - - -
207A ARG* 2.9 31.1 + - + +
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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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50A LEU* 4.4 17.3 - - + +
54A LYS* 3.9 21.8 - - + -
127A ASP 2.9 7.7 + - - +
128A ILE* 3.3 14.5 - - + +
129A LEU* 3.1 24.1 + - - -
149A LEU* 6.2 1.6 - - - -
153A ALA* 1.3 76.4 - - - +
155A LEU* 1.3 71.6 + - - +
156A ILE* 3.9 24.2 - - + -
204A LEU* 4.5 8.5 - - + -
205A GLY 3.4 22.2 - - - +
206A TYR* 4.3 7.0 - - + +
49B LEU* 4.5 6.5 - - + -
53B ILE* 4.0 31.2 - - + -
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Residues in contact with LEU 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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129A LEU* 3.5 31.6 - - + +
131A MSE 2.5 40.8 - - + -
142A LEU* 4.8 12.3 - - + -
149A LEU* 5.9 4.5 - - + -
153A ALA 4.2 0.2 - - - -
154A LEU* 1.3 75.8 - - - +
156A ILE* 1.3 65.1 + - - +
157A ALA* 4.1 2.5 - - + +
181A PHE* 3.5 26.0 - - + -
185A LEU* 3.7 19.7 - - + -
191A PHE* 4.9 8.0 - - + -
203A LEU* 5.5 0.9 - - + +
204A LEU* 3.4 6.2 - - - -
205A GLY* 2.8 39.7 + - - +
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Residues in contact with ILE 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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47A LEU* 3.5 26.2 - - + -
50A LEU* 4.1 18.8 - - + -
73A PHE* 4.1 15.9 - - + -
128A ILE* 3.9 23.8 - - + -
129A LEU 3.0 9.6 + - - +
130A PHE* 3.4 14.0 - - + -
131A MSE 2.7 33.9 + - - +
154A LEU* 3.9 24.0 - - + -
155A LEU* 1.3 77.8 - - - +
157A ALA* 1.3 55.0 + - - +
158A VAL* 4.7 1.6 - - + -
202A VAL* 3.7 22.2 - - + -
203A LEU 3.6 2.5 - - - -
204A LEU* 4.0 7.2 - - + -
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Residues in contact with ALA 157 (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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131A MSE 3.1 17.9 - - + +
133A CYS* 3.7 22.2 - - - -
155A LEU* 5.0 2.0 - - + -
156A ILE* 1.3 73.1 - - - +
158A VAL* 1.3 64.7 + - - +
160A ALA* 3.9 2.1 - - - +
181A PHE* 4.3 16.4 - - + -
202A VAL* 3.5 3.0 - - - -
203A LEU* 2.8 51.8 + - + +
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Residues in contact with VAL 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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39A VAL* 4.6 9.4 - - + -
43A THR* 4.2 25.4 - - + -
47A LEU* 5.0 0.7 - - + -
130A PHE* 3.6 35.9 - - + -
131A MSE 2.7 18.7 + - - +
132A ASP* 3.9 13.5 - - - -
133A CYS* 3.0 26.0 + - - +
156A ILE* 4.7 3.6 - - + -
157A ALA* 1.3 73.5 - - - +
159A ASN* 1.3 82.1 + - - +
160A ALA 3.1 3.8 + - - -
201A GLY 3.9 4.5 - - - +
202A VAL* 4.5 11.0 - - + +
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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