Contacts of the strand formed by residues 149 - 158 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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125B ASP* 4.3 4.8 + - - +
126B ILE* 3.7 12.3 - - + +
129B LEU* 4.0 35.4 - - + +
142B LEU* 4.4 9.4 - - + -
145B MSE 3.9 6.7 - - - +
146B ASN* 3.2 27.4 + - - +
147B ARG 4.5 3.6 - - - +
148B CYS* 1.3 80.6 - - - +
150B ALA* 1.3 60.0 + - - +
153B ALA* 3.8 22.2 - - + -
154B LEU 5.7 1.8 - - - +
155B LEU* 6.0 4.7 - - + +
191B PHE* 4.3 16.8 - - + -
207B ARG* 3.2 36.8 + - - +
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Residues in contact with ALA 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125B ASP* 3.6 29.8 - - + +
126B ILE 2.8 22.7 + - - +
127B ASP* 3.3 23.3 - - - +
149B LEU* 1.3 74.3 - - - +
151B LYS* 1.3 70.4 + - - +
152B ASN 3.3 0.2 + - - -
153B ALA* 3.1 14.3 + - + +
207B ARG* 3.0 11.6 + - - -
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Residues in contact with LYS 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54B LYS* 5.0 1.7 + - - -
125B ASP* 4.7 1.8 + - - -
127B ASP* 4.8 2.4 - - - +
150B ALA* 1.3 81.3 - - - +
152B ASN* 1.3 91.5 + - - +
153B ALA 3.2 0.3 + - - -
207B ARG* 3.7 11.1 - - - +
208B LEU 5.7 1.8 - - - +
212B EDO 5.0 1.2 - - - -
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Residues in contact with ASN 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A ARG* 4.0 9.7 + - - +
55A GLN* 4.8 3.5 + - - -
54B LYS* 3.1 20.3 + - - -
150B ALA 3.3 1.0 + - - -
151B LYS* 1.3 98.6 - - + +
153B ALA* 1.3 66.9 + - - +
206B TYR* 3.2 31.1 + - - +
207B ARG* 2.8 37.3 + - - +
208B LEU 3.9 15.2 + - - -
212B EDO 3.7 18.6 + - - +
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Residues in contact with ALA 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54B LYS* 4.4 1.1 - - - +
126B ILE 3.2 26.2 - - - +
127B ASP* 3.4 9.6 - - - +
149B LEU* 3.8 27.4 - - + -
150B ALA 3.1 15.9 + - - +
151B LYS 3.1 1.7 - - - -
152B ASN* 1.3 80.0 - - - +
154B LEU* 1.3 59.3 + - - +
155B LEU 4.1 0.7 - - - -
191B PHE* 5.2 0.6 - - - -
205B GLY 3.7 1.0 - - - +
206B TYR* 3.6 2.4 - - - -
207B ARG* 2.8 31.0 + - + +
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Residues in contact with LEU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A LEU* 4.6 9.0 - - + -
53A ILE* 4.5 26.5 - - + -
50B LEU* 4.6 14.8 - - + -
54B LYS* 3.9 19.5 - - + -
127B ASP 2.9 9.8 + - - +
128B ILE* 3.3 13.2 - - + +
129B LEU* 3.0 23.9 + - - -
149B LEU* 5.9 0.9 - - - -
152B ASN 3.7 0.4 + - - -
153B ALA* 1.3 75.2 - - - +
155B LEU* 1.3 68.8 + - - +
156B ILE* 4.0 24.0 - - + -
204B LEU* 4.3 11.2 - - + -
205B GLY 3.5 24.2 - - - +
206B TYR* 4.0 11.7 - - + +
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Residues in contact with LEU 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B LEU* 3.5 30.5 - - + +
131B MSE 2.2 50.7 - - + -
142B LEU* 5.0 13.2 - - + -
149B LEU* 6.0 4.9 - - + +
153B ALA 4.1 0.8 - - - -
154B LEU* 1.3 73.3 - - - +
156B ILE* 1.3 65.1 + - - +
157B ALA* 4.1 0.9 - - + +
181B PHE* 3.9 12.6 - - + -
185B LEU* 3.6 29.2 - - + -
191B PHE* 4.9 7.8 - - + -
203B LEU* 3.5 9.3 - - + +
204B LEU* 3.3 6.1 - - - -
205B GLY* 2.7 41.7 + - - +
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Residues in contact with ILE 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47B LEU* 3.7 22.0 - - + -
50B LEU* 4.1 17.7 - - + -
73B PHE* 4.1 16.4 - - + -
128B ILE* 3.7 25.6 - - + -
129B LEU 3.0 10.7 + - - +
130B PHE* 3.4 12.2 - - + -
131B MSE 2.9 26.0 + - - +
154B LEU* 4.0 20.2 - - + -
155B LEU* 1.3 77.5 - - - +
157B ALA* 1.3 62.4 + - - +
158B VAL* 4.5 3.1 - - + -
202B VAL* 3.7 24.7 - - + -
203B LEU 3.4 2.5 - - - -
204B LEU* 3.9 10.3 - - + -
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Residues in contact with ALA 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B MSE 3.2 25.6 - - + +
133B CYS* 3.8 20.9 - - - -
155B LEU* 4.1 1.5 - - + -
156B ILE* 1.3 74.7 - - - +
158B VAL* 1.3 63.2 + - - +
160B ALA* 3.7 4.2 - - - +
181B PHE* 5.2 2.9 - - + -
202B VAL* 3.5 3.7 - - - -
203B LEU* 2.9 56.1 + - + -
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Residues in contact with VAL 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39B VAL* 4.7 9.2 - - + -
43B THR* 3.8 29.2 - - + -
47B LEU* 4.8 0.7 - - + -
130B PHE* 3.6 39.9 - - + -
131B MSE 2.9 13.8 + - - +
132B ASP* 4.0 13.2 - - - +
133B CYS* 3.0 22.5 + - - +
156B ILE* 4.5 7.4 - - + -
157B ALA* 1.3 72.7 - - - +
159B ASN* 1.3 85.6 + - - +
160B ALA 3.1 3.0 + - - -
201B GLY 3.9 3.4 - - - +
202B VAL* 4.3 7.2 - - + +
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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