Contacts of the helix formed by residues 131 - 146 (chain B) in PDB entry 4OG2
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 131 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ARG* 6.3 0.4 - - - +
67B VAL* 3.7 39.9 - - + -
70B LEU* 4.8 1.1 - - + -
105B GLY 4.5 5.6 - - - +
129B PRO* 3.6 4.7 - - - +
130B THR* 1.3 80.8 - - + +
132B SER* 1.3 65.4 + - - +
133B GLN* 3.9 13.5 - - + +
134B GLN* 3.0 31.3 + - + +
135B ALA 3.0 17.8 + - - -
154B ASN* 3.4 4.0 + - - -
202B ASP* 4.3 8.7 - - - +
256B LEU* 3.9 35.9 - - + -
501B LEU* 3.4 22.7 - - + +
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Residues in contact with SER 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B LEU* 1.3 70.8 - - - +
133B GLN* 1.3 63.5 + - - +
135B ALA* 3.1 8.6 + - - +
136B PHE* 3.0 34.7 + - - -
154B ASN* 3.4 9.4 - - - +
155B THR 3.3 4.3 + - - -
156B ALA* 3.2 35.3 + - - +
159B ILE* 3.9 6.4 - - - +
204B PHE* 4.0 6.7 - - - -
501B LEU* 2.6 33.8 + - - -
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Residues in contact with GLN 133 (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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140A PRO* 4.6 10.6 - - - +
143A GLU* 6.4 0.2 - - - +
144A ARG* 4.0 13.2 - - - +
162A ILE 5.5 4.8 + - - -
107B GLU* 2.9 36.5 + - - +
131B LEU* 3.2 10.0 - - + +
132B SER* 1.3 78.0 - - - +
134B GLN* 1.3 63.4 + - + +
136B PHE* 3.9 7.8 + - - +
137B SER* 4.0 4.2 + - - -
201B ASN 3.4 18.6 + - - +
202B ASP* 3.7 20.1 + - - +
203B ALA* 2.8 42.8 + - - +
204B PHE 4.8 0.2 - - - +
206B LYS* 5.3 1.6 + - - -
501B LEU* 4.7 0.6 + - - -
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Residues in contact with GLN 134 (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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144A ARG* 5.7 0.2 - - - +
62B ALA* 5.2 0.4 - - - +
67B VAL* 4.7 1.3 - - - +
103B THR* 3.8 4.0 + - - -
104B ALA 3.0 27.3 + - - -
105B GLY* 3.3 12.3 - - - +
106B ASP* 3.1 26.6 + - - +
107B GLU* 4.7 5.8 - - - -
110B THR* 3.1 22.1 + - - +
129B PRO* 3.9 8.6 - - + +
130B THR* 3.9 10.4 + - - -
131B LEU* 3.0 44.5 + - + +
133B GLN* 1.3 78.9 - - + +
135B ALA* 1.3 60.2 + - - +
137B SER* 3.2 5.2 + - - -
138B ALA* 2.9 30.2 + - - +
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Residues in contact with ALA 135 (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 PRO* 3.5 15.0 - - + +
131B LEU 3.0 12.3 + - - +
132B SER* 3.1 8.7 + - - +
134B GLN* 1.3 76.9 - - - +
136B PHE* 1.3 59.7 + - - +
139B ASN* 2.8 60.8 + - - +
140B PRO* 3.6 0.2 - - - +
154B ASN* 4.4 4.3 - - - -
159B ILE* 3.7 17.9 - - + -
162B ILE* 4.2 1.3 - - - -
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Residues in contact with PHE 136 (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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136A PHE* 4.0 17.7 - - + +
137A SER* 4.2 1.0 - - - -
140A PRO* 6.3 1.3 - - + -
132B SER 3.0 27.6 + - - +
133B GLN* 4.4 4.7 - - - +
134B GLN 3.3 0.4 - - - -
135B ALA* 1.3 75.7 - - - +
137B SER* 1.3 58.8 + - - +
140B PRO* 3.4 17.7 - - - +
156B ALA* 4.0 17.9 - - + -
157B LYS 3.4 23.3 - - - -
158B GLY* 3.8 20.2 - - - -
159B ILE* 3.7 21.5 - - + -
162B ILE* 3.7 17.2 - - + +
203B ALA* 4.0 19.7 - - + -
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Residues in contact with SER 137 (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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136A PHE 4.5 0.4 - - - -
137A SER* 2.6 51.5 + - - +
140A PRO* 4.6 6.4 - - - +
141A ILE* 4.9 0.5 - - - +
107B GLU* 3.7 29.4 - - - +
111B ILE* 3.3 19.3 - - - +
133B GLN 4.0 1.9 + - - -
134B GLN 3.2 7.8 + - - -
135B ALA 3.1 0.4 - - - -
136B PHE* 1.3 79.5 - - - +
138B ALA* 1.3 61.7 + - - +
140B PRO* 3.5 5.0 - - - +
141B ILE* 4.3 5.5 - - - +
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Residues in contact with ALA 138 (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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110B THR* 3.4 36.6 - - + -
111B ILE* 4.0 19.5 - - + +
114B PHE* 3.6 20.1 - - + -
134B GLN 2.9 9.5 + - - +
137B SER* 1.3 73.7 - - - +
139B ASN* 1.3 69.0 + - - +
140B PRO* 3.2 2.7 - - - -
141B ILE* 2.9 24.2 + - - +
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Residues in contact with ASN 139 (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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114B PHE* 3.3 25.6 - - - -
128B GLY 4.9 0.2 + - - -
129B PRO* 3.6 6.0 - - - +
135B ALA* 2.8 46.7 + - - +
138B ALA* 1.3 71.2 - - - +
140B PRO* 1.4 62.7 - - + +
142B ALA* 3.0 7.0 + - - +
143B GLU* 2.9 20.8 + - - +
149B VAL* 4.0 15.0 - - - +
154B ASN* 5.2 1.6 + - - -
159B ILE* 4.6 3.4 - - - +
162B ILE* 3.9 18.4 - - + +
166B VAL* 3.5 32.8 - - + +
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Residues in contact with PRO 140 (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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107A GLU* 3.7 34.2 - - + +
133A GLN* 4.7 9.4 - - - +
136A PHE* 6.5 0.4 - - + -
137A SER* 4.4 5.4 - - - -
135B ALA 3.6 3.1 - - - +
136B PHE 3.4 26.0 - - - +
137B SER 3.5 7.0 - - - +
138B ALA 3.4 4.3 - - - -
139B ASN* 1.4 91.0 - - + +
141B ILE* 1.3 55.6 + - - +
143B GLU* 3.6 9.3 - - + +
144B ARG* 2.9 29.8 + - - +
162B ILE* 4.0 15.9 - - + +
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Residues in contact with ILE 141 (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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107A GLU* 4.4 4.7 - - + +
108A ALA* 3.8 40.6 - - + +
111A ILE* 3.9 13.0 - - + -
137A SER* 5.0 0.4 - - - +
111B ILE* 4.4 11.7 - - + -
114B PHE* 4.8 6.5 - - + -
115B GLN* 3.9 30.3 - - + +
118B ILE* 4.5 12.3 - - + -
137B SER 4.3 7.6 - - - +
138B ALA* 2.9 21.5 + - - +
140B PRO* 1.3 78.3 - - - +
142B ALA* 1.3 57.9 + - - +
144B ARG* 3.4 5.6 + - - +
145B ALA* 3.1 27.0 + - + +
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Residues in contact with ALA 142 (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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114B PHE* 4.2 13.4 - - + -
118B ILE* 4.1 17.5 - - + -
126B ILE* 4.6 1.6 - - + -
138B ALA 3.6 0.8 + - - -
139B ASN 3.0 5.6 + - - +
141B ILE* 1.3 76.7 - - - +
143B GLU* 1.3 68.0 + - - +
145B ALA* 3.2 1.3 + - - -
146B LYS 2.9 18.7 + - - -
147B VAL* 3.0 21.8 + - + +
149B VAL* 3.4 33.4 - - + -
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Residues in contact with GLU 143 (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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133A GLN* 6.3 0.7 - - - +
139B ASN 2.9 13.3 + - - +
140B PRO* 3.6 13.5 - - + +
142B ALA* 1.3 75.9 - - - +
144B ARG* 1.3 63.2 + - - +
146B LYS* 3.1 19.8 + - - +
162B ILE* 4.3 8.1 - - + +
163B GLY* 3.3 14.9 - - - -
164B ASP* 2.9 32.1 + - - +
165B TYR* 2.8 38.6 + - - +
166B VAL* 4.0 7.3 + - + +
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Residues in contact with ARG 144 (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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105A GLY 3.8 16.2 + - - -
106A ASP* 3.5 34.8 - - + +
107A GLU* 2.9 41.5 + - - +
131A LEU* 6.3 0.4 - - - +
133A GLN* 4.1 14.1 - - - +
134A GLN* 5.7 0.4 - - - +
201A ASN* 5.6 6.5 + - - +
232A THR* 6.0 3.8 - - - +
140B PRO 2.9 17.5 + - - +
141B ILE* 3.7 5.8 - - - +
143B GLU* 1.3 78.2 - - - +
145B ALA* 1.3 59.3 + - - +
146B LYS* 3.2 11.8 + - - +
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Residues in contact with ALA 145 (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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118B ILE* 4.4 17.7 - - + -
141B ILE* 3.1 18.3 + - + +
142B ALA 3.2 4.2 + - - +
144B ARG* 1.3 75.1 - - - +
146B LYS* 1.3 69.9 + - - +
147B VAL* 3.7 18.0 - - + +
364B ARG* 4.9 4.6 + - - +
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Residues in contact with LYS 146 (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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142B ALA 2.9 4.5 + - - -
143B GLU 3.1 13.8 + - - +
144B ARG* 4.3 9.1 + - - +
145B ALA* 1.3 81.4 - - - +
147B VAL* 1.3 59.6 + - - +
165B TYR* 3.5 45.5 - - + +
361B PRO* 4.9 1.1 - - - +
364B ARG* 3.4 22.0 - - - +
365B THR* 4.1 9.7 + - + +
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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