Contacts of the strand formed by residues 138 - 154 (chain A) in PDB entry 4O8M
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 ILE 138 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A LEU* 4.0 24.9 - - + -
80A ALA* 6.2 0.2 - - + -
81A LYS* 3.8 30.5 - - + -
95A LEU* 4.6 4.0 - - + -
98A ILE* 3.5 31.2 - - + -
133A LEU* 3.1 50.5 + - + +
134A ASP* 3.3 4.0 + - - +
136A HIS 3.3 4.9 - - - +
137A ASP* 1.3 84.3 - - - +
139A HIS* 1.3 63.9 + - - +
240A VAL* 3.9 28.0 - - + -
241A ALA 3.7 5.8 - - - +
242A GLY* 5.1 0.9 - - - -
243A THR* 3.6 2.9 - - - +
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Residues in contact with HIS 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A SER* 4.6 6.9 + - - -
134A ASP* 2.7 31.9 + - - +
138A ILE* 1.3 75.7 - - - +
140A ILE* 1.3 85.5 + - - +
141A ILE* 3.3 7.1 + - + +
240A VAL* 3.1 6.4 - - - -
241A ALA 2.7 41.5 + - - +
243A THR* 3.9 12.8 - - + +
246A TRP* 3.3 50.7 + + + -
258A VAL* 5.9 1.2 - - - +
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Residues in contact with ILE 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A TYR* 4.0 17.3 - - + -
95A LEU* 4.7 1.8 - - + -
102A LEU* 4.7 7.4 - - + -
126A PHE* 3.9 23.6 - - + -
130A SER* 4.3 18.8 + - - +
133A LEU* 3.8 27.1 - - + +
134A ASP* 4.3 1.2 + - - -
138A ILE 4.2 0.6 + - - -
139A HIS* 1.3 90.0 + - - +
141A ILE* 1.3 63.3 + - - +
142A VAL 3.7 26.9 - - - +
143A PRO* 3.9 15.5 - - + -
238A PRO* 4.1 7.0 - - + -
239A PHE 3.8 3.4 - - - -
240A VAL* 4.0 13.2 - - + -
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Residues in contact with ILE 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TRP* 4.1 13.0 - - + -
87A ILE* 3.7 32.5 - - + -
139A HIS* 3.9 17.9 - - + +
140A ILE* 1.3 75.8 - - - +
142A VAL* 1.3 61.4 + - + +
143A PRO* 4.5 3.1 - - - +
239A PHE 2.9 10.9 + - - +
240A VAL 4.1 3.1 - - - -
241A ALA* 3.8 15.9 - - + +
246A TRP* 3.6 38.1 - - + -
257A ILE* 4.0 22.9 - - + -
258A VAL* 4.1 21.8 - - + +
261A SER* 4.3 5.4 + - - -
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Residues in contact with VAL 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TRP* 4.0 10.3 - - + -
140A ILE* 3.7 3.7 - - - +
141A ILE* 1.3 80.7 - - - +
143A PRO* 1.3 66.6 - - - +
144A ASP* 3.6 3.1 - - - +
145A VAL* 4.3 1.6 - - + -
237A SER 3.9 0.5 - - - +
238A PRO* 3.1 3.8 - - - +
239A PHE* 3.0 52.2 + - + +
261A SER* 3.6 21.5 - - - +
262A ARG* 3.8 10.8 - - - +
264A MET* 4.0 17.5 - - + -
265A VAL* 3.5 31.9 - - + -
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Residues in contact with PRO 143 (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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92A TYR* 2.7 34.6 + - - +
121A LEU* 3.4 32.2 - - + +
122A HIS* 4.4 6.7 - - + +
126A PHE* 3.7 23.1 - - + -
140A ILE* 3.9 5.6 - - + -
141A ILE 4.5 2.7 - - - +
142A VAL* 1.3 87.2 - - + +
144A ASP* 1.3 74.4 + - + +
237A SER 3.3 13.5 + - - +
262A ARG* 4.2 6.3 - - - +
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Residues in contact with ASP 144 (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 SER* 3.0 22.4 + - - +
121A LEU* 3.8 16.4 - - + -
122A HIS* 2.9 29.6 - - - -
142A VAL 3.6 1.4 - - - -
143A PRO* 1.3 80.1 - - + +
145A VAL* 1.3 63.6 + - - +
146A ILE* 3.4 3.8 + - - +
236A MET* 3.2 18.7 - - + +
262A ARG* 2.8 32.2 + - - -
265A VAL* 3.6 21.7 - - - +
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Residues in contact with VAL 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ILE* 3.6 31.2 - - + -
44A ALA* 5.7 2.5 - - + -
45A MET* 5.5 0.4 - - + -
142A VAL* 4.3 5.8 - - + -
144A ASP* 1.3 75.1 - - - +
146A ILE* 1.3 67.9 + - - +
147A TYR 3.2 1.2 + - - -
236A MET* 3.5 3.2 - - - +
237A SER* 2.8 45.5 + - - +
239A PHE* 3.8 20.2 - - + -
264A MET* 3.7 37.0 - - + -
265A VAL* 3.9 13.9 - - + +
268A GLY* 6.3 3.1 - - - -
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Residues in contact with ILE 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A PRO* 6.1 0.3 - - - +
41A ILE* 4.5 4.5 - - - +
114A PHE* 3.7 52.5 - - + +
144A ASP 3.4 3.5 + - - +
145A VAL* 1.3 79.2 - - - +
147A TYR* 1.3 61.1 + - - +
148A GLY 3.9 4.5 - - - +
235A HIS 4.1 0.7 - - - -
236A MET* 4.0 17.9 - - + -
265A VAL* 5.5 7.1 + - + +
268A GLY 5.4 3.2 - - - +
269A GLY* 4.3 22.7 - - - +
272A ILE* 3.9 33.6 - - + +
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Residues in contact with TYR 147 (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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34A GLY 5.9 0.2 - - - -
35A ASN* 3.0 39.7 + - - -
41A ILE* 3.9 22.5 - - + +
89A ILE* 4.0 11.9 - - + -
145A VAL 3.2 1.4 + - - -
146A ILE* 1.3 75.0 - - - +
148A GLY* 1.3 59.7 + - - +
150A ARG* 3.9 9.0 - - - -
193A LEU* 5.3 4.9 - - - +
210A ASN* 3.8 20.7 + - - -
211A PRO* 3.6 22.5 - - + +
213A VAL* 4.6 5.4 - - - +
214A VAL* 3.6 20.6 - - + +
235A HIS* 2.9 37.6 + + + +
237A SER* 3.4 17.3 - - - +
272A ILE* 4.0 10.1 - - - +
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Residues in contact with GLY 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A PHE* 3.6 11.9 - - - -
146A ILE* 3.6 5.7 - - - +
147A TYR* 1.3 80.4 - - - +
149A THR* 1.3 61.7 + - - -
150A ARG 3.7 0.2 + - - -
211A PRO* 3.9 6.2 - - - +
235A HIS* 2.8 31.7 + - - +
272A ILE* 4.6 0.7 - - - -
276A GLU* 3.3 21.1 - - - -
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Residues in contact with THR 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A PHE* 4.1 4.7 - - - -
148A GLY* 1.3 70.2 - - - -
150A ARG* 1.3 62.9 + - - +
151A HIS* 3.5 22.0 - - + -
211A PRO* 3.2 17.2 - - - +
212A THR 4.4 0.2 + - - -
231A ALA* 3.5 37.2 - - + -
233A THR 3.3 7.2 - - - +
234A LYS* 2.6 39.6 + - - +
276A GLU* 2.8 18.6 + - - +
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Residues in contact with ARG 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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147A TYR* 3.9 13.7 - - - -
149A THR* 1.3 70.8 - - - +
151A HIS* 1.3 59.7 + - - +
170A ARG* 4.9 3.6 - - - +
172A GLN* 3.7 17.0 - - - +
177A PHE* 3.6 19.5 - - - -
209A GLU* 2.8 43.3 + - - +
210A ASN* 3.0 36.4 + - - +
211A PRO* 4.1 6.7 - - + -
231A ALA* 3.3 5.9 - - - -
232A HIS* 3.2 41.2 + - + +
233A THR* 2.8 24.1 + - - +
235A HIS* 3.3 43.0 + - + -
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Residues in contact with HIS 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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149A THR* 3.5 40.1 + - + +
150A ARG* 1.3 71.2 - - - +
152A LEU* 1.3 62.2 + - - +
153A LEU 3.7 0.3 + - - -
209A GLU* 3.2 7.1 - - - -
210A ASN 3.0 31.3 + - - +
212A THR* 4.1 23.7 - - + +
215A LEU* 4.4 2.3 - - - +
227A LEU* 3.8 15.7 - - + -
228A ASN 3.6 7.4 - - - +
229A LEU* 3.3 36.5 - - + +
230A THR* 3.6 4.9 - - - -
231A ALA* 3.2 29.0 + - + -
232A HIS* 3.9 0.2 - - - -
276A GLU* 5.8 0.2 + - - -
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Residues in contact with LEU 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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151A HIS* 1.3 74.7 - - - +
153A LEU* 1.3 59.3 + - - +
154A THR* 4.3 4.9 - - + -
158A VAL* 3.9 27.8 - - + -
164A LEU* 4.0 22.4 - - + -
169A VAL* 4.4 10.5 - - + -
181A ILE* 4.1 21.5 - - + -
184A MET* 4.4 4.3 - - + -
208A LEU 3.4 11.0 - - - +
209A GLU* 4.1 11.2 - - + -
227A LEU* 3.5 6.8 - - - +
228A ASN* 2.9 43.4 + - + +
230A THR* 3.3 29.6 + - + +
232A HIS* 4.5 2.7 - - + -
298A PHE* 4.8 0.2 - - + -
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Residues in contact with LEU 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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151A HIS 3.7 1.0 + - - -
152A LEU* 1.3 73.0 - - - +
154A THR* 1.3 60.6 + - - +
207A GLY* 3.0 3.6 - - - -
208A LEU* 2.8 42.7 + - + +
215A LEU* 3.9 33.0 - - + -
220A PHE* 3.7 34.3 - - + +
221A PHE* 4.2 2.9 - - - +
224A ALA* 3.4 33.9 - - + +
226A ASN 3.3 20.6 - - - +
227A LEU* 3.8 17.3 - - + +
283A LEU* 5.6 3.1 - - + -
288A VAL* 4.3 9.9 - - + -
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Residues in contact with THR 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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152A LEU* 4.3 12.3 - - + -
153A LEU* 1.3 80.6 - - - +
155A LYS* 1.3 61.6 + - - +
156A LYS 2.6 24.9 + - - -
158A VAL* 3.9 5.6 - - + +
164A LEU* 5.0 1.8 - - + -
167A MET* 3.7 26.9 - - - -
169A VAL* 5.1 3.8 - - + -
206A ASP 3.5 6.7 - - - -
207A GLY* 4.0 7.0 - - - -
208A LEU 4.9 1.1 - - - +
224A ALA* 3.9 5.8 - - - -
225A LYS 3.4 3.5 + - - -
226A ASN* 2.8 35.1 + - - +
228A ASN* 2.9 22.7 + - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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