Contacts of the strand formed by residues 207 - 215 (chain A) in PDB entry 1EAW
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 207 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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27A TRP* 5.0 5.6 - - + -
29A TRP* 3.8 35.7 - - + -
121A ILE* 3.7 5.4 - - + +
122A CYS* 3.3 27.5 + - - +
200A SER* 3.4 20.9 - - - -
201A SER 3.0 26.7 - - - +
202A VAL* 4.1 23.3 - - + -
205A GLY 4.2 9.6 - - - +
206A ARG* 1.3 77.4 - - - +
208A PHE* 1.3 65.5 + - - +
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Residues in contact with PHE 208 (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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121A ILE* 3.7 3.8 - - - -
122A CYS* 2.9 24.5 - - + +
123A LEU 3.8 9.4 - - - -
124A PRO* 4.0 7.0 - - + -
128A HIS* 5.6 1.1 - + + -
130A PHE* 4.7 9.6 - - + -
201A SER* 2.8 33.4 + - - -
203A GLU* 3.2 32.1 - - + -
204A ASP* 3.7 12.8 - - + -
206A ARG* 3.2 50.5 - - + -
207A ILE* 1.3 75.2 - - - +
209A GLN* 1.3 67.5 + - - +
210A ALA* 3.2 1.9 + - - +
204C ALA* 3.3 49.4 - - + -
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Residues in contact with GLN 209 (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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45A SER* 2.7 25.8 + - - -
47A ILE* 4.3 0.3 - - - +
53A VAL* 3.6 22.0 + - - +
121A ILE* 3.2 22.3 - - + +
122A CYS 3.0 10.6 + - - +
123A LEU* 4.1 11.2 - - + +
124A PRO* 3.0 30.0 - - - +
130A PHE* 4.0 0.6 - - - -
198A PRO* 2.7 37.9 - - + +
199A LEU 3.3 6.3 - - - -
208A PHE* 1.3 69.5 - - - +
210A ALA* 1.3 60.5 + - - +
211A GLY 3.4 9.8 + - - +
212A VAL* 4.4 2.4 - - - +
231A LEU* 3.5 29.8 - - + +
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Residues in contact with ALA 210 (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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130A PHE* 3.3 46.0 - - + -
136A ILE* 5.1 5.6 - - + -
181A MET* 3.1 27.2 - - + +
199A LEU* 2.9 19.5 + - + +
201A SER* 4.2 8.3 - - - -
208A PHE 3.2 3.5 + - - +
209A GLN* 1.3 72.6 - - - +
211A GLY* 1.3 56.6 + - - +
229A THR 4.3 0.2 - - - +
230A ARG* 4.6 0.2 - - - -
231A LEU* 4.1 12.4 + - - -
232A PRO* 5.4 0.3 - - - +
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Residues in contact with GLY 211 (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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181A MET* 5.0 0.2 - - - -
198A PRO* 3.4 6.1 - - - +
199A LEU* 2.8 41.4 + - - +
209A GLN* 3.4 8.2 + - - +
210A ALA* 1.3 82.6 - - - +
212A VAL* 1.3 64.4 + - - -
228A TYR* 4.5 1.1 - - - -
229A THR 3.0 15.5 - - - -
231A LEU* 3.8 5.2 - - - +
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Residues in contact with VAL 212 (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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53A VAL* 4.2 14.8 - - + -
54A SER* 3.6 18.4 - - - +
55A ALA* 3.8 4.0 - - - +
102A ASP 4.7 1.8 - - - +
103A ILE* 4.4 8.7 - - + -
196A GLY* 3.4 32.1 - - - +
197A GLY 3.4 2.2 - - - -
209A GLN* 4.4 2.0 - - - +
211A GLY* 1.3 73.9 - - - +
213A VAL* 1.3 73.1 + - - +
214A SER* 3.2 1.0 + - - -
228A TYR* 2.9 19.3 - - - +
229A THR* 2.9 31.7 + - - +
231A LEU* 3.4 25.1 - - + -
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Residues in contact with VAL 213 (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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55A ALA* 4.0 5.0 - - - +
102A ASP* 4.1 0.3 - - - +
138A VAL* 5.1 6.3 - - + -
139A THR 5.1 4.5 - - - +
190A SER* 3.7 28.3 - - - +
194A ASP* 3.3 25.8 - - + +
195A SER* 3.6 19.7 - - - +
196A GLY 3.0 19.3 + - - +
197A GLY* 2.9 21.8 + - - +
198A PRO 5.3 2.5 - - - -
212A VAL* 1.3 77.7 - - - +
214A SER* 1.3 62.0 + - - +
228A TYR* 3.5 21.2 - - + -
15B LYS* 4.0 12.6 - - + -
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Residues in contact with SER 214 (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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57A HIS* 3.3 19.5 + - - -
99A PHE* 4.6 1.9 + - - +
102A ASP* 2.6 34.2 + - - +
195A SER* 3.6 1.9 + - - -
212A VAL 3.2 6.1 + - - -
213A VAL* 1.3 77.1 - - - +
215A TRP* 1.3 81.8 + - - +
227A VAL* 3.2 15.3 + - - -
228A TYR* 4.1 5.4 - - - -
229A THR* 4.4 6.1 - - - -
14B CYS* 3.7 1.4 - - - +
15B LYS* 3.3 17.8 + - - +
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Residues in contact with TRP 215 (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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98A THR 5.2 0.2 - - - -
99A PHE* 3.5 43.2 + + + +
172A LEU* 3.5 26.7 - - + -
175A GLN* 3.5 37.7 - - + -
176A ILE* 4.6 2.9 - - + -
180A MET* 4.0 16.6 - - - +
214A SER* 1.3 108.4 - - - +
216A GLY* 1.3 86.6 + - - +
217A ASP* 4.3 6.7 - - + -
227A VAL* 2.9 52.9 + - + +
13B PRO* 2.9 36.1 - - + +
14B CYS* 3.6 8.3 - - - +
15B LYS* 3.5 17.6 - - - +
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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