Contacts of the strand formed by residues 193 - 204 (chain A) in PDB entry 4ZIN
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 TYR 193 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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75A HIS* 2.8 40.4 + + - -
79A ILE* 3.7 25.6 - - + -
80A PRO 4.8 1.0 + - - -
82A TYR 5.8 0.3 + - - -
149A ARG* 4.8 0.2 - - - +
150A MET* 2.8 55.2 + - + +
157A LEU* 4.3 12.7 - - + +
190A PRO* 3.6 24.9 - - + +
191A GLY 3.5 11.9 - - - -
192A ALA* 1.3 74.5 - - - +
194A ASN* 1.4 84.8 + - - +
195A VAL* 3.7 18.4 - - + +
219A GLY* 4.2 4.0 - - - -
220A ARG 3.4 10.3 - - - +
222A SER* 3.6 12.5 + - - +
302A SO4 3.6 8.3 - - - +
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Residues in contact with ASN 194 (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 SER* 3.9 17.0 - - - +
148A GLU 3.4 2.7 - - - +
149A ARG* 3.5 27.4 + - - +
193A TYR* 1.4 85.5 - - - +
195A VAL* 1.3 63.4 + - - +
196A ASN* 4.2 4.0 - - - +
219A GLY* 3.3 3.6 - - - -
220A ARG* 2.7 41.0 + - + +
221A HIS 4.5 3.4 + - - -
222A SER* 3.4 27.5 - - - +
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Residues in contact with VAL 195 (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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70A LYS* 5.0 3.1 - - - +
73A VAL* 4.0 26.7 - - + -
147A SER* 3.2 3.6 - - - -
148A GLU* 2.8 46.0 + - + +
150A MET* 3.9 16.2 - - + -
193A TYR* 3.7 25.6 - - + +
194A ASN* 1.3 76.7 - - - +
196A ASN* 1.4 65.6 + - - +
197A ILE* 3.7 23.4 + - + +
217A ALA* 4.1 3.6 - - + -
218A GLU 3.5 14.6 - - - +
219A GLY* 4.2 4.5 - - - -
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Residues in contact with ASN 196 (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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146A SER 3.6 5.2 - - - +
147A SER* 3.6 20.8 + - - -
194A ASN* 5.0 3.9 - - - +
195A VAL* 1.4 72.0 - - - +
197A ILE* 1.3 59.3 + - - +
216A ARG 3.8 1.4 - - - +
217A ALA* 3.2 3.5 - - - -
218A GLU* 3.0 35.7 + - + +
220A ARG* 3.6 40.9 - - - +
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Residues in contact with ILE 197 (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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66A CH6 3.5 53.4 + - + -
70A LYS* 3.9 18.8 - - - +
145A ALA* 3.5 4.4 - - - +
146A SER* 2.9 35.5 + - - +
148A GLU* 4.0 16.4 - - + +
161A ILE* 4.9 0.2 - - + -
195A VAL* 3.8 23.8 - - + +
196A ASN* 1.3 79.3 - - - +
198A LYS* 1.3 64.6 + - - +
215A GLU* 3.5 27.6 - - + +
216A ARG 3.3 3.8 - - - +
217A ALA* 4.1 5.4 - - + -
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Residues in contact with LYS 198 (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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66A CH6 5.2 0.4 - - - -
143A 4OO 4.7 11.1 + - - +
144A GLU* 5.5 0.6 - - - +
145A ALA* 4.2 27.6 - - + +
166A LYS* 5.1 7.9 - - - +
197A ILE* 1.3 75.8 - - - +
199A LEU* 1.3 62.5 + - - +
200A ASP* 3.2 29.5 + - - +
214A TYR* 3.9 2.5 - - + +
215A GLU* 3.4 4.9 - - - +
216A ARG* 2.9 36.7 + - + +
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Residues in contact with LEU 199 (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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62A SER* 3.5 39.5 - - - +
63A PRO* 3.8 3.6 - - + -
66A CH6 3.5 72.9 + - + +
143A 4OO 4.4 31.9 + - + +
144A GLU 5.7 1.2 + - - -
197A ILE 4.2 0.2 - - - -
198A LYS* 1.3 74.9 - - - +
200A ASP* 1.3 68.3 + - - +
201A ILE* 5.6 1.1 - - + -
213A GLN* 3.7 14.8 - - + +
214A TYR 3.5 11.0 - - - +
215A GLU* 4.0 3.6 - - + +
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Residues in contact with ASP 200 (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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143A 4OO 5.6 0.2 - - - +
198A LYS* 3.2 36.7 + - - +
199A LEU* 1.3 80.6 - - - +
201A ILE* 1.3 70.2 + - - +
202A THR* 4.4 10.2 - - + +
213A GLN* 3.3 5.4 - - - +
214A TYR* 2.9 53.9 + - - +
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Residues in contact with ILE 201 (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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58A TRP* 3.9 18.2 - - + +
59A ASP* 4.2 16.2 - - - +
62A SER* 4.0 9.6 - - - -
199A LEU* 5.6 2.0 - - + -
200A ASP* 1.3 73.9 - - - +
202A THR* 1.3 63.7 + - - +
203A SER 3.8 14.4 - - - +
204A HIS* 4.1 19.9 - - + -
208A TYR* 4.8 7.0 - - + -
211A VAL* 3.9 8.5 - - + -
212A GLU 3.5 7.9 - - - +
213A GLN* 3.6 34.5 - - + +
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Residues in contact with THR 202 (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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43A THR* 6.1 0.6 - - + +
200A ASP* 4.1 8.5 - - + +
201A ILE* 1.3 75.6 - - - +
203A SER* 1.3 64.4 + - - +
212A GLU* 2.8 32.4 + - - +
213A GLN* 3.8 2.9 + - - -
214A TYR* 3.6 31.9 - - + +
100C GLU* 3.5 16.3 - - - +
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Residues in contact with SER 203 (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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201A ILE* 3.6 1.1 - - - +
202A THR* 1.3 85.7 + - - +
204A HIS* 1.3 71.6 + - - +
210A ILE* 6.0 0.3 - - - +
211A VAL* 3.5 2.3 - - - +
212A GLU* 2.8 53.2 + - - +
100C GLU* 4.7 7.6 - - - -
172C HIS* 4.6 23.5 + - - -
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Residues in contact with HIS 204 (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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201A ILE* 4.1 11.0 - - + -
202A THR 5.9 0.2 - - - -
203A SER* 1.3 84.3 - - - +
205A ASN* 1.3 81.1 + - - +
206A GLU* 5.1 3.4 - - - -
208A TYR* 3.3 56.2 + + + -
210A ILE 3.1 14.1 - - - +
211A VAL* 4.2 5.2 - - + -
172C HIS* 3.2 21.7 - - - -
174C ASP* 4.6 2.9 - - - +
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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