Contacts of the strand formed by residues 196 - 207 (chain A) in PDB entry 4Z4H
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 ARG 196 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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191A PRO* 3.6 1.9 - - - +
192A LEU* 2.7 40.6 + - + -
193A GLY 3.3 10.9 + - - +
194A GLY* 3.8 9.6 + - - +
195A GLY* 1.3 84.3 - - - +
197A GLU* 1.3 58.3 + - - +
223A ALA* 5.1 1.3 - - + -
224A PHE 3.3 9.2 - - - +
225A TYR* 3.6 31.4 + - + -
226A LYS* 4.0 4.8 - - - +
261A GLU* 3.0 27.9 + - - -
352A CYS* 3.1 32.7 - - + -
354A LYS* 4.1 14.3 + - - +
355A LYS 3.5 19.0 + - - -
356A LEU* 3.6 7.8 - - - +
357A THR* 5.6 1.0 - - - +
360A GLN* 3.4 32.9 + - - +
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Residues in contact with GLU 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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184A ALA* 5.2 3.8 - - - +
189A SER* 4.8 9.2 - - - -
190A ASN 3.2 24.0 + - - +
191A PRO* 4.0 3.4 - - + +
192A LEU* 3.9 7.9 - - - -
196A ARG* 1.3 76.6 - - - +
198A VAL* 1.3 62.6 + - - +
199A TRP* 3.4 28.1 + - + +
223A ALA* 3.6 2.1 - - - -
224A PHE* 2.8 38.2 + - - +
225A TYR 4.7 0.7 - - - +
226A LYS* 3.6 42.4 + - + +
227A ALA 4.6 2.9 + - - -
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Residues in contact with VAL 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A SER* 5.2 4.3 + - - -
190A ASN* 2.7 40.5 + - + +
192A LEU* 3.5 27.6 - - + -
197A GLU* 1.3 73.0 - - - +
199A TRP* 1.3 71.3 + - - +
200A PHE* 4.1 19.0 + - + -
221A ALA* 3.8 27.6 - - + -
222A THR 3.6 5.4 - - - +
363A THR* 5.4 0.2 - - + -
364A MET* 3.6 23.1 - - + -
367A ALA* 4.6 11.0 - - + -
368A THR* 4.5 2.5 - - + -
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Residues in contact with TRP 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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175A THR* 3.5 23.1 - - - -
182A PHE* 3.8 3.7 - - + -
183A THR* 3.6 32.1 - - - +
184A ALA* 3.7 31.2 - - + +
185A SER 5.5 0.7 - - - +
197A GLU* 3.4 28.0 + - + -
198A VAL* 1.3 80.9 - - - +
200A PHE* 1.3 63.7 + - - +
221A ALA* 3.3 4.2 - - - +
222A THR 2.9 30.5 + - - -
224A PHE* 3.4 57.0 - + + +
225A TYR 5.3 3.3 + - - -
227A ALA* 6.4 0.9 - - + -
348A ALA* 4.7 8.1 - - + -
349A GLY* 3.5 29.4 - - - -
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Residues in contact with PHE 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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182A PHE* 3.7 2.4 - - - -
183A THR* 3.2 35.6 + - - +
185A SER* 4.3 24.1 - - - +
190A ASN* 3.6 31.6 - - - -
198A VAL* 4.1 15.5 - - + -
199A TRP* 1.3 76.1 - - - +
201A GLY* 1.3 58.8 + - - +
219A VAL* 6.5 0.2 - - + -
220A SER 3.6 5.6 - - - -
221A ALA* 3.8 20.4 - - + -
367A ALA 4.0 17.3 - - - -
368A THR* 4.1 11.4 - - + -
370A ARG* 4.8 13.0 - - - -
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Residues in contact with GLY 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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181A PHE 3.0 15.9 - - - -
182A PHE* 3.6 6.9 - - - -
183A THR* 5.9 1.1 - - - -
200A PHE* 1.3 76.5 - - - +
202A PHE* 1.3 67.5 + - - +
219A VAL* 3.4 8.8 - - - +
220A SER* 2.8 30.9 + - - +
382A LEU* 5.0 0.7 - - - +
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Residues in contact with PHE 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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170A PRO* 4.7 4.5 - - + -
174A TYR* 4.3 23.3 - + - -
180A SER* 3.1 6.6 - - - -
181A PHE* 2.9 64.6 + + + +
201A GLY* 1.3 78.8 - - - +
203A HIS* 1.3 71.2 + - - +
204A GLN* 3.7 24.2 + - + -
217A ILE* 4.5 10.8 - - + -
218A ASP 3.1 13.2 - - - +
219A VAL* 4.1 0.7 - - - +
220A SER* 4.1 3.8 + - - +
382A LEU* 3.4 37.2 - - + -
386A ALA* 6.5 0.7 - - + -
388A PHE* 4.8 8.5 - + - -
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Residues in contact with HIS 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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179A ARG* 3.5 36.0 + - + +
180A SER* 3.4 15.3 + - - +
202A PHE* 1.3 75.6 - - - +
204A GLN* 1.3 62.9 + - - +
205A SER* 2.9 30.3 + - - -
216A ASN* 3.7 14.1 + - - -
217A ILE* 3.4 10.6 - - - +
218A ASP* 2.6 34.4 + - + +
220A SER* 4.6 3.8 + - - +
712A HIS* 3.2 63.4 + + + +
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Residues in contact with GLN 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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163A ASP* 5.8 0.8 + - - +
166A MET* 2.8 47.0 + - + +
167A ARG* 2.3 53.4 + - - +
170A PRO* 4.7 1.7 - - - +
179A ARG* 3.0 12.5 + - - +
181A PHE* 4.3 7.7 - - + -
202A PHE* 3.7 16.6 - - + -
203A HIS* 1.3 78.3 - - - +
205A SER* 1.3 59.6 + - - +
206A VAL* 5.9 0.4 - - + -
215A LEU* 3.9 17.3 - - + -
216A ASN 3.4 4.5 - - - -
217A ILE* 4.0 5.6 - - + -
388A PHE* 3.4 27.6 - - - -
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Residues in contact with SER 205 (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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163A ASP* 4.3 2.7 - - - -
167A ARG* 4.0 7.6 - - - +
179A ARG* 4.6 6.7 - - - -
203A HIS* 2.9 25.5 + - - -
204A GLN* 1.3 78.1 - - - +
206A VAL* 1.3 65.5 + - - +
207A ARG* 4.0 12.9 + - - +
214A MET 3.7 0.2 - - - +
215A LEU* 3.6 5.0 - - - +
216A ASN* 2.8 46.0 + - - +
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Residues in contact with VAL 206 (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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47A MET* 4.2 11.0 - - + -
159A ILE* 3.9 21.9 - - + +
162A LEU* 4.2 15.5 - - + +
163A ASP* 3.9 28.3 + - + +
166A MET* 4.0 28.7 - - + -
204A GLN* 5.9 0.4 - - + -
205A SER* 1.3 74.5 - - - +
207A ARG* 1.3 64.9 + - - +
208A PRO* 4.5 0.3 - - - +
213A MET* 3.2 30.1 - - + -
214A MET 3.5 5.2 - - - +
215A LEU* 4.0 11.2 - - + -
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Residues in contact with ARG 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A PHE* 3.9 20.9 - - + -
205A SER* 4.0 17.2 + - - +
206A VAL* 1.3 81.4 + - - +
208A PRO* 1.3 75.7 + - + +
213A MET* 3.5 6.4 - - - +
214A MET* 2.8 45.0 + - + +
216A ASN* 3.8 31.6 - - + +
673A GLU* 2.7 36.9 + - - -
713A THR* 5.7 0.7 - - - -
740A ILE 5.5 1.6 + - - -
747A ASP* 5.9 0.4 + - - -
749A TYR* 4.7 9.9 + - - -
764A HIS* 5.6 6.9 + - - -
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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