Contacts of the strand formed by residues 197 - 212 (chain A) in PDB entry 1KTW
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 197 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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193A GLU* 3.4 3.5 + - - -
194A ARG 2.9 30.0 + - - +
195A ASN* 4.5 5.6 - - + +
196A GLY* 1.3 78.6 - - - +
198A LEU* 1.3 86.0 + - - +
199A HIS* 3.7 26.5 + - + +
200A TRP* 4.0 19.6 - - - -
254A TYR* 4.0 7.3 - - - -
256A GLN* 3.6 36.8 - - - +
403B THR* 4.5 16.1 + - - +
461B ASN* 5.0 4.6 + - - +
462B SER 5.1 1.4 + - - -
463B HIS* 3.8 29.0 + - - -
470B THR* 5.8 3.8 - - - +
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Residues in contact with LEU 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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191A VAL* 3.9 22.7 - - + -
192A THR 3.5 3.4 - - - +
193A GLU* 3.9 31.0 - - + +
197A ARG* 1.3 102.6 + - - +
199A HIS* 1.3 64.4 + - - +
200A TRP* 3.6 15.7 - - + -
250A LEU* 3.8 34.3 - - + +
251A MET* 4.1 0.7 - - - -
254A TYR* 3.8 28.3 - - + -
256A GLN* 3.0 33.9 + - + +
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Residues in contact with HIS 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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165A GLY 4.5 0.8 - - - -
166A ASP* 3.6 30.1 + - + +
168A ARG* 5.9 3.2 + - - -
191A VAL* 3.3 5.2 - - - -
192A THR* 2.9 39.5 + - + +
194A ARG* 3.4 55.0 + - + -
195A ASN* 5.4 1.2 - - - +
197A ARG* 3.7 35.4 + - - +
198A LEU* 1.3 77.6 + - - +
200A TRP* 1.3 65.9 + - - +
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Residues in contact with TRP 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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165A GLY 3.0 14.1 + - - +
166A ASP* 4.2 8.7 - - - +
167A VAL 4.4 1.4 + - - +
168A ARG* 5.0 4.0 + - - +
190A ASP 3.6 14.8 - - - +
191A VAL* 4.0 10.8 - - + -
197A ARG* 4.0 12.8 - - - -
198A LEU* 3.6 20.0 - - + -
199A HIS* 1.3 86.3 - - - +
201A SER* 1.3 72.9 + - - +
202A ARG* 3.9 14.9 + - + +
225A GLY 3.7 10.8 - - - +
226A ALA* 3.5 19.5 - - - -
227A ASP* 2.8 22.7 + - - -
256A GLN* 4.2 5.2 - - + -
257A GLY* 3.6 24.5 - - - -
260A ARG* 3.5 20.7 - - - +
461B ASN* 3.1 27.4 - - - -
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Residues in contact with SER 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A LEU* 4.6 5.4 - - - +
165A GLY 2.9 5.6 + - - -
167A VAL* 3.2 33.0 - - - -
170A TYR* 3.0 25.3 + - - -
189A VAL* 3.6 19.8 - - - +
190A ASP 4.4 1.4 + - - -
200A TRP* 1.3 76.6 - - - +
202A ARG* 1.3 67.8 + - - +
225A GLY 4.2 1.6 + - - -
226A ALA* 3.5 1.9 - - - +
227A ASP 3.2 21.0 + - - -
229A ILE* 4.1 3.3 - - - +
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Residues in contact with ARG 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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167A VAL 3.2 5.1 + - - +
168A ARG* 3.1 63.3 - - + +
170A TYR* 4.3 1.5 - - - -
200A TRP* 4.0 16.1 - - + +
201A SER* 1.3 82.8 - - - +
203A ASN* 1.3 85.8 + - - +
204A GLY 3.9 0.2 - - - -
227A ASP* 2.9 54.4 + - + +
228A ASN* 6.0 1.8 - - - +
229A ILE* 4.1 2.9 - - - -
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Residues in contact with ASN 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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37A ASP 5.6 0.2 - - - -
38A PHE 3.2 19.1 - - - +
168A ARG* 4.8 9.9 - - - +
169A ASN* 2.9 31.6 + - + +
170A TYR* 3.1 2.5 + - - -
202A ARG* 1.3 92.6 + - - +
204A GLY* 1.3 57.6 + - - +
227A ASP 3.1 12.3 + - - -
228A ASN* 2.8 37.0 + - - +
229A ILE* 3.9 0.2 - - - +
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Residues in contact with GLY 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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38A PHE* 3.5 10.6 + - - +
170A TYR* 3.1 26.9 - - - -
203A ASN* 1.3 75.2 - - - +
205A ILE* 1.3 67.4 + - - +
228A ASN 3.4 5.3 + - - -
229A ILE* 3.4 12.5 - - - +
230A LEU 3.0 23.4 + - - -
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Residues in contact with ILE 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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35A ASP* 3.9 45.1 - - + +
38A PHE* 3.8 11.7 - - + -
39A TYR* 4.0 16.8 - - + -
170A TYR* 3.1 7.8 + - - +
171A LYS* 3.3 19.4 - - + +
172A ILE 3.0 25.1 + - - +
204A GLY* 1.3 77.9 - - - +
206A ILE* 1.3 67.3 + - - +
207A GLU* 4.0 32.3 - - + +
230A LEU* 3.4 24.0 - - + +
232A ARG* 4.2 5.6 - - - +
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Residues in contact with ILE 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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164A LEU* 4.4 2.5 - - + -
170A TYR* 4.1 30.1 - - + +
172A ILE* 3.4 15.3 - - + +
187A ILE* 4.1 25.1 - - + -
189A VAL* 4.2 15.5 - - + -
205A ILE* 1.3 75.5 - - - +
207A GLU* 1.3 62.1 + - - +
209A ILE* 4.3 7.9 - - + -
221A ILE* 3.9 23.8 - - + -
229A ILE* 4.5 4.0 - - + -
230A LEU 2.9 6.8 + - - -
231A PHE* 3.3 33.4 - - + -
232A ARG 3.1 21.0 + - - -
234A LEU* 4.1 5.7 - - + +
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Residues in contact with GLU 207 (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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141A GLN* 4.2 3.3 + - - -
171A LYS* 3.5 18.9 + - - -
172A ILE 3.1 4.8 + - - +
173A SER* 3.0 32.0 + - - +
174A ASN 3.2 14.4 + - - -
205A ILE* 4.0 9.4 - - + +
206A ILE* 1.3 78.1 - - - +
208A ARG* 1.3 87.2 + - + +
209A ILE* 3.5 6.4 - - - +
232A ARG* 2.7 59.6 + - + +
233A ASN* 5.1 0.2 + - - -
234A LEU* 3.9 5.2 - - - -
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Residues in contact with ARG 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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141A GLN* 4.6 12.9 - - - +
142A GLY 5.1 0.2 + - - -
144A GLY 3.6 16.0 + - - -
145A ASN* 5.2 2.0 - - - +
173A SER* 4.2 1.1 - - - -
174A ASN* 3.0 62.9 + - - +
175A PHE 3.1 5.2 + - - +
207A GLU* 1.3 94.7 + - + +
209A ILE* 1.3 58.3 + - - +
232A ARG 3.0 12.7 + - - -
233A ASN* 3.2 32.1 - - + +
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Residues in contact with ILE 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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172A ILE* 4.6 4.3 - - + +
175A PHE* 3.2 47.8 - - + +
177A ILE* 4.1 4.9 - - + -
187A ILE* 3.6 28.9 - - + -
206A ILE* 4.3 14.1 - - + -
207A GLU 3.5 11.4 - - - +
208A ARG* 1.3 82.8 - - - +
210A LYS* 1.3 68.7 + - - +
220A LEU* 3.5 25.9 - - + +
221A ILE* 5.5 0.2 - - + -
233A ASN 3.3 5.1 + - - +
234A LEU* 3.5 14.6 - - + +
235A HIS* 3.1 24.6 + - - +
268A ARG* 5.6 0.3 + - - -
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Residues in contact with LYS 210 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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175A PHE 3.2 5.5 + - - +
176A THR* 3.3 22.7 - - + +
177A ILE* 2.8 32.9 + - - +
209A ILE* 1.3 77.8 - - - +
211A GLN* 1.3 69.8 + - - +
212A ASN* 2.9 30.4 + - - +
235A HIS* 3.4 47.7 - - + +
237A GLU* 4.6 6.3 - - - +
268A ARG* 5.9 1.1 - - - +
270A SER* 5.4 0.6 + - - -
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Residues in contact with GLN 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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177A ILE* 3.4 19.4 - - + +
179A ASP* 3.0 25.2 + - + -
184A PHE 5.7 1.0 + - - -
186A SER* 2.6 34.7 + - - +
210A LYS* 1.3 82.4 - - - +
212A ASN* 1.3 69.3 + - - +
214A ALA* 3.6 19.9 - - + +
219A GLY* 3.5 18.1 + - - +
220A LEU* 3.4 19.7 - - + +
235A HIS 2.9 12.9 + - - +
236A SER* 4.2 8.5 - - - +
237A GLU 2.9 27.3 + - - -
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Residues in contact with ASN 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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176A THR* 3.7 20.2 - - - +
177A ILE 2.9 9.4 + - - +
178A ASP* 3.1 28.0 + - - +
179A ASP* 2.9 28.1 + - - +
210A LYS* 2.9 30.0 + - - +
211A GLN* 1.3 73.5 - - - +
213A ASN* 1.3 67.9 + - + +
214A ALA 3.6 0.7 - - - -
237A GLU* 3.7 13.7 - - - +
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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