Contacts of the strand formed by residues 210 - 224 (chain A) in PDB entry 6C3P
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 210 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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177A ARG* 4.2 12.6 - - + +
181A LEU* 5.3 16.2 - - + -
204A ASP* 4.7 9.2 - - - +
208A SER 4.0 1.4 + - - -
209A MET* 1.3 87.1 - - - +
211A ILE* 1.3 62.3 + - - +
212A SER 4.2 0.7 + - - -
213A ALA* 3.6 24.5 + - + +
250A PHE* 5.7 2.6 - - - -
251A LEU* 4.8 18.2 + - + +
287A LEU* 5.9 4.9 - - + -
288A GLU 5.2 0.2 - - - -
289A GLY* 3.4 33.7 - - - +
290A VAL 3.2 18.4 - - - +
291A VAL* 3.8 6.3 - - + +
298A THR* 4.1 16.2 - - + -
288B GLU* 5.1 0.5 - - - +
299B GLN* 3.9 3.3 + - - +
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Residues in contact with ILE 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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209A MET* 3.6 8.5 - - + +
210A ILE* 1.3 70.7 - - - +
212A SER* 1.3 75.9 + - - +
213A ALA 3.1 2.2 - - - -
289A GLY* 3.1 1.9 - - - -
290A VAL* 2.7 56.0 + - + +
291A VAL 4.0 2.7 - - - +
292A GLU* 3.5 32.8 - - + +
288B GLU* 3.5 23.3 - - + +
297B THR* 3.8 30.5 - - + +
298B THR* 4.9 1.3 - - - -
299B GLN* 3.4 33.2 - - + +
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Residues in contact with SER 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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210A ILE 4.2 0.4 + - - -
211A ILE* 1.3 82.0 - - - +
213A ALA* 1.3 58.4 + - - +
214A THR* 2.7 26.4 + - - -
248A SER* 4.3 11.3 + - - -
249A ILE 4.9 3.1 + - - -
288A GLU 3.1 6.8 - - - +
289A GLY* 4.0 2.2 - - - -
290A VAL* 5.4 4.9 - - - -
216B HIS* 6.2 1.1 - - - -
288B GLU* 3.2 24.6 + - - -
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Residues in contact with ALA 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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210A ILE* 3.6 28.5 + - + +
211A ILE* 3.1 3.9 - - - +
212A SER* 1.3 73.1 - - - +
214A THR* 1.3 54.6 + - - +
248A SER* 3.2 2.6 - - - -
249A ILE* 2.6 64.4 + - + +
251A LEU* 5.1 3.4 - - + +
287A LEU* 4.2 12.3 - - + -
288A GLU 3.4 7.2 - - - -
289A GLY* 4.3 2.7 - - - -
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Residues in contact with THR 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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212A SER* 2.7 22.8 + - - -
213A ALA* 1.3 71.8 - - - +
215A ILE* 1.3 66.0 + - - +
216A HIS* 3.3 29.4 + - + -
247A ASN* 3.2 24.0 - - + +
248A SER* 3.5 12.2 + - - +
286A ILE 3.4 5.9 - - - +
287A LEU* 3.4 3.3 - - - +
288A GLU* 2.8 37.6 + - - +
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Residues in contact with ILE 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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183A PHE* 5.7 1.1 - - + -
202A VAL* 5.3 5.6 - - + -
214A THR* 1.3 72.8 - - - +
216A HIS* 1.3 65.9 + - - +
217A MET* 3.8 27.3 + - + +
240A MET* 3.6 16.2 - - + -
247A ASN* 2.7 38.2 + - - +
249A ILE* 3.9 28.5 - - + -
257A ILE* 3.9 29.6 - - + -
285A VAL* 5.0 9.2 - - + -
286A ILE 3.3 7.6 - - - +
287A LEU* 3.6 29.4 - - + -
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Residues in contact with HIS 216 (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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214A THR* 3.3 31.8 + - + +
215A ILE* 1.3 76.9 + - - +
217A MET* 1.3 66.9 + - - +
218A GLN* 4.1 4.1 - - - +
237A ASP* 5.5 13.7 - - + +
247A ASN* 4.5 12.8 + - - +
284A ILE 3.2 4.5 - - - +
286A ILE* 3.0 56.9 + - + +
288A GLU* 4.5 12.5 + - - -
212D SER* 6.3 0.2 - - - -
244D VAL* 6.2 3.6 - - + -
248D SER* 4.0 28.5 + - - -
250D PHE* 6.4 0.7 - - + -
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Residues in contact with MET 217 (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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198A PHE* 4.5 14.6 - - - -
200A LEU* 3.9 15.0 - - - -
215A ILE* 3.8 15.0 - - + +
216A HIS* 1.3 75.0 - - - +
218A GLN* 1.3 61.0 + - - +
237A ASP* 3.7 4.2 - - - +
238A ILE* 3.0 42.0 + - + +
239A PRO 4.4 0.4 - - - +
240A MET* 3.5 40.0 - - + +
247A ASN* 5.9 0.4 - - - +
257A ILE* 3.6 16.6 - - + -
258A TYR 3.8 8.7 - - - -
259A HIS* 3.7 24.2 - - + -
283A ILE* 4.5 4.7 - - + -
284A ILE 3.3 5.4 - - - -
285A VAL* 4.4 14.6 - - + +
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Residues in contact with GLN 218 (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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216A HIS* 4.1 5.4 - - - +
217A MET* 1.3 78.6 - - - +
219A VAL* 1.3 58.9 + - - +
220A VAL* 4.6 3.8 - - + -
235A GLN* 3.1 41.8 + - + +
236A VAL 3.4 17.3 - - - +
237A ASP* 3.0 26.4 + - - +
238A ILE* 3.6 1.2 - - - +
283A ILE* 4.0 1.7 - - - +
284A ILE* 2.2 53.2 + - + +
286A ILE* 4.0 7.3 - - + +
249D ILE* 5.7 0.4 - - - +
250D PHE* 3.3 33.5 - - - +
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Residues in contact with VAL 219 (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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218A GLN* 1.3 71.9 - - - +
220A VAL* 1.3 66.5 + - - +
221A ARG* 4.5 8.3 - - + +
234A HIS 4.5 0.2 - - - -
235A GLN* 3.6 0.3 - - - -
236A VAL* 2.9 52.9 + - + +
238A ILE* 4.0 8.6 - - + +
266A PRO* 4.2 12.3 - - + -
267A LEU* 3.9 26.5 - - + -
281A LEU* 4.0 17.5 - - + -
282A GLU 3.2 11.9 - - - +
283A ILE* 3.7 20.6 - - + +
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Residues in contact with VAL 220 (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 PHE* 4.7 10.3 - - + -
218A GLN* 4.0 4.5 - - + +
219A VAL* 1.3 81.7 - - - +
221A ARG* 1.3 62.3 + - - +
233A LEU* 5.2 12.6 - - + -
234A HIS 3.0 15.3 - - - +
235A GLN* 3.6 23.8 - - + +
281A LEU 3.8 1.4 + - - -
282A GLU* 2.5 60.7 + - + +
284A ILE* 3.6 32.1 - - + -
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Residues in contact with ARG 221 (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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219A VAL* 4.5 11.7 - - - +
220A VAL* 1.3 75.2 - - - +
222A LYS* 1.3 63.8 + - - +
223A THR* 3.8 28.0 - - + +
232A PRO 3.4 5.8 - - - -
233A LEU* 5.1 3.1 - - - +
234A HIS* 2.8 36.4 + - + +
266A PRO* 4.2 26.5 + - - +
267A LEU* 4.8 5.7 - - - +
270A LEU* 5.7 3.6 - - - +
280A ASP* 3.2 31.3 + - - +
281A LEU* 3.4 28.5 - - - +
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Residues in contact with LYS 222 (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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221A ARG* 1.3 71.5 - - - +
223A THR* 1.3 59.6 + - - +
224A THR* 4.6 1.0 + - - -
230A VAL* 3.5 34.1 - - + +
231A VAL 3.4 7.4 - - - +
232A PRO* 3.0 28.2 + - + +
280A ASP* 2.7 23.9 + - - +
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Residues in contact with THR 223 (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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221A ARG* 3.3 23.3 + - + +
222A LYS* 1.3 73.7 - - - +
224A THR* 1.3 76.3 + - - +
229A GLU 4.1 0.2 - - - +
230A VAL* 3.2 14.9 - - - +
231A VAL* 3.3 15.3 + - + +
234A HIS* 3.3 41.7 - - + +
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Residues in contact with THR 224 (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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222A LYS 4.6 1.0 + - - -
223A THR* 1.3 90.2 + - - +
225A SER* 1.3 75.5 + - - +
226A PRO* 4.6 0.5 - - - +
228A GLY* 3.1 30.7 - - - +
229A GLU 3.3 5.8 - - - +
230A VAL* 3.2 18.8 - - + +
193D HIS* 5.7 0.9 + - - -
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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