Contacts of the strand formed by residues 210 - 223 (chain C) in PDB entry 4LL4
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 VAL 210 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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208C ILE* 4.8 4.5 - - + +
209C VAL* 1.3 81.4 - - - +
211C PRO* 1.3 75.8 - - + +
212C LYS* 3.7 20.4 + - - +
238C ARG* 4.0 29.4 - - + +
239C GLY 4.3 3.6 - - - +
241C HIS* 4.5 22.9 - - + +
280C VAL* 3.6 2.1 - - - -
281C SER* 2.8 46.3 + - - +
283C PRO* 5.9 3.4 - - + -
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Residues in contact with PRO 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C PHE* 3.4 40.6 - - + -
209C VAL 4.0 0.2 - - - +
210C VAL* 1.3 87.1 - - + +
212C LYS* 1.3 63.4 + - - +
239C GLY* 3.0 29.9 + - - -
240C ASN 3.4 23.6 - - - +
242C ILE* 3.7 24.0 - - + -
250C TRP* 4.0 14.1 - - + +
279C TYR 3.4 7.2 - - - +
280C VAL* 4.0 5.3 - - + -
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Residues in contact with LYS 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210C VAL* 3.9 24.0 - - + +
211C PRO* 1.3 77.9 - - - +
213C ALA* 1.3 62.9 + - - +
237C VAL 3.4 13.5 - - - +
238C ARG* 4.4 14.4 - - + +
250C TRP* 3.9 5.5 - - - -
278C ILE* 3.7 4.3 - - - +
279C TYR* 2.8 66.1 + - + +
281C SER* 3.3 20.9 + - - -
287C LYS* 5.7 1.4 - - - +
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Residues in contact with ALA 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ILE* 3.8 28.9 - - + -
212C LYS* 1.3 74.9 - - - +
214C ALA* 1.3 62.2 + - - +
236C SER* 2.9 21.8 - - - -
237C VAL* 3.0 21.8 + - + +
250C TRP* 4.0 11.8 - - + -
255C LEU* 4.3 1.3 - - + -
276C LEU* 4.3 0.9 - - + -
277C LEU 3.1 15.0 - - - +
278C ILE* 4.1 5.6 - - + -
279C TYR* 4.3 3.7 + - - -
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Residues in contact with ALA 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A THR* 5.0 2.7 - - + -
213C ALA* 1.3 77.9 - - - +
215C ILE* 1.3 61.6 + - - +
216C VAL* 4.4 8.5 - - + -
233C LYS* 4.4 19.3 - - + -
235C SER 3.2 9.6 - - - +
236C SER* 3.6 12.8 - - - +
255C LEU* 4.0 1.9 - - - +
276C LEU* 3.3 7.6 - - - +
277C LEU* 2.7 41.0 + - + +
279C TYR* 4.6 12.8 - - + +
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Residues in contact with ILE 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C ILE* 4.1 17.0 - - + -
214C ALA* 1.3 74.9 - - - +
216C VAL* 1.3 65.9 + - - +
233C LYS* 4.4 0.5 - - - +
234C LEU* 2.9 47.5 + - + +
235C SER* 2.9 19.4 + - - +
255C LEU* 4.2 14.4 - - + -
256C ARG 3.8 22.2 - - - +
257C VAL* 3.9 28.0 - - + -
274C TYR* 4.3 15.0 - - + -
275C SER 3.5 8.7 - - - +
276C LEU* 4.5 4.0 - - + -
294C LEU* 4.7 9.2 - - + -
296C ILE* 4.9 2.7 - - + -
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Residues in contact with VAL 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82A PRO 4.2 6.3 - - - +
83A THR* 3.4 33.4 - - - +
214C ALA* 3.7 6.9 + - + -
215C ILE* 1.3 83.5 - - - +
217C ALA* 1.3 64.8 + - - +
218C ARG* 4.1 15.7 + - - +
231C THR* 3.7 19.7 - - + -
232C GLN 3.5 7.2 - - - +
233C LYS* 4.0 11.0 - - + -
273C GLU 3.8 0.9 - - - +
274C TYR* 3.5 3.3 - - - -
275C SER 2.9 36.5 + - - +
277C LEU* 4.2 22.2 - - + -
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Residues in contact with ALA 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215C ILE 4.2 0.4 + - - -
216C VAL* 1.3 73.3 - - - +
218C ARG* 1.3 62.4 + - - +
219C HIS* 3.6 24.1 + - + +
230C LEU 3.6 2.1 - - - +
231C THR* 3.3 3.8 - - - +
232C GLN 2.8 35.9 + - - +
234C LEU* 3.8 24.7 - - + +
272C VAL* 3.9 3.1 - - + -
273C GLU 3.3 4.5 - - - -
274C TYR* 3.9 16.4 - - + -
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Residues in contact with ARG 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216C VAL* 4.3 13.3 + - - +
217C ALA* 1.3 72.5 - - - +
219C HIS* 1.3 61.7 + - - +
220C THR* 3.8 3.8 + - - +
229C VAL* 4.1 17.9 - - + -
230C LEU 3.5 3.4 - - - -
231C THR* 3.5 23.8 - - + +
271C ARG 3.9 0.2 - - - +
272C VAL* 3.2 3.0 - - - -
273C GLU* 2.7 70.2 + - + +
274C TYR 4.0 10.5 + - - -
275C SER* 2.6 34.9 + - - -
277C LEU* 6.0 0.4 - - - +
291C ASP* 4.6 7.4 + - - -
293C PRO* 5.9 2.0 - - - +
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Residues in contact with HIS 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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217C ALA* 3.6 24.6 + - + +
218C ARG* 1.3 70.7 - - - +
220C THR* 1.3 61.1 + - - +
221C TYR* 3.7 3.7 - - + -
229C VAL* 3.3 3.8 - - - -
230C LEU* 2.7 65.3 + - + +
232C GLN* 3.1 31.1 + - + +
234C LEU* 5.6 1.5 - - + +
265C LEU* 5.1 8.3 - - + -
269C ILE* 4.7 16.4 - - + -
271C ARG 3.7 5.4 - - - +
272C VAL* 3.3 31.6 - - + +
274C TYR* 5.5 1.4 + - - -
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Residues in contact with THR 220 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218C ARG* 3.8 4.2 + - - +
219C HIS* 1.3 69.2 - - - +
221C TYR* 1.3 67.7 + - - +
227C THR* 3.3 30.5 - - + -
228C LYS 3.5 7.4 - - - +
229C VAL* 3.8 15.2 - - + +
269C ILE* 3.8 1.6 - - - +
270C LEU* 2.9 27.8 + - + +
271C ARG* 2.9 55.2 + - - +
273C GLU* 5.2 3.5 + - - +
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Residues in contact with TYR 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219C HIS* 3.7 14.1 - - + -
220C THR* 1.3 78.4 - - - +
222C LEU* 1.3 68.5 + - - +
223C ALA* 3.6 22.1 - - + +
227C THR* 3.4 4.2 - - - -
228C LYS* 2.8 66.4 + - + +
229C VAL 4.1 0.9 - - - -
230C LEU* 3.9 24.2 - - + +
265C LEU* 2.9 44.9 - - + -
268C ASN* 3.2 17.5 - - - +
269C ILE* 4.0 5.6 - - + -
270C LEU* 4.3 1.6 - - - +
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Residues in contact with LEU 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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224A ASN* 3.4 33.7 - - + +
225A GLY* 3.6 28.5 - - - +
226A GLN* 5.1 0.2 - - - +
71C ARG* 4.0 34.1 - - + +
221C TYR* 1.3 74.1 - - - +
223C ALA* 1.3 59.2 + - - +
224C ASN* 4.3 3.9 - - - +
226C GLN 3.2 6.5 - - - +
227C THR* 3.9 17.3 - - - +
268C ASN* 2.9 39.7 + - + +
270C LEU* 3.9 26.7 - - + -
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Residues in contact with ALA 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225A GLY 4.3 2.3 + - - -
221C TYR* 3.6 16.7 + - + +
222C LEU* 1.3 74.6 - - - +
224C ASN* 1.3 67.0 + - - +
225C GLY 3.5 0.3 - - - -
226C GLN* 2.3 45.0 + - - +
228C LYS* 3.5 29.6 - - + +
268C ASN* 5.5 0.7 - - - +
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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