Contacts of the strand formed by residues 205 - 222 (chain C) in PDB entry 1UHG
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 SER 205 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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197C PRO* 4.1 21.7 - - - +
198C PHE 3.3 6.3 - - - -
199C ARG* 4.4 11.2 - - - -
203C GLN 3.7 5.0 + - - -
204C GLU* 1.3 77.7 - - - +
206C LYS* 1.3 62.1 + - - +
207C PRO* 3.9 5.7 - - - +
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Residues in contact with LYS 206 (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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197C PRO* 3.4 2.2 - - - +
198C PHE* 2.8 40.5 + - + +
200C VAL* 4.3 11.7 - - + -
204C GLU* 4.1 10.3 - - + +
205C SER* 1.3 71.8 - - - +
207C PRO* 1.3 96.3 + - + +
208C VAL* 3.3 13.8 + - + +
384C SER* 3.5 22.4 - - - +
385C PRO* 3.2 27.1 + - + +
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Residues in contact with PRO 207 (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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195C ALA* 5.6 9.0 - - + -
196C MET 3.7 7.9 - - - +
197C PRO* 4.6 1.1 - - + -
205C SER 3.9 6.5 - - - +
206C LYS* 1.3 109.0 + - + +
208C VAL* 1.3 59.4 + - - +
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Residues in contact with VAL 208 (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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195C ALA* 3.4 3.5 - - - +
196C MET 2.8 42.9 + - - +
198C PHE* 3.8 20.0 - - + -
206C LYS* 3.6 29.4 - - + +
207C PRO* 1.3 79.6 - - - +
209C GLN* 1.3 64.9 + - - +
210C MET* 3.3 26.6 + - + -
283C PRO* 4.3 10.1 - - + -
284C ARG 5.6 0.9 - - - +
385C PRO* 4.0 20.2 - - + +
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Residues in contact with GLN 209 (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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193C THR* 3.5 22.6 + - + +
194C GLN* 3.8 5.5 - - - +
195C ALA* 3.7 24.2 + - - +
208C VAL* 1.3 73.2 - - - +
210C MET* 1.3 59.2 + - - +
283C PRO* 3.6 2.3 - - - +
284C ARG* 3.0 58.9 + - + +
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Residues in contact with MET 210 (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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192C ASP 4.0 1.9 - - - +
193C THR* 3.3 4.5 - - - -
194C GLN* 2.8 37.7 + - - +
196C MET* 3.7 32.1 - - + +
197C PRO 4.3 5.4 - - - +
198C PHE* 4.5 0.9 - - + -
208C VAL* 3.3 22.8 + - + +
209C GLN* 1.3 72.4 - - - +
211C MET* 1.3 67.1 + - - +
212C TYR* 4.8 1.2 - - - +
281C TYR* 3.8 17.7 - - + -
282C LEU 3.5 31.2 - - - -
283C PRO* 3.5 6.7 - - + -
359C ARG* 5.8 0.4 - - + -
360C ALA 3.8 16.8 - - - +
361C ASP* 3.8 21.8 - - + -
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Residues in contact with MET 211 (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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184C TRP* 4.6 0.2 - - - +
188C PHE* 3.7 24.7 - - + -
193C THR* 3.6 18.4 - - - +
210C MET* 1.3 76.3 - - - +
212C TYR* 1.3 60.5 + - - +
281C TYR* 3.2 6.8 - - - -
282C LEU* 2.9 55.6 + - + +
283C PRO 3.7 15.5 - - - +
284C ARG* 3.6 19.7 - - + -
334C ILE* 3.9 15.9 - - + -
335C ASN* 3.2 41.5 - - - +
336C GLU* 3.3 13.2 - - - -
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Residues in contact with TYR 212 (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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188C PHE* 3.5 10.5 - - - +
189C LYS 4.6 1.4 + - - -
192C ASP* 3.6 51.9 + - + +
193C THR* 4.8 0.2 + - - -
210C MET 4.8 1.1 - - - +
211C MET* 1.3 78.2 - - - +
213C GLN* 1.3 84.2 + - - +
214C ILE* 3.9 15.4 - - + +
279C LYS* 3.6 34.9 - - + +
280C VAL 3.3 10.1 - - - -
281C TYR* 3.3 45.1 - + + -
354C VAL* 5.1 1.7 - - - +
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Residues in contact with GLN 213 (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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186C LYS* 3.1 45.4 - - - +
187C ALA 3.5 13.1 + - - +
188C PHE* 3.5 33.2 - - + -
189C LYS 5.6 0.4 - - - +
192C ASP* 5.4 2.0 - - - +
212C TYR* 1.3 88.5 - - - +
214C ILE* 1.3 66.5 + - - +
215C GLY* 5.4 0.8 - - - -
217C PHE* 3.7 27.3 - - + -
278C ILE 3.8 0.5 - - - +
279C LYS* 3.7 0.9 - - - -
280C VAL* 2.8 32.8 + - + +
342C VAL 5.2 7.7 + - - +
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Residues in contact with ILE 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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212C TYR* 3.9 22.2 - - + +
213C GLN* 1.3 81.3 + - - +
215C GLY* 1.3 66.3 + - - +
277C LYS* 3.4 30.5 - - + -
278C ILE 3.4 16.4 - - - +
279C LYS* 4.3 2.2 - - + -
342C VAL 4.7 9.2 - - - +
354C VAL* 4.2 20.6 - - + -
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Residues in contact with GLY 215 (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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186C LYS* 4.8 3.8 - - - -
213C GLN* 5.4 1.8 - - - -
214C ILE* 1.3 85.0 - - - +
216C LEU* 1.3 62.5 + - - -
217C PHE* 3.5 14.6 - - - -
276C ARG 3.5 0.3 - - - +
277C LYS* 3.3 5.6 - - - -
278C ILE 2.8 31.7 + - - +
342C VAL 5.6 2.9 - - - -
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Residues in contact with LEU 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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186C LYS* 2.9 34.9 + - - +
215C GLY* 1.3 70.5 - - - -
217C PHE* 1.3 65.6 + - - +
275C GLU* 3.8 34.8 - - + +
276C ARG* 3.6 31.4 - - - +
277C LYS* 4.0 5.8 - - + +
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Residues in contact with PHE 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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186C LYS* 4.0 18.4 - - + -
188C PHE* 5.7 0.9 - + - -
213C GLN* 3.7 39.7 - - + -
215C GLY* 3.5 23.6 - - - -
216C LEU* 1.3 78.9 - - - +
218C ARG* 1.3 63.6 + - - +
219C VAL* 3.5 5.0 + - - +
230C LEU* 3.6 19.7 - - + -
231C GLU 3.8 6.5 - - - -
232C LEU* 3.3 32.8 - - + -
233C PRO* 4.5 13.7 - - + -
275C GLU* 4.1 4.0 - - - -
276C ARG 3.1 29.4 + - - +
278C ILE* 4.1 6.7 - - + -
280C VAL* 3.8 22.0 - - + -
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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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217C PHE* 1.3 71.3 - - - +
219C VAL* 1.3 62.3 + - - +
230C LEU* 3.8 0.7 - - - +
231C GLU* 3.1 58.1 + - + +
270C SER* 5.6 6.4 + - - +
273C MET* 3.3 35.2 + - + +
274C GLU* 3.5 7.5 - - - +
275C GLU* 3.1 43.6 + - + +
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Residues in contact with VAL 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 PHE 3.6 11.2 - - - +
218C ARG* 1.3 81.7 - - - +
220C ALA* 1.3 70.8 + - - +
221C SER* 5.0 2.7 - - - +
228C LYS* 4.5 21.5 - - + +
229C ILE 3.1 16.6 - - - +
230C LEU* 3.5 20.2 - - + -
273C MET* 3.6 5.1 - - - +
274C GLU* 2.9 42.4 + - - +
276C ARG* 5.2 4.3 - - + +
278C ILE* 3.7 22.2 - - + -
356C GLU* 5.3 6.3 - - - +
358C PHE* 4.7 4.3 - - + -
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Residues in contact with ALA 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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219C VAL* 1.3 76.4 - - - +
221C SER* 1.3 62.2 + - - +
222C MET* 3.9 10.9 + - - -
228C LYS* 3.2 6.2 - - - +
229C ILE* 2.9 53.6 + - + +
267C TRP 4.0 5.6 - - - +
272C VAL* 3.4 22.2 - - + +
273C MET* 3.6 11.7 - - + -
274C GLU* 4.2 1.6 - - - -
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Residues in contact with SER 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 VAL* 5.0 2.4 - - - +
220C ALA* 1.3 75.5 - - - +
222C MET* 1.3 64.2 + - - +
223C ALA* 3.4 8.3 + - - +
227C MET 3.8 5.4 - - - -
228C LYS* 3.7 21.6 - - - +
274C GLU* 4.8 3.8 + - - -
356C GLU* 4.6 9.0 + - - -
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Residues in contact with MET 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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220C ALA* 4.3 17.7 - - + +
221C SER* 1.3 76.1 - - - +
223C ALA* 1.3 65.8 + - - +
224C SER* 3.2 11.2 - - - +
225C GLU* 3.0 16.6 + - + +
226C LYS 2.9 17.7 + - - -
227C MET* 2.8 44.8 + - + +
266C GLU* 5.4 7.6 - - + +
267C TRP* 3.3 42.2 - - + +
272C VAL* 4.7 15.7 - - + -
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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