Contacts of the strand formed by residues 206 - 222 (chain A) 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 LYS 206 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197A PRO* 4.2 3.1 - - - -
198A PHE* 2.8 27.4 + - - +
200A VAL* 3.5 24.0 - - + +
205A SER* 1.3 79.1 - - - +
207A PRO* 1.3 78.3 - - + +
208A VAL* 4.4 13.9 - - + -
383A VAL 3.8 0.6 + - - -
384A SER* 2.8 47.2 + - - +
385A PRO* 4.0 9.1 - - - +
372C ALA 4.1 11.0 - - - +
373C THR* 5.9 0.9 - - - -
374C ASN* 5.4 1.8 - - - +
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Residues in contact with PRO 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ALA* 4.8 14.6 - - + -
196A MET 3.4 13.0 - - - +
197A PRO* 4.1 2.2 - - + -
206A LYS* 1.3 87.3 - - - +
208A VAL* 1.3 65.4 + - - +
371C ILE* 4.2 13.0 - - + +
372C ALA* 3.5 40.0 - - + +
374C ASN* 5.5 2.2 - - - +
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Residues in contact with VAL 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A ALA* 3.4 2.5 - - - -
196A MET 2.8 38.2 + - - +
198A PHE* 3.7 32.3 - - + -
206A LYS* 3.8 13.7 - - - +
207A PRO* 1.3 80.8 - - - +
209A GLN* 1.3 66.7 + - - +
210A MET* 3.1 22.3 + - + -
283A PRO* 4.3 7.4 - - + -
284A ARG 5.8 0.4 - - - +
385A PRO* 4.1 28.5 - - + +
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Residues in contact with GLN 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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193A THR* 3.8 21.6 + - + +
194A GLN* 4.9 2.0 - - - +
195A ALA* 3.6 25.7 + - - +
208A VAL* 1.3 73.2 - - - +
210A MET* 1.3 58.2 + - - +
283A PRO* 3.5 3.6 - - - +
284A ARG* 3.0 56.6 + - + +
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Residues in contact with MET 210 (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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192A ASP 4.1 1.7 - - - +
193A THR* 3.3 5.3 - - - +
194A GLN* 2.8 37.9 + - - +
196A MET* 3.5 41.5 - - + +
197A PRO 4.8 0.7 - - - +
198A PHE* 4.4 0.9 - - + -
208A VAL* 3.1 23.0 + - + +
209A GLN* 1.3 72.4 - - - +
211A MET* 1.3 69.7 + - - +
212A TYR* 4.7 1.0 - - - +
281A TYR* 3.7 13.5 - - + -
282A LEU* 3.4 35.7 - - - -
283A PRO* 3.4 6.7 - - + -
360A ALA 3.6 17.7 - - - +
361A ASP* 3.9 21.1 - - + -
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Residues in contact with MET 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A PHE* 3.5 33.2 - - + -
193A THR* 3.8 16.8 - - - +
210A MET* 1.3 74.8 - - - +
212A TYR* 1.3 62.0 + - - +
281A TYR* 3.3 7.3 - - - -
282A LEU* 2.8 63.1 + - + +
283A PRO 4.0 8.7 - - - +
284A ARG* 3.7 20.0 - - + -
334A ILE* 4.3 5.2 - - + -
335A ASN* 3.2 43.7 - - - +
336A GLU* 3.3 15.0 - - - -
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Residues in contact with TYR 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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188A PHE* 3.6 10.4 - - - +
189A LYS 4.5 2.1 + - - -
192A ASP* 3.5 52.2 + - + +
196A MET* 6.2 0.4 - - - -
210A MET 3.9 1.5 + - - +
211A MET* 1.3 79.5 - - - +
213A GLN* 1.3 73.3 + - - +
214A ILE* 2.8 36.6 - - + +
279A LYS* 3.6 23.9 - - + -
280A VAL 3.2 11.7 - - - -
281A TYR* 3.3 48.9 - + + -
351A ALA* 4.9 2.4 - - - -
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Residues in contact with GLN 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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186A LYS* 3.1 43.5 - - - +
187A ALA 3.5 15.5 + - - +
188A PHE* 3.4 36.7 - - + -
189A LYS 5.4 0.4 - - - +
192A ASP* 5.3 1.8 - - - -
212A TYR* 1.3 84.4 - - - +
214A ILE* 1.3 68.1 + - - +
215A GLY* 5.1 0.6 - - - -
217A PHE* 3.6 28.3 - - + -
278A ILE 3.7 0.7 - - - +
279A LYS* 3.7 1.2 - - - -
280A VAL* 2.8 36.8 + - + +
341A VAL* 6.4 0.2 - - - +
342A VAL* 5.5 5.7 - - - +
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Residues in contact with ILE 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 TYR* 2.8 33.1 - - + +
213A GLN* 1.3 78.9 + - - +
215A GLY* 1.3 63.0 + - - +
277A LYS* 4.5 5.3 - - + -
278A ILE 3.4 6.7 - - - +
279A LYS* 3.6 27.6 - - + -
342A VAL* 3.8 22.2 - - - +
347A ALA* 4.5 9.0 - - + +
350A ASP* 3.4 47.3 - - + +
351A ALA* 3.8 14.6 - - - +
354A VAL* 4.2 11.4 - - + -
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Residues in contact with GLY 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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186A LYS* 5.3 2.9 - - - -
213A GLN* 5.1 2.0 - - - -
214A ILE* 1.3 80.3 - - - +
216A LEU* 1.3 63.3 + - - -
217A PHE* 3.4 21.5 - - - -
276A ARG 3.4 0.7 - - - +
277A LYS* 4.2 11.4 - - - -
278A ILE 2.9 30.5 + - - -
342A VAL* 5.3 3.8 - - - -
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Residues in contact with LEU 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A LYS* 3.2 33.1 - - - +
215A GLY* 1.3 71.5 - - - -
217A PHE* 1.3 60.3 + - - +
275A GLU* 3.2 38.3 - - + +
276A ARG* 3.6 28.0 - - - +
277A LYS* 3.8 16.6 - - + +
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Residues in contact with PHE 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A LYS* 3.5 31.0 - - + -
188A PHE* 5.9 0.2 - + - -
213A GLN* 3.6 27.1 - - + -
215A GLY* 3.4 38.1 - - - -
216A LEU* 1.3 73.8 - - - +
218A ARG* 1.3 62.6 + - - +
219A VAL* 3.4 4.9 + - - +
230A LEU* 3.7 18.6 - - + -
231A GLU 3.7 7.0 - - - +
232A LEU* 3.5 31.6 - - + -
233A PRO* 4.2 13.7 - - + -
275A GLU* 3.4 9.3 + - - -
276A ARG 2.9 28.9 + - - +
278A ILE* 3.9 5.2 - - + -
280A VAL* 3.8 25.4 - - + -
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Residues in contact with ARG 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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217A PHE* 1.3 71.5 - - - +
219A VAL* 1.3 63.0 + - - +
229A ILE 4.0 0.3 - - - +
230A LEU* 3.8 1.0 - - - +
231A GLU* 3.0 63.0 + - + +
268A THR 3.8 6.2 + - - -
270A SER* 3.7 27.5 + - - +
273A MET* 2.9 45.5 - - + +
274A GLU 3.5 6.3 - - - -
275A GLU* 3.6 23.7 + - + +
369A LYS* 5.8 1.8 - - - +
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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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217A PHE 3.7 10.3 - - - +
218A ARG* 1.3 79.7 - - - +
220A ALA* 1.3 70.8 + - - +
221A SER 4.3 0.3 + - - -
228A LYS* 4.8 9.4 - - + -
229A ILE 3.3 12.1 - - - +
230A LEU* 3.7 20.6 - - + -
272A VAL 3.8 1.6 - - - +
273A MET* 3.7 2.4 - - - -
274A GLU* 3.0 34.8 + - - +
276A ARG* 3.8 31.1 + - + +
278A ILE* 4.0 23.8 - - + -
356A GLU* 4.2 6.3 - - - +
358A PHE* 4.8 8.7 - - + -
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Residues in contact with ALA 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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219A VAL* 1.3 76.6 - - - +
221A SER* 1.3 61.1 + - - +
222A MET* 4.0 10.5 + - + +
228A LYS* 3.3 6.1 - - - +
229A ILE* 2.8 37.0 + - + +
267A TRP 3.4 25.8 - - - +
272A VAL* 3.8 20.0 - - + +
273A MET* 3.8 13.0 - - - -
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Residues in contact with SER 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 4.1 0.2 - - - -
220A ALA* 1.3 74.2 - - - +
222A MET* 1.3 64.5 + - - +
223A ALA* 3.9 8.5 + - - +
227A MET 4.1 3.2 + - - -
228A LYS* 4.3 15.5 - - - +
272A VAL* 4.8 4.5 + - - +
276A ARG* 4.1 20.4 - - - +
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Residues in contact with MET 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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220A ALA* 4.0 10.8 - - + +
221A SER* 1.3 73.2 + - - +
223A ALA* 1.3 66.9 + - - +
224A SER* 3.1 5.2 - - - +
225A GLU* 2.9 20.5 + - + +
226A LYS 3.0 9.4 + - - -
227A MET* 3.0 34.0 + - + +
229A ILE* 3.7 37.0 - - + -
267A TRP* 3.7 34.8 - - + +
272A VAL* 3.8 29.6 - - + -
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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