Contacts of the strand formed by residues 214 - 232 (chain A) in PDB entry 1F0C
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 GLU 214 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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208A PHE 3.6 0.9 - - - +
209A TYR* 3.7 0.9 - - - -
210A VAL* 3.1 46.3 + - + +
211A SER* 3.1 27.1 + - - +
212A PRO 3.7 0.2 - - - -
213A THR* 1.3 77.6 - - - +
215A MET* 1.3 64.1 + - - +
216A VAL* 4.2 14.5 - - + +
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Residues in contact with MET 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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207A PRO* 4.2 25.8 - - + -
208A PHE 3.6 3.6 - - - +
209A TYR* 3.6 43.7 - - + -
213A THR* 3.9 5.0 + - - +
214A GLU* 1.3 80.1 - - - +
216A VAL* 1.3 64.2 + - - +
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Residues in contact with VAL 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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207A PRO* 3.5 3.3 - - - -
208A PHE* 2.7 40.2 + - - +
210A VAL* 3.6 27.8 - - + -
214A GLU* 4.2 15.0 - - + +
215A MET* 1.3 80.3 - - - +
217A ASP* 1.3 69.2 + - + +
391B PRO* 3.8 26.5 - - + -
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Residues in contact with ASP 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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205A ASP* 3.0 37.3 - - - +
206A TYR 3.7 10.6 - - - +
207A PRO* 4.7 3.5 - - - +
216A VAL* 1.3 82.1 - - + +
218A VAL* 1.3 65.4 + - - +
391B PRO* 4.2 4.3 - - - +
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Residues in contact with VAL 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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205A ASP* 3.3 5.3 - - - -
206A TYR 2.8 40.6 + - - +
208A PHE* 3.5 26.0 - - + -
216A VAL 4.1 0.2 - - - +
217A ASP* 1.3 80.6 - - - +
219A SER* 1.3 64.0 - - - +
220A MET* 3.2 31.8 + - + -
289A PRO* 4.4 6.1 - - + -
290A LYS 5.9 0.7 - - - +
388B TYR* 3.5 17.3 - - - +
391B PRO* 3.5 28.3 - - + -
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Residues in contact with SER 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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203A THR* 3.2 23.7 - - - +
204A SER* 3.8 5.1 - - - -
205A ASP* 3.8 12.4 + - - -
218A VAL* 1.3 71.0 - - - +
220A MET* 1.3 58.5 + - - +
289A PRO* 3.4 4.9 - - - +
290A LYS* 2.9 47.2 + - - +
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Residues in contact with MET 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A PHE 3.9 2.4 - - - +
203A THR* 3.4 4.7 - - - -
204A SER 2.8 36.6 + - - +
206A TYR* 3.7 40.0 - - + -
207A PRO 5.1 0.2 - - - +
208A PHE* 5.0 0.2 - - + -
218A VAL* 3.2 32.2 + - + -
219A SER* 1.3 72.4 + - - +
221A MET* 1.3 61.7 + - - +
222A SER* 4.4 1.4 + - - -
287A HIS* 3.7 22.0 - - + +
288A ILE* 3.4 31.9 - - - -
289A PRO* 3.6 14.6 - - + -
365B CYS* 5.8 1.1 - - - -
366B ALA 4.1 11.0 - - - +
367B ASP* 4.8 9.4 - - + -
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Residues in contact with MET 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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194A TRP* 4.8 0.9 - - + +
198A PHE* 3.6 40.3 - - + -
203A THR* 4.1 17.3 - - + +
220A MET* 1.3 74.2 - - - +
222A SER* 1.3 60.5 + - - +
286A VAL 3.7 0.3 - - - +
287A HIS* 2.9 6.4 - - - -
288A ILE* 2.6 43.7 + - + +
289A PRO 3.9 16.4 - - - +
290A LYS* 3.9 20.4 - - + -
340A VAL* 4.1 15.0 - - + -
341A ASN* 3.4 12.1 - - - +
342A GLU* 3.3 38.1 - - - +
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Residues in contact with SER 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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198A PHE* 3.5 13.2 - - - +
199A GLU 4.5 4.4 + - - +
202A PHE* 3.8 36.0 + - - +
203A THR* 5.2 0.2 + - - -
206A TYR* 3.4 15.6 + - - -
220A MET 3.9 1.1 + - - -
221A MET* 1.3 74.5 + - - +
223A MET* 1.3 62.1 + - - +
224A TYR* 3.8 22.9 - - - -
286A VAL 3.1 4.9 - - - -
287A HIS* 2.7 27.4 + - - +
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Residues in contact with MET 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A MET* 2.8 39.9 - - - +
197A PRO 3.2 20.4 - - - +
198A PHE* 3.7 31.2 - - + -
202A PHE* 5.7 1.1 - - - -
222A SER* 1.3 75.7 - - - +
224A TYR* 1.3 63.3 + - - +
225A GLU* 4.1 21.2 + - + -
227A PHE* 3.7 27.6 - - + -
284A ILE 4.5 1.4 - - - +
285A ASP* 3.6 2.6 - - - +
286A VAL* 2.7 40.9 + - + +
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Residues in contact with TYR 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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202A PHE* 3.9 42.9 + + - -
206A TYR* 3.9 8.7 + - - -
222A SER* 3.8 19.6 + - - -
223A MET* 1.3 74.6 - - - +
224A GLY* 1.3 65.3 + - - +
225A GLU* 3.3 14.4 + - - +
285A ASP* 3.3 25.4 - - + +
287A HIS* 3.6 31.2 - + - -
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Residues in contact with GLY 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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223A MET 4.1 0.4 + - - -
224A TYR* 1.3 73.1 - - - +
225A GLU* 1.3 64.8 + - - +
283A PHE* 4.3 14.5 - - - -
284A ILE 4.8 2.2 - - - +
285A ASP* 2.4 20.5 + - - -
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Residues in contact with GLU 225 (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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196A MET* 3.6 33.8 - - - +
223A MET* 4.1 22.2 - - + -
224A GLY* 1.3 92.6 + - - +
226A ALA* 1.3 63.3 + - - +
227A PHE* 3.6 22.0 - - + -
283A PHE* 3.5 5.2 - - - -
284A ILE 3.2 27.7 + - - +
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Residues in contact with ALA 226 (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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225A GLU* 1.3 77.0 + - - +
227A PHE* 1.3 75.2 + - - +
281A ALA* 5.0 7.9 - - + -
282A MET 3.1 19.5 - - - +
283A PHE* 3.8 22.6 - - + -
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Residues in contact with PHE 227 (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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196A MET* 6.0 2.9 - - + -
223A MET* 3.7 31.9 - - + -
225A GLU* 3.6 29.8 - - + -
226A ALA* 1.3 78.0 - - - +
228A ASN* 1.3 72.0 + - - +
229A HIS* 3.3 4.5 + - - +
240A ILE* 4.0 12.1 - - + -
241A GLU 3.6 19.3 - - - +
242A LEU* 3.7 18.2 - - + -
243A PRO* 4.3 14.6 - - + -
280A ASP 3.3 1.2 - - - +
281A ALA* 4.0 4.0 - - - -
282A MET 2.9 28.5 + - - +
284A ILE* 3.9 17.0 - - + -
286A VAL* 3.9 20.2 - - + -
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Residues in contact with ASN 228 (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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227A PHE* 1.3 73.3 - - - +
229A HIS* 1.3 60.3 + - - +
240A ILE* 3.5 3.1 - - - +
241A GLU* 3.0 60.1 + - + +
279A MET* 3.5 20.2 - - + +
280A ASP* 3.3 6.9 - - - -
281A ALA* 3.4 22.7 + - - +
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Residues in contact with HIS 229 (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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227A PHE 3.8 8.5 - - - +
228A ASN* 1.3 77.2 - - - +
230A ALA* 1.3 79.8 + - - +
238A SER* 2.6 29.7 + - - -
239A ILE 3.1 22.9 - - - -
240A ILE* 4.4 11.0 - - + -
278A SER 4.4 0.3 - - - +
279A MET* 3.7 5.6 - - - +
280A ASP* 2.9 29.8 + - - +
282A MET* 3.8 11.9 - - + +
284A ILE* 3.8 23.0 - - + +
360B VAL 3.3 8.3 + - - -
361B THR* 3.2 47.5 - - + +
364B PHE* 4.6 0.2 - + - -
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Residues in contact with ALA 230 (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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229A HIS* 1.3 85.9 + - - +
231A SER* 1.3 61.4 + - - +
232A VAL* 3.7 5.2 + - + -
238A SER* 3.5 4.3 - - - -
239A ILE* 2.9 49.0 + - + +
278A SER* 3.5 26.9 - - - +
279A MET* 3.9 9.0 - - + -
282A MET* 5.9 0.4 - - - -
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Residues in contact with SER 231 (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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229A HIS* 3.9 1.7 + - - -
230A ALA* 1.3 72.4 - - - +
232A VAL* 1.3 61.3 + - - +
233A LYS* 3.3 20.1 + - - +
237A PHE 3.8 3.4 - - - -
238A SER* 4.7 0.7 - - - +
359B THR* 2.5 26.5 + - - -
360B VAL 3.5 1.7 + - - -
361B THR* 2.5 30.7 + - - +
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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