Contacts of the helix formed by residues 211 - 231 (chain F) in PDB entry 2AJQ
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 LEU 211 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190F HIS* 3.4 22.4 - - + +
191F TYR* 3.0 44.7 + - + +
193F PRO* 5.0 1.4 - - + +
207F TRP 5.2 0.3 - - - +
210F SER* 1.3 78.4 + - - +
212F GLU* 1.3 68.1 + - - +
213F ALA* 4.3 2.7 - - + +
214F VAL* 2.9 25.4 + - + +
215F ASP* 4.0 1.7 + - - +
597F ASP 3.8 8.5 - - - +
598F GLY* 3.2 37.9 - - - +
599F ARG 3.7 2.0 - - - +
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Residues in contact with GLU 212 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207F TRP 5.9 0.9 - - - -
210F SER 3.5 3.3 + - - -
211F LEU* 1.3 73.7 - - - +
213F ALA* 1.3 64.1 + - - +
215F ASP* 3.0 11.1 + - + +
216F ILE* 3.0 34.6 + - + +
596F LEU 4.1 0.7 - - - +
597F ASP* 3.5 19.3 + - + +
624F LEU* 4.9 0.3 - - - +
683F HIS* 2.8 32.4 + - - -
684F TRP* 2.9 31.5 + - - -
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Residues in contact with ALA 213 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97F LEU* 4.0 18.4 - - + -
211F LEU* 3.1 8.7 - - + -
212F GLU* 1.3 78.9 - - - +
214F VAL* 1.3 57.3 + - - +
216F ILE* 4.4 0.7 - - - -
217F GLU* 2.9 35.5 + - - +
597F ASP* 2.9 42.1 + - - +
599F ARG* 3.9 17.0 - - + +
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Residues in contact with VAL 214 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94F LEU* 3.5 23.3 - - + -
97F LEU* 4.0 13.9 - - + -
191F TYR* 4.1 13.7 - - + +
192F PHE* 3.9 21.5 - - + -
206F PHE* 4.5 2.9 - - + -
207F TRP* 4.1 14.8 - - + -
210F SER* 3.9 12.6 - - - +
211F LEU* 2.9 33.6 + - + +
213F ALA* 1.3 77.6 - - - +
215F ASP* 1.3 59.1 + - - +
217F GLU* 4.3 1.0 - - - +
218F HIS* 2.8 35.5 + - + +
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Residues in contact with ASP 215 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85F ARG* 4.0 10.2 + - - -
207F TRP* 4.0 41.6 - - + +
211F LEU 4.0 0.9 + - - +
212F GLU* 3.0 13.5 + - + +
214F VAL* 1.3 76.4 - - - +
216F ILE* 1.3 69.5 + - + +
218F HIS* 3.2 2.9 + - - +
219F ARG* 3.0 57.7 + - - +
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Residues in contact with ILE 216 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212F GLU* 3.0 34.3 + - + +
213F ALA 3.9 3.1 - - - +
215F ASP* 1.3 78.6 - - + +
217F GLU* 1.3 61.7 + - - +
219F ARG* 3.1 10.6 + - - +
220F ALA* 2.8 27.4 + - - +
597F ASP* 4.0 15.9 - - + +
599F ARG* 4.9 0.9 - - - +
620F LEU* 5.5 2.9 - - + +
623F LYS* 4.1 29.2 - - + -
624F LEU* 4.0 19.3 - - + +
627F ILE* 3.7 9.2 - - + +
684F TRP* 3.6 35.0 - - + -
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Residues in contact with GLU 217 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93F VAL* 3.7 20.0 - - + +
97F LEU* 3.9 19.5 - - + -
213F ALA 2.9 18.9 + - - +
214F VAL 4.4 2.7 - - - +
216F ILE* 1.3 75.6 - - - +
218F HIS* 1.3 58.0 + - - +
220F ALA* 3.9 1.6 - - - +
221F ALA* 3.0 29.3 + - - +
422F PRO* 4.1 10.0 - - - +
423F ASN* 3.5 17.7 - - + +
599F ARG* 2.6 30.3 + - - +
623F LYS* 2.5 44.6 + - - +
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Residues in contact with HIS 218 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62F HIS* 3.3 36.6 + + - +
85F ARG* 4.8 5.6 - - + +
88F CYS 3.9 9.0 - - - +
89F ILE* 3.7 6.6 - - + -
90F ASP* 2.9 36.4 + - + +
93F VAL* 4.1 11.4 - - + +
94F LEU* 3.7 33.8 - - + +
207F TRP* 3.8 21.0 - + + -
214F VAL* 2.8 27.1 + - + +
215F ASP* 3.2 5.5 + - - +
216F ILE 3.1 0.8 - - - -
217F GLU* 1.3 77.9 - - - +
219F ARG* 1.3 64.3 + - + +
222F TRP* 3.3 19.1 + - - +
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Residues in contact with ARG 219 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85F ARG* 3.4 46.3 - - - +
215F ASP* 3.0 48.9 + - - +
216F ILE* 3.7 7.6 - - - +
218F HIS* 1.3 76.6 - - + +
220F ALA* 1.3 58.9 + - - +
222F TRP* 3.5 2.4 + - - +
223F LEU* 3.1 29.1 + - - +
624F LEU* 6.4 0.7 - - - -
627F ILE* 3.7 29.3 - - + +
631F GLU* 2.7 39.0 + - - +
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Residues in contact with ALA 220 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216F ILE 2.8 16.0 + - - +
217F GLU* 4.0 7.4 - - - +
219F ARG* 1.3 76.8 - - - +
221F ALA* 1.3 59.5 + - - +
223F LEU* 4.0 3.1 - - - +
224F LEU* 2.9 43.3 + - + +
422F PRO* 4.6 1.6 - - + -
623F LYS* 3.6 34.5 - - + -
626F ILE* 5.9 2.9 - - + -
627F ILE* 3.6 12.3 - - + +
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Residues in contact with ALA 221 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62F HIS* 3.7 23.9 - - + +
93F VAL* 3.8 19.5 - - + -
217F GLU 3.0 18.5 + - - +
218F HIS 3.7 0.2 + - - -
220F ALA* 1.3 74.1 - - - +
222F TRP* 1.3 60.0 - - - +
224F LEU* 4.2 0.3 - - - +
225F ALA* 2.9 31.2 + - - +
422F PRO* 3.9 22.5 - - + +
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Residues in contact with TRP 222 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62F HIS* 3.7 42.6 - + + -
66F VAL* 3.8 24.9 - - + -
83F LEU 3.2 27.1 - - - -
84F PRO 4.2 0.4 - - - -
85F ARG* 3.5 48.2 - - + +
88F CYS* 4.0 16.2 - - - -
218F HIS 3.3 16.0 + - - +
219F ARG 3.6 4.9 - - - +
221F ALA* 1.3 80.5 - - - +
223F LEU* 1.3 64.8 + - + +
225F ALA* 3.4 4.5 + - - +
226F LYS* 3.2 22.3 + - + +
229F ARG* 5.3 1.0 + - - -
630F GLU* 6.1 0.9 - - - -
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Residues in contact with LEU 223 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219F ARG 3.1 15.0 + - - +
220F ALA* 4.0 4.0 - - - +
222F TRP* 1.3 85.6 - - + +
224F LEU* 1.3 58.8 + - + +
226F LYS* 3.2 9.7 + - + +
227F GLN* 3.0 24.4 + - - +
626F ILE* 3.4 42.4 - - + +
627F ILE* 4.0 12.6 - - + -
630F GLU* 3.3 40.6 - - + +
640F HIS* 3.9 13.9 - - + -
648F TYR* 3.8 17.9 - - + -
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Residues in contact with LEU 224 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220F ALA* 2.9 27.0 + - + +
221F ALA 4.2 2.0 - - - +
223F LEU* 1.3 75.1 - - + +
225F ALA* 1.3 66.5 + - - +
227F GLN* 3.1 32.8 + - + +
228F GLU* 3.0 27.1 + - - +
420F VAL* 4.2 18.2 - - + +
422F PRO* 3.5 33.7 - - + -
626F ILE* 4.6 9.4 - - + -
648F TYR* 6.3 0.7 - - + -
651F TRP* 3.5 44.0 - - + -
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Residues in contact with ALA 225 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62F HIS 3.6 24.5 - - - +
63F LYS* 4.0 19.3 - - + +
221F ALA 2.9 19.8 + - - +
222F TRP 3.5 6.1 - - - +
224F LEU* 1.3 74.9 - - - +
226F LYS* 1.3 63.6 + - - +
228F GLU* 3.1 23.3 + - - +
229F ARG* 3.2 25.0 + - - +
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Residues in contact with LYS 226 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222F TRP* 3.2 12.7 + - + +
223F LEU* 3.2 13.9 - - + +
225F ALA* 1.3 79.6 - - - +
227F GLN* 1.3 60.4 + - - +
229F ARG* 3.3 35.8 + - - +
230F ASN* 3.1 40.6 + - - +
630F GLU* 5.3 0.7 - - - +
640F HIS* 3.1 60.9 + - + +
641F GLY* 4.1 4.6 - - - -
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Residues in contact with GLN 227 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223F LEU 3.0 12.9 + - - +
224F LEU* 3.1 28.0 + - + +
226F LYS* 1.3 73.7 - - - +
228F GLU* 1.3 66.6 + - - +
230F ASN* 3.2 6.2 + - - +
231F GLY* 3.1 18.0 + - - -
420F VAL* 4.3 16.8 - - - +
432F HIS* 5.9 0.6 - - - -
648F TYR* 3.6 40.4 - - + +
649F MET 3.5 21.9 + - - +
650F ALA* 3.5 28.8 + - - +
651F TRP* 3.6 14.9 + - - +
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Residues in contact with GLU 228 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63F LYS* 2.8 37.2 + - - +
224F LEU 3.0 18.3 + - - +
225F ALA* 3.1 9.6 + - - +
227F GLN* 1.3 77.7 - - + +
229F ARG* 1.3 54.4 + - + +
231F GLY* 3.5 3.3 + - - -
417F HIS* 2.7 39.3 + - + +
418F GLY 3.2 20.0 - - - +
419F SER* 3.2 13.3 + - - -
420F VAL* 2.5 43.3 + - + +
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Residues in contact with ARG 229 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12F LEU* 3.8 28.0 - - + -
62F HIS 5.6 0.4 + - - -
63F LYS 5.5 0.6 + - - -
67F PRO* 3.8 25.6 - - - +
222F TRP 5.3 0.8 + - - -
225F ALA* 3.2 15.4 + - - +
226F LYS* 3.7 47.0 - - - +
227F GLN 3.2 0.4 - - - -
228F GLU* 1.3 78.9 - - + +
230F ASN* 1.3 65.7 + - - +
417F HIS* 3.0 17.6 - - - -
642F TRP* 4.9 1.4 + - - -
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Residues in contact with ASN 230 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226F LYS* 3.1 39.0 + - - +
227F GLN* 3.2 4.4 + - - +
229F ARG* 1.3 78.1 + - - +
231F GLY* 1.3 64.2 + - - +
415F LYS* 3.2 14.4 - - - +
417F HIS* 3.8 0.9 - - - -
640F HIS* 3.2 27.3 + - - -
641F GLY* 4.5 5.7 - - - -
642F TRP* 2.7 35.6 + - + +
647F ALA* 3.7 11.0 - - + +
648F TYR 3.0 32.0 + - - +
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Residues in contact with GLY 231 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227F GLN 3.1 10.1 + - - -
228F GLU* 3.5 3.8 + - - -
229F ARG 3.3 1.2 - - - -
230F ASN* 1.3 89.5 - - - +
232F PHE* 1.3 60.7 + - - -
233F PRO* 3.7 1.4 - - - +
415F LYS* 4.3 2.9 - - - -
416F ILE 3.5 11.9 - - - -
417F HIS* 3.7 17.9 - - - -
642F TRP* 3.5 13.7 - - - -
649F MET* 4.0 11.6 - - - +
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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
------------------------------------------------------------
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