Contacts of the helix formed by residues 198 - 211 (chain C) in PDB entry 2HTE
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 HIS 198 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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12C MET* 3.1 31.6 + - + +
13C TRP* 4.1 13.1 - + - -
193C GLU* 3.1 37.6 - - + +
194C SER* 2.8 39.9 + - - +
197C ILE* 1.3 100.2 - - + +
199C VAL* 1.3 63.7 + - - +
200C GLY 3.3 2.9 - - - -
201C THR* 3.1 14.5 + - - +
202C ILE* 3.0 24.2 + - + +
227C PRO* 5.3 2.5 - - + -
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Residues in contact with VAL 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C LEU* 3.3 28.0 - - - +
196C TRP 5.5 0.4 - - - -
197C ILE 3.6 3.6 + - - -
198C HIS* 1.3 75.7 - - - +
200C GLY* 1.3 57.0 + - - +
202C ILE* 3.2 6.0 + - + +
203C LYS* 2.9 37.1 + - + +
275C PHE* 4.3 9.6 - - + -
276C LEU* 4.1 19.3 - - + -
279C GLU* 3.6 42.8 - - + +
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Residues in contact with GLY 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C HIS 3.3 0.8 - - - -
199C VAL* 1.3 76.2 - - - +
201C THR* 1.3 56.4 + - - +
203C LYS* 3.5 9.0 + - - +
204C ASN* 2.9 37.2 + - - +
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Residues in contact with THR 201 (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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162C PRO* 5.0 9.1 - - + +
170C PHE* 4.6 12.3 - - + -
192C CYS* 5.3 1.8 - - - -
193C GLU* 4.3 20.9 - - + -
198C HIS* 3.1 20.5 + - - +
200C GLY* 1.3 72.2 - - - +
202C ILE* 1.3 61.4 + - - +
204C ASN* 3.3 8.3 + - + +
205C MET* 2.9 43.5 + - + +
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Residues in contact with ILE 202 (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 CYS* 3.5 27.1 - - - +
193C GLU* 4.9 0.7 - - + -
194C SER 3.8 6.5 - - - +
195C LEU* 3.7 26.9 - - + -
198C HIS* 3.0 23.2 + - + +
199C VAL* 3.6 11.7 - - + +
201C THR* 1.3 73.7 - - - +
203C LYS* 1.3 57.5 + - + +
205C MET* 3.3 1.6 + - - +
206C ILE* 2.8 61.0 + - + +
218C TYR* 3.3 36.1 - - + +
276C LEU* 4.5 15.5 - - + -
280C ILE* 5.0 1.6 - - + -
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Residues in contact with LYS 203 (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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199C VAL* 2.9 32.5 + - + +
200C GLY* 3.7 7.6 - - - +
202C ILE* 1.3 76.9 - - + +
204C ASN* 1.3 63.6 + - - +
207C GLY* 3.0 20.6 + - - -
276C LEU* 6.2 0.2 - - + -
279C GLU* 3.2 45.7 + - + +
280C ILE* 5.2 1.1 - - + -
282C ASN* 4.0 23.5 + - - +
283C ILE* 3.7 32.2 - - + +
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Residues in contact with ASN 204 (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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200C GLY 2.9 23.3 + - - +
201C THR* 3.3 8.4 + - + +
203C LYS* 1.3 77.9 - - - +
205C MET* 1.3 63.8 + - + +
207C GLY* 3.3 2.8 + - - -
208C TYR* 3.1 50.4 + - + +
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Residues in contact with MET 205 (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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169C LEU 4.1 0.9 - - - +
170C PHE* 3.9 41.1 - - + +
175C TYR* 3.4 42.3 - - + +
190C ALA* 5.8 0.4 - - + -
191C GLN 5.8 1.6 - - - +
192C CYS* 3.9 19.7 - - - -
201C THR* 2.9 34.0 + - + +
202C ILE 3.9 2.0 - - - +
204C ASN* 1.3 73.4 - - + +
206C ILE* 1.3 68.2 + - - +
208C TYR* 3.3 26.6 + - + +
209C ALA* 3.1 22.5 + - - +
234C LEU* 3.9 10.9 - - + +
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Residues in contact with ILE 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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192C CYS* 5.6 0.2 - - - -
202C ILE* 2.8 45.4 + - + +
205C MET* 1.3 72.9 - - - +
207C GLY* 1.3 55.4 + - - +
209C ALA* 3.2 3.3 + - - +
210C LYS* 2.9 49.8 + - + +
216C VAL* 3.7 15.3 - - + +
217C GLU 5.3 1.3 - - - +
218C TYR* 4.4 12.8 - - + -
234C LEU* 3.7 22.4 - - + +
280C ILE* 3.9 34.1 - - + -
283C ILE* 3.6 18.2 - - + -
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Residues in contact with GLY 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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203C LYS 3.0 15.4 + - - -
204C ASN* 3.6 4.7 - - - -
205C MET 3.2 0.2 - - - -
206C ILE* 1.3 76.1 - - - +
208C TYR* 1.3 62.7 + - - +
210C LYS* 3.3 12.7 + - - +
211C LYS* 3.4 18.5 + - - +
283C ILE* 3.9 16.1 - - - +
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Residues in contact with TYR 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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170C PHE 3.9 5.9 + - - -
171C ASN* 3.7 26.4 - - + +
172C GLN* 3.0 61.2 + - + +
175C TYR* 4.6 10.1 - - + -
204C ASN* 3.1 38.2 + - + +
205C MET* 3.3 31.4 + - + +
207C GLY* 1.3 76.3 - - - +
209C ALA* 1.3 64.2 + - - +
210C LYS 3.4 0.3 + - - -
211C LYS* 3.5 8.0 + - - +
212C LEU* 3.8 5.1 - - - +
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Residues in contact with ALA 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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175C TYR* 4.6 7.9 - - + -
205C MET 3.1 13.1 + - - +
206C ILE 3.2 6.0 + - - +
208C TYR* 1.3 78.7 - - - +
210C LYS* 1.3 53.0 + - - +
212C LEU* 3.0 4.7 + - - -
213C PHE* 2.8 42.0 + - + +
216C VAL* 3.6 24.5 - - + -
234C LEU* 4.4 5.4 - - + -
236C CYS* 3.7 24.2 - - - -
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Residues in contact with LYS 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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206C ILE* 2.9 38.2 + - + +
207C GLY* 3.7 6.1 - - - +
208C TYR 3.2 0.4 - - - -
209C ALA* 1.3 73.1 - - - +
211C LYS* 1.3 64.0 + - - +
212C LEU 3.2 2.1 + - - -
213C PHE 3.7 12.4 - - - +
216C VAL* 3.9 23.8 - - + +
280C ILE* 5.1 5.2 + - + +
283C ILE* 4.2 28.7 + - + +
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Residues in contact with LYS 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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172C GLN* 3.5 27.4 - - - +
207C GLY 3.6 9.9 - - - +
208C TYR 3.6 9.0 - - - +
209C ALA 3.3 0.2 - - - -
210C LYS* 1.3 76.8 - - - +
212C LEU* 1.3 63.1 + - + +
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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