Contacts of the helix formed by residues 191 - 207 (chain C) in PDB entry 1Z6T
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 ASP 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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190C GLN* 1.3 76.6 - - - +
192C LYS* 1.3 60.7 + - - +
193C SER* 3.7 5.8 + - - -
194C GLY* 2.8 29.6 + - - -
195C LEU* 2.9 27.4 + - - +
249C TRP* 3.6 8.7 - - - -
524C HIS* 3.3 29.9 + - + -
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Residues in contact with LYS 192 (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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191C ASP* 1.3 75.7 - - - +
193C SER* 1.3 58.2 + - - +
195C LEU* 3.4 0.3 + - - +
196C LEU* 2.9 29.0 + - - +
220C ILE* 3.6 31.1 - - + +
249C TRP* 3.7 39.0 - - + +
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Residues in contact with SER 193 (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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191C ASP* 3.4 6.2 + - - -
192C LYS* 1.3 79.9 - - - +
194C GLY* 1.3 59.0 + - - +
196C LEU* 3.5 9.5 + - - +
197C MET* 3.1 34.4 + - - +
520C ALA* 4.7 4.3 - - - -
521C HIS* 3.7 33.8 + - - +
524C HIS* 3.1 36.7 + - - -
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Residues in contact with GLY 194 (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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190C GLN* 3.1 23.9 - - - +
191C ASP* 2.8 17.9 + - - -
193C SER* 1.3 75.6 + - - +
195C LEU* 1.3 62.3 + - - +
197C MET* 3.4 20.8 + - - +
198C LYS* 3.3 24.9 + - - +
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Residues in contact with LEU 195 (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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187C VAL* 4.3 13.2 - - + -
190C GLN* 3.7 9.0 - - + +
191C ASP 2.9 17.0 + - - +
192C LYS 3.7 3.6 - - - +
194C GLY* 1.3 71.8 - - - +
196C LEU* 1.3 60.7 + - - +
198C LYS* 3.1 12.0 + - + +
199C LEU* 2.8 38.4 + - + +
220C ILE* 4.6 5.4 - - + -
249C TRP* 3.8 26.0 - - + -
250C VAL* 4.0 28.3 - - + +
253C ALA* 3.9 27.6 - - + -
254C PHE* 4.2 13.9 - - + -
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Residues in contact with LEU 196 (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 LYS 2.9 17.9 + - - +
193C SER* 3.8 7.9 - - - +
194C GLY 3.3 0.4 - - - -
195C LEU* 1.3 76.7 - - - +
197C MET* 1.3 53.2 + - + +
199C LEU* 3.1 5.9 + - - +
200C GLN* 2.8 57.5 + - + +
217C PRO 3.9 12.3 - - - +
218C LEU 3.6 19.7 - - - +
219C ASN* 3.7 35.0 - - - +
220C ILE* 4.1 7.8 - - + +
223C ALA* 4.4 10.8 - - + -
517C VAL 4.9 2.2 - - - +
520C ALA* 4.0 20.6 - - + -
521C HIS* 5.3 5.2 - - + +
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Residues in contact with MET 197 (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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190C GLN* 5.4 0.2 - - - +
193C SER* 3.1 13.9 + - - +
194C GLY* 3.6 28.9 - - - +
195C LEU 3.3 0.2 - - - -
196C LEU* 1.3 75.3 - - + +
198C LYS* 1.3 62.3 + - + +
200C GLN* 3.5 15.1 + - - +
201C ASN* 3.2 23.7 + - - +
485C ASN* 3.6 44.6 - - - +
486C PHE* 4.5 17.5 - - + -
521C HIS* 3.9 35.2 - - + -
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Residues in contact with LYS 198 (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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185C VAL* 5.0 13.8 - - + +
186C SER* 3.1 31.9 + - - +
187C VAL* 3.7 7.5 + - + +
190C GLN* 3.5 27.1 - - + +
194C GLY 3.3 13.2 + - - +
195C LEU* 3.1 21.2 + - + +
197C MET* 1.3 77.2 - - + +
199C LEU* 1.3 59.3 + - + +
201C ASN* 3.5 6.4 + - - +
202C LEU* 3.0 27.8 + - - +
254C PHE* 6.0 0.4 - - + -
392C ASP* 2.5 31.2 + - - +
393C VAL* 4.9 1.2 - - - +
394C LYS* 6.3 0.2 - - - +
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Residues in contact with LEU 199 (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 LEU* 2.8 45.4 + - + +
196C LEU* 3.7 3.8 - - - +
198C LYS* 1.3 70.8 - - - +
200C GLN* 1.3 59.8 + - - +
202C LEU* 3.3 9.6 + - + +
203C CYS* 2.9 36.2 + - - -
220C ILE* 4.5 12.8 - - + +
223C ALA* 3.8 32.8 - - + +
227C LEU* 5.1 6.7 - - + -
253C ALA* 4.1 17.7 - - + +
254C PHE* 3.4 41.5 - - + -
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Residues in contact with GLN 200 (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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196C LEU* 2.8 43.1 + - + +
197C MET* 3.8 15.3 - - - +
199C LEU* 1.3 71.4 - - - +
201C ASN* 1.3 63.4 + - - +
203C CYS* 3.3 2.9 + - - +
204C THR* 3.1 27.2 + - - -
216C LEU* 4.0 24.8 - - + +
217C PRO* 2.9 39.5 + - + +
517C VAL* 3.1 47.0 + - - +
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Residues in contact with ASN 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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197C MET 3.2 14.7 + - - +
198C LYS* 3.6 7.2 - - - +
200C GLN* 1.3 80.6 - - - +
202C LEU* 1.3 61.0 + - - +
204C THR* 3.5 8.9 + - - +
205C ARG* 3.1 45.9 + - - +
434C ARG* 4.4 23.9 + - - +
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Residues in contact with LEU 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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183C HIS* 4.8 7.2 - - + -
185C VAL* 3.8 34.1 - - + -
198C LYS 3.0 17.1 + - - +
199C LEU* 3.6 9.0 - - + +
200C GLN 3.3 0.2 - - - -
201C ASN* 1.3 74.4 + - - +
203C CYS* 1.3 67.4 + - - +
205C ARG* 3.2 25.9 + - + +
206C LEU* 2.9 52.3 + - + +
227C LEU* 4.2 20.6 - - + -
240C LEU* 4.8 5.4 - - + -
254C PHE* 3.9 23.1 - - + -
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Residues in contact with CYS 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 LEU* 2.9 23.0 + - - +
200C GLN 3.3 4.5 + - - +
202C LEU* 1.3 76.0 - - - +
204C THR* 1.3 61.5 + - - +
206C LEU* 3.4 1.5 + - - -
207C ASP* 3.2 26.0 + - - +
216C LEU* 5.6 0.9 - - + -
217C PRO* 4.0 28.9 - - + -
223C ALA* 4.1 18.4 - - - -
226C ARG* 4.2 18.2 - - + +
227C LEU* 4.4 12.6 - - - -
230C LEU* 3.7 17.5 - - + +
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Residues in contact with THR 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 GLN 3.1 7.2 + - - -
201C ASN* 3.7 12.1 - - - +
203C CYS* 1.3 74.7 - - - +
205C ARG* 1.3 65.9 + - + +
206C LEU 3.3 0.3 + - - -
207C ASP* 3.4 20.7 + - - +
208C GLN* 3.7 8.3 + - + +
216C LEU* 3.2 28.5 - - - +
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Residues in contact with ARG 205 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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116C GLU 5.6 2.2 + - - -
117C GLY 3.4 21.2 + - - -
118C GLY* 4.6 4.8 - - - -
183C HIS* 4.8 16.3 + - + +
184C TRP 2.9 32.9 + - - +
185C VAL* 4.1 10.7 - - - +
186C SER 5.2 0.4 - - - +
201C ASN* 3.1 36.7 + - - +
202C LEU* 3.2 30.7 + - + +
204C THR* 1.3 78.1 - - + +
206C LEU* 1.3 63.6 + - + +
207C ASP 3.4 0.9 + - - -
208C GLN* 3.4 34.9 + - - +
235C HIS* 5.5 0.9 - - - -
434C ARG* 6.1 2.2 - - - +
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Residues in contact with LEU 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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183C HIS* 3.6 46.7 - - + +
202C LEU* 2.9 31.0 + - + +
203C CYS 4.0 3.4 - - - +
204C THR 3.2 0.2 - - - -
205C ARG* 1.3 76.4 - - - +
207C ASP* 1.3 58.1 + - - +
208C GLN 3.8 1.1 - - - -
227C LEU* 3.4 33.2 - - + -
230C LEU* 4.0 18.6 - - + +
231C MET* 3.7 16.4 - - - -
234C LYS* 3.5 13.0 - - - +
235C HIS* 2.7 37.9 + - + +
240C LEU* 5.1 0.7 - - + -
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Residues in contact with ASP 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 CYS 3.2 14.4 + - - +
204C THR* 3.5 8.4 - - - +
205C ARG 3.3 0.2 - - - -
206C LEU* 1.3 79.3 - - - +
208C GLN* 1.3 63.4 + - - +
210C GLU* 3.3 12.6 + - - +
211C SER* 2.9 18.7 + - - -
212C PHE* 3.1 42.9 + - - +
213C SER 3.9 6.9 - - - +
226C ARG* 5.8 1.4 - - - -
230C LEU* 3.8 14.9 - - + +
234C LYS* 2.7 26.7 + - - +
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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