Contacts of the helix formed by residues 171 - 197 (chain K) in PDB entry 6AH0
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 PRO 171 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170K GLY* 1.3 73.3 - - - +
172K ASN* 1.3 65.4 + - - +
173K SER 3.2 2.9 - - - +
174K LEU* 3.2 14.0 + - - +
175K LYS* 3.2 8.8 + - - -
358K ILE 5.7 0.5 - - - +
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Residues in contact with ASN 172 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170K GLY 3.7 1.4 - - - -
171K PRO* 1.3 72.9 - - - +
173K SER* 1.3 55.0 + - - +
175K LYS* 2.8 22.1 + - - +
176K VAL* 3.0 9.9 + - - -
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Residues in contact with SER 173 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171K PRO* 3.2 1.6 - - - +
172K ASN* 1.3 75.0 - - - +
174K LEU* 1.3 61.4 + - - +
176K VAL* 3.1 14.5 + - - +
177K ALA 3.6 3.1 + - - -
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Residues in contact with LEU 174 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171K PRO* 3.2 9.1 + - - +
173K SER* 1.3 72.1 - - - +
175K LYS* 1.3 57.4 + - - +
177K ALA* 2.7 25.6 + - - +
178K ARG 3.2 7.8 + - - -
358K ILE* 4.6 22.0 - - - +
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Residues in contact with LYS 175 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171K PRO 3.2 8.1 + - - -
172K ASN* 2.8 13.0 + - - +
174K LEU* 1.3 76.9 - - - +
176K VAL* 1.3 60.7 + - - +
178K ARG* 3.2 11.2 + - - +
179K LEU* 3.5 6.6 + - - -
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Residues in contact with VAL 176 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172K ASN 3.0 10.2 + - - -
173K SER* 3.1 6.7 + - - +
174K LEU 3.1 0.8 - - - -
175K LYS* 1.3 76.3 - - - +
177K ALA* 1.3 61.6 - - - +
179K LEU* 3.1 12.0 + - - -
180K TRP* 3.3 8.0 + - - -
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Residues in contact with ALA 177 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173K SER 3.6 4.0 + - - -
174K LEU* 2.7 17.8 + - - +
176K VAL* 1.3 69.3 - - - +
178K ARG* 1.3 54.8 + - - +
180K TRP* 2.6 25.8 + - - +
181K ILE* 2.8 10.6 + - - -
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Residues in contact with ARG 178 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174K LEU 3.2 6.8 + - - -
175K LYS* 3.2 9.7 + - - +
177K ALA* 1.3 74.9 - - - +
179K LEU* 1.3 56.5 + - - +
181K ILE* 3.2 3.4 + - - +
182K ALA* 2.9 26.0 + - - -
394K LEU 5.8 0.9 - - - -
395K ARG* 5.0 20.7 - - - +
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Residues in contact with LEU 179 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175K LYS 3.5 6.6 + - - -
176K VAL 3.1 9.3 + - - -
177K ALA 3.0 0.8 - - - -
178K ARG* 1.3 76.1 - - - +
180K TRP* 1.3 54.7 + - - +
182K ALA* 3.2 2.9 + - - +
183K ASN* 2.9 26.2 + - - -
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Residues in contact with TRP 180 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176K VAL 3.3 7.0 + - - -
177K ALA* 2.6 15.1 + - - +
179K LEU* 1.3 71.6 - - - +
181K ILE* 1.3 55.3 + - - +
183K ASN* 3.2 2.4 + - - +
184K TYR* 2.9 27.2 + - - -
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Residues in contact with ILE 181 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177K ALA 2.8 11.3 + - - -
178K ARG* 3.2 4.7 + - - +
180K TRP* 1.3 75.3 - - - +
182K ALA* 1.3 52.5 + - - +
184K TYR* 3.2 0.8 + - - +
185K SER* 2.3 40.0 + - - -
377K GLY 5.3 6.0 - - - +
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Residues in contact with ALA 182 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178K ARG 2.9 14.3 + - - -
179K LEU* 3.2 4.7 + - - +
181K ILE* 1.3 75.5 - - - +
183K ASN* 1.3 56.7 + - - +
185K SER* 4.9 0.2 - - - +
186K LEU* 2.8 29.1 + - - +
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Residues in contact with ASN 183 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179K LEU 2.9 14.1 + - - -
180K TRP* 3.2 3.3 + - - +
182K ALA* 1.3 77.3 - - - +
184K TYR* 1.3 60.3 + - - +
187K PRO* 3.4 16.1 - - - +
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Residues in contact with TYR 184 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180K TRP 2.9 13.6 + - - -
181K ILE* 3.6 2.5 - - - +
183K ASN* 1.3 74.4 - - - +
185K SER* 1.3 65.1 + - - +
187K PRO* 3.7 0.9 - - - +
188K ARG* 3.3 16.5 + - - -
376K ASP 4.8 1.2 - - - +
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Residues in contact with SER 185 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181K ILE 2.3 28.2 + - - -
182K ALA* 4.0 0.7 - - - +
184K TYR* 1.3 69.9 - - - +
186K LEU* 1.3 62.5 + - - +
188K ARG* 3.1 14.0 + - - -
189K ALA 3.8 4.0 + - - -
376K ASP* 3.8 21.9 - - - +
377K GLY 5.1 6.3 - - - -
378K SER* 5.3 3.8 - - - +
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Residues in contact with LEU 186 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182K ALA* 2.8 17.4 + - - +
183K ASN 4.4 0.2 - - - -
185K SER* 1.3 78.4 - - - +
187K PRO* 1.3 62.6 - - - +
188K ARG 3.3 0.5 + - - -
189K ALA* 3.6 9.2 + - - -
190K MET 4.6 1.7 + - - -
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Residues in contact with PRO 187 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183K ASN 3.4 16.0 - - - +
184K TYR 4.1 1.3 - - - +
185K SER 3.3 0.6 - - - -
186K LEU* 1.3 75.6 - - - +
188K ARG* 1.3 61.5 + - - +
189K ALA 3.2 0.9 + - - -
190K MET* 3.7 8.8 + - - -
191K LYS 4.2 3.8 + - - -
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Residues in contact with ARG 188 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184K TYR 3.3 10.7 + - - -
185K SER 3.1 10.5 + - - -
187K PRO* 1.3 76.6 - - - +
189K ALA* 1.3 62.8 + - - +
191K LYS* 3.2 6.1 + - - +
192K ARG* 3.0 17.7 + - - -
376K ASP* 5.4 11.7 - - - +
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Residues in contact with ALA 189 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185K SER 3.8 5.3 + - - -
186K LEU 3.6 7.5 + - - -
187K PRO 3.2 1.4 + - - -
188K ARG* 1.3 73.2 - - - +
190K MET* 1.3 65.2 + - - +
192K ARG* 3.2 3.0 + - - +
193K LEU* 2.9 19.2 + - - -
376K ASP* 5.9 1.0 - - - +
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Residues in contact with MET 190 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186K LEU 4.6 2.0 + - - -
187K PRO 3.7 6.2 + - - -
188K ARG 3.4 0.8 - - - -
189K ALA* 1.3 75.5 - - - +
191K LYS* 1.3 56.6 + - - +
193K LEU* 3.2 3.0 + - - +
194K GLU* 3.0 24.8 + - - -
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Residues in contact with LYS 191 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187K PRO 4.2 3.6 + - - -
188K ARG 3.2 8.1 + - - -
190K MET* 1.3 75.2 - - - +
192K ARG* 1.3 63.3 + - - +
194K GLU* 3.2 3.1 + - - +
195K GLU* 2.9 19.9 + - - -
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Residues in contact with ARG 192 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188K ARG 3.0 13.5 + - - -
189K ALA* 3.2 5.8 + - - +
191K LYS* 1.3 76.1 - - - +
193K LEU* 1.3 54.9 + - - +
195K GLU* 3.2 3.5 + - - +
196K ALA* 2.9 24.3 + - - -
418K ASN 5.7 5.4 - - - -
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Residues in contact with LEU 193 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189K ALA 2.9 14.4 + - - -
190K MET* 3.2 4.0 + - - +
192K ARG* 1.3 72.2 - - - +
194K GLU* 1.3 65.5 + - - +
196K ALA* 3.1 3.6 + - - +
197K ARG* 3.0 20.6 + - - +
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Residues in contact with GLU 194 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190K MET 3.0 14.0 + - - -
191K LYS* 3.2 4.6 + - - +
193K LEU* 1.3 75.2 - - - +
195K GLU* 1.3 62.3 + - - +
197K ARG* 3.2 13.9 + - - +
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Residues in contact with GLU 195 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191K LYS 2.9 14.0 + - - -
192K ARG* 3.2 4.9 + - - +
194K GLU* 1.3 77.7 - - - +
196K ALA* 1.3 61.1 + - - +
197K ARG* 4.4 0.3 - - - -
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Residues in contact with ALA 196 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192K ARG 2.9 13.8 + - - -
193K LEU* 3.1 6.0 + - - +
195K GLU* 1.3 77.8 - - - +
197K ARG* 1.3 64.2 + - - +
198K LEU* 3.6 1.7 + - - -
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Residues in contact with ARG 197 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193K LEU 3.0 13.8 + - - +
194K GLU* 3.2 11.4 + - - +
195K GLU 4.4 0.9 - - - -
196K ALA* 1.3 76.9 - - - +
198K LEU* 1.3 57.4 + - - +
199K HIS 3.7 2.9 - - - +
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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
------------------------------------------------------------
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