Contacts of the strand formed by residues 189 - 200 (chain C) in PDB entry 6NQN
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 189 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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71C TYR* 2.8 41.5 + + - -
75C ILE* 3.8 22.0 - - + +
145C LYS* 3.7 2.3 - - - -
146C LEU* 2.9 53.9 + - + +
153C LEU* 4.6 5.4 - - + -
186C PRO* 4.0 24.5 - - + -
187C ASP 2.8 21.8 + - - +
188C TYR* 1.3 78.8 - - - +
190C PHE* 1.3 98.2 + - - +
191C VAL* 4.4 0.2 - - + -
215C ALA* 4.4 1.1 - - + -
216C HIS 3.6 9.2 - - - +
217C SER* 4.9 2.7 - - - +
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Residues in contact with PHE 190 (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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143C THR* 3.9 10.1 - - + -
144C GLU 3.1 8.1 - - - +
145C LYS* 3.4 39.3 - - + -
146C LEU* 4.0 1.8 - - - -
188C TYR* 3.8 13.7 - + - -
189C HIS* 1.3 83.5 - - - +
191C VAL* 1.3 65.8 + - - +
215C ALA* 3.1 7.6 - - - +
216C HIS* 2.9 57.7 + + + +
217C SER* 3.5 9.0 - - - -
218C GLY* 3.4 27.6 - - - -
141E PRO* 3.0 42.8 - - + -
142E SER* 4.3 7.9 - - - -
143E THR* 4.8 1.3 - - - -
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Residues in contact with VAL 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C ARG* 4.0 13.7 - - - -
69C ALA* 4.5 2.7 - - + -
71C TYR* 3.9 22.0 - - + +
144C GLU* 2.9 33.4 + - - +
146C LEU* 3.6 19.7 - - + +
189C HIS* 4.4 0.2 - - + -
190C PHE* 1.3 80.5 - - - +
192C ASP* 1.3 70.6 + - - +
193C HIS* 3.2 37.9 - - + +
213C ALA* 3.9 11.2 - - + -
214C GLU 3.4 9.0 - - - +
215C ALA* 4.0 9.9 - - + -
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Residues in contact with ASP 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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142C SER 3.3 5.4 - - - +
143C THR* 2.6 29.2 + - - +
191C VAL* 1.3 72.8 - - - +
193C HIS* 1.3 58.7 + - - +
213C ALA* 3.1 8.0 - - - +
214C GLU* 2.8 35.9 + - + +
216C HIS* 2.9 34.2 + - - -
216E HIS* 5.1 10.2 - - - -
218E GLY* 5.5 1.8 - - - -
219E LEU* 3.7 29.1 + - + +
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Residues in contact with HIS 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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63C KZ4 3.5 31.7 - + + -
66C ARG* 3.5 29.2 - - - -
141C PRO* 3.3 7.3 - - - +
142C SER* 2.7 51.0 + - - +
144C GLU* 2.8 29.8 + - + +
191C VAL* 3.2 39.7 + - + +
192C ASP* 1.3 73.6 - - - +
194C HIS* 1.3 62.6 + - - +
211C GLU* 3.0 21.6 + - - +
212C HIS 3.5 4.9 - - - +
213C ALA* 3.8 2.8 - - + +
219E LEU* 4.2 6.3 + - - +
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Residues in contact with HIS 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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63C KZ4 5.3 0.4 - - - -
138C LYS* 2.9 29.1 + - - -
139C TRP 4.4 1.1 - - - -
141C PRO* 3.8 27.0 - - + +
193C HIS* 1.3 75.3 - - - +
195C ILE* 1.3 71.5 + - - +
196C GLU* 3.8 24.9 + - + +
210C HIS 4.1 0.5 - - - +
211C GLU* 3.5 3.6 - - - -
212C HIS* 2.9 37.7 + - + +
219E LEU* 3.2 31.3 + - + +
220E PRO* 3.5 21.2 + - + -
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Residues in contact with ILE 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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58C THR* 3.3 42.6 - - - +
59C THR* 3.8 6.5 - - + +
63C KZ4 3.7 41.2 + - + +
138C LYS* 4.6 2.4 + - - +
139C TRP* 3.8 43.8 + - + +
140C GLU 5.4 0.8 + - - +
193C HIS 4.3 0.2 - - - -
194C HIS* 1.3 80.4 - - - +
196C GLU* 1.3 68.1 + - - +
209C LEU* 3.8 13.5 - - + -
210C HIS 3.5 12.3 - - - +
211C GLU* 4.1 5.8 - - + -
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Residues in contact with GLU 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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138C LYS* 4.5 14.2 - - - +
194C HIS* 3.8 37.1 + - + +
195C ILE* 1.3 81.5 - - - +
197C ILE* 1.3 67.0 + - - +
198C LYS* 3.4 19.8 + - + +
209C LEU* 3.5 5.5 - - - +
210C HIS* 2.9 39.6 + - + +
220E PRO 4.8 4.7 - - - +
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Residues in contact with ILE 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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54C TYR* 4.1 12.6 - - + -
55C ASP* 3.8 22.4 - - - +
58C THR* 4.0 15.3 - - + -
138C LYS* 6.1 2.0 - - - +
196C GLU* 1.3 73.7 - - - +
198C LYS* 1.3 65.6 + - - +
199C SER* 3.5 24.9 - - - +
200C HIS* 4.1 15.3 - - + -
204C TYR* 4.1 20.0 - - + -
207C VAL* 4.0 10.3 - - + -
208C ASN 3.6 5.4 - - - +
209C LEU* 3.8 17.5 - - + -
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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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196C GLU* 3.4 21.9 + - + +
197C ILE* 1.3 79.1 - - - +
199C SER* 1.3 60.9 + - - -
208C ASN* 2.7 29.5 + - - +
210C HIS* 3.0 44.2 + - + +
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Residues in contact with SER 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ILE* 3.5 7.2 - - - +
198C LYS* 1.3 80.8 - - - +
200C HIS* 1.3 68.6 + - - +
208C ASN* 2.8 45.3 + - - +
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Residues in contact with HIS 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ILE* 4.1 11.2 - - + -
199C SER* 1.3 82.0 + - - +
201C ASP* 1.3 81.6 + - - +
202C LYS* 4.8 4.3 - - - -
204C TYR* 3.3 55.8 + + + -
206C ASN 3.2 15.5 - - - +
207C VAL* 4.0 3.4 - - + -
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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