Contacts of the helix formed by residues 2191 - 2207 (chain C) in PDB entry 1KY5
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 LEU2191 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2186C SER 3.5 5.3 + - - +
2187C LYS* 3.9 26.2 - - + +
2188C PHE 4.0 0.4 + - - -
2189C ASP 3.4 0.2 - - - -
2190C ASN* 1.3 78.4 - - - +
2192C TYR* 1.3 84.1 + - + +
2195C ARG* 3.2 18.5 + - + +
2222C ASP* 3.5 21.3 - - + +
2225C LYS* 3.9 15.5 - - + +
2226C GLY* 3.2 37.1 - - - +
2229C GLN* 5.1 7.6 - - - +
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Residues in contact with TYR2192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A MET* 4.0 19.4 - - + +
2187C LYS 3.3 25.0 + - - -
2188C PHE* 3.0 37.9 + + - +
2191C LEU* 1.3 87.5 - - + +
2193C GLY* 1.3 66.6 + - - +
2195C ARG* 3.2 46.7 + - - +
2196C GLU* 3.4 16.8 + - - +
3250D GLN* 4.0 22.4 + - + +
3253D MET* 3.8 30.3 - - + -
3254D GLU* 3.1 31.1 + - - +
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Residues in contact with GLY2193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A MET* 4.8 0.2 - - - -
2188C PHE 3.0 12.0 + - - -
2189C ASP 3.1 11.7 + - - -
2192C TYR* 1.3 75.3 - - - +
2194C CYS* 1.3 49.2 + - - +
2196C GLU* 3.3 3.8 + - - +
2197C SER* 2.8 37.9 + - - -
2352C HIS* 3.3 22.8 - - - -
2353C PRO* 4.3 5.3 - - - +
2356C VAL* 4.2 11.4 - - - +
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Residues in contact with CYS2194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2189C ASP 3.7 1.6 + - - -
2190C ASN 3.4 22.2 - - - +
2191C LEU 3.7 1.5 + - - +
2192C TYR 3.3 0.4 - - - -
2193C GLY* 1.3 71.0 - - - +
2195C ARG* 1.3 66.3 + - - +
2196C GLU 2.9 3.3 + - - -
2197C SER* 3.6 5.8 - - - -
2198C LEU* 3.1 29.7 + - - +
2223C VAL* 3.8 29.6 - - - +
2226C GLY 4.5 2.1 - - - +
2227C CYS* 4.1 15.4 - - - +
2230C ALA* 4.8 0.2 - - - +
2298C ILE* 3.9 17.9 - - + -
2352C HIS* 3.3 19.2 - - - -
2432C NAI 4.2 7.6 - - - -
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Residues in contact with ARG2195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A ALA* 4.0 3.4 - - - +
233A GLY 4.6 6.3 + - - +
234A PHE* 3.0 53.1 + - + -
235A GLY* 4.2 0.2 - - - -
2191C LEU* 3.2 14.9 + - - +
2192C TYR* 3.2 44.6 + - - +
2194C CYS* 1.3 78.5 - - - +
2196C GLU* 1.3 60.2 + - + +
2198C LEU 4.9 0.2 - - - -
2199C ILE* 4.5 2.4 - - - +
2226C GLY* 3.3 23.3 + - - +
2229C GLN* 2.7 47.4 + - - -
2230C ALA* 3.2 22.2 - - + +
3253D MET 3.0 27.1 + - - -
3254D GLU* 3.5 16.5 + - - -
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Residues in contact with GLU2196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LYS* 2.5 43.0 + - - +
209A MET* 3.8 12.5 - - + -
210A ILE* 3.0 21.2 + - - +
211A ALA* 2.8 36.6 + - + +
234A PHE* 3.5 32.9 - - + +
2192C TYR 3.6 12.3 - - - +
2193C GLY 3.3 5.9 + - - +
2194C CYS 2.9 0.2 - - - -
2195C ARG* 1.3 83.6 - - + +
2197C SER* 1.3 62.0 + - - +
2198C LEU 3.5 1.4 + - - -
2199C ILE* 4.2 4.3 + - - +
2200C ASP* 3.7 17.2 + - - +
2353C PRO* 3.9 5.2 - - + +
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Residues in contact with SER2197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LYS* 5.5 0.7 - - - +
2193C GLY 2.8 27.2 + - - -
2194C CYS* 3.6 1.9 - - - -
2196C GLU* 1.3 73.4 - - - +
2198C LEU* 1.3 66.1 + - - +
2200C ASP* 3.6 9.3 - - - +
2201C GLY 3.3 10.2 + - - -
2345C ASN* 3.1 24.6 + - - +
2351C GLY* 3.3 33.0 - - - -
2352C HIS* 2.8 20.8 + - - -
2353C PRO* 4.8 1.8 - - - -
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Residues in contact with LEU2198 (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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2194C CYS 3.1 19.8 + - - +
2197C SER* 1.3 78.5 + - - +
2199C ILE* 1.3 63.9 + - + +
2201C GLY* 2.7 24.1 + - - -
2202C ILE* 3.1 22.9 + - + +
2227C CYS* 3.6 32.5 - - + +
2231C LEU* 4.2 25.1 - - + -
2272C VAL* 3.8 25.4 - - + -
2296C CYS* 4.4 0.2 - - - -
2298C ILE* 3.9 19.3 - - + -
2344C VAL* 3.8 25.9 - - + +
2345C ASN* 4.3 1.3 - - - -
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Residues in contact with ILE2199 (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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234A PHE* 5.5 3.1 - - + -
2195C ARG 4.5 6.3 - - - +
2196C GLU 4.2 4.0 + - - +
2197C SER 3.5 0.2 - - - -
2198C LEU* 1.3 75.3 - - + +
2200C ASP* 1.3 58.1 + - - +
2202C ILE* 3.7 6.7 - - + +
2203C LYS* 2.7 56.3 + - + +
2210C ILE* 4.1 15.0 - - + -
2230C ALA* 3.9 19.1 - - + -
2231C LEU* 3.3 50.3 - - + +
2234C PHE* 4.0 28.7 - - + -
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Residues in contact with ASP2200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A ASP* 4.4 7.5 - - - +
203A LYS* 4.0 25.9 + - - +
204A ARG* 4.6 0.2 - - - +
207A ASP* 4.1 4.2 - - - +
2196C GLU 3.7 14.4 + - - +
2197C SER* 3.5 13.7 + - - +
2198C LEU 3.1 0.4 - - - -
2199C ILE* 1.3 77.1 - - - +
2201C GLY* 1.3 61.5 + - - +
2203C LYS* 4.7 2.5 - - - -
2204C ARG* 2.7 77.4 + - - +
2349C ALA* 3.6 10.2 - - + +
2350C MET 4.6 2.1 + - - -
2351C GLY 5.0 5.0 - - - +
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Residues in contact with GLY2201 (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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2197C SER 3.3 4.1 + - - -
2198C LEU 2.7 9.8 + - - -
2200C ASP* 1.3 79.0 - - - +
2202C ILE* 1.3 64.3 + - - +
2204C ARG* 4.3 0.2 - - - -
2205C ALA* 3.4 17.0 + - - +
2344C VAL* 3.8 20.4 - - - -
2348C CYS* 3.4 16.3 - - - +
2349C ALA* 3.5 16.8 - - - +
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Residues in contact with ILE2202 (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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2198C LEU* 3.1 27.2 + - + +
2199C ILE* 3.8 9.9 - - + +
2201C GLY* 1.3 76.0 - - - +
2203C LYS* 1.3 52.7 + - - +
2205C ALA* 3.8 0.3 - - - -
2206C THR* 2.7 56.7 + - + +
2208C VAL* 3.6 18.6 - - + -
2210C ILE* 4.5 7.0 - - + -
2231C LEU* 4.5 12.1 - - + -
2270C ILE* 4.0 26.7 - - + -
2272C VAL* 4.4 1.8 - - + -
2294C ILE* 4.8 7.6 - - + -
2296C CYS* 4.1 24.7 - - - -
2338C LEU* 4.2 11.9 - - + -
2344C VAL* 4.2 1.5 - - + +
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Residues in contact with LYS2203 (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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196A GLU* 2.5 52.2 + - - +
197A SER* 5.6 0.6 - - - +
200A ASP* 4.2 25.5 - - - +
204A ARG* 3.8 2.7 - - - -
353A PRO* 3.6 10.1 - - - +
2199C ILE* 2.7 35.6 + - + +
2200C ASP* 4.2 2.9 - - - +
2202C ILE* 1.3 71.5 - - - +
2204C ARG* 1.3 64.5 + - - +
2206C THR* 4.3 0.9 - - - -
2207C ASP* 2.5 40.2 + - - +
2208C VAL 3.2 23.9 + - - +
2210C ILE* 3.7 17.0 - - + -
2234C PHE* 5.4 3.4 - - - -
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Residues in contact with ARG2204 (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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200A ASP* 4.5 0.4 - - - +
203A LYS 3.7 1.6 + - - -
204A ARG* 3.3 74.5 + - + +
207A ASP* 3.1 20.0 + - - -
2200C ASP* 2.7 56.7 + - - +
2203C LYS* 1.3 79.1 - - - +
2205C ALA* 1.3 57.0 + - - +
2207C ASP* 4.4 3.1 - - - +
2321C LYS* 2.8 19.1 + - - -
2348C CYS 3.7 20.4 - - - +
2349C ALA* 4.3 3.0 - - - +
2350C MET* 3.5 31.1 - - - +
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Residues in contact with ALA2205 (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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2201C GLY 3.4 16.7 + - - +
2202C ILE 3.9 0.9 - - - +
2203C LYS 3.1 0.2 - - - -
2204C ARG* 1.3 80.5 - - - +
2206C THR* 1.3 62.2 + - - +
2320C ILE* 5.8 0.9 - - - +
2321C LYS* 2.9 29.3 + - - +
2324C VAL* 3.6 28.1 - - + +
2338C LEU* 3.6 16.8 - - + -
2348C CYS* 4.0 13.0 + - + -
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Residues in contact with THR2206 (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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23A ILE* 5.6 7.3 - - - +
2202C ILE* 2.7 26.4 + - - +
2205C ALA* 1.3 75.8 - - - +
2207C ASP* 1.3 70.0 + - - +
2208C VAL* 2.9 30.7 + - - +
2294C ILE* 4.0 20.2 - - + -
2324C VAL* 5.5 0.7 - - + -
2336C ILE* 4.2 11.2 - - + -
2338C LEU* 3.9 30.3 - - + -
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Residues in contact with ASP2207 (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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58A GLU* 6.0 2.2 - - - +
200A ASP* 4.0 2.8 - - - +
204A ARG* 3.0 26.5 + - - -
350A MET* 3.4 33.2 - - - +
353A PRO* 3.6 20.1 - - + +
354A SER* 4.3 8.6 + - - +
2203C LYS* 2.5 27.3 + - - +
2204C ARG 4.4 6.9 - - - +
2206C THR* 1.3 76.0 + - - +
2208C VAL* 1.3 66.6 + - - +
2321C LYS* 4.8 5.2 + - - -
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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