Contacts of the helix formed by residues 211 - 231 (chain C) in PDB entry 1SL0
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 LEU 211 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190C HIS* 3.6 27.1 - - + +
191C TYR* 3.1 43.2 + - + +
193C PRO* 5.1 1.4 - - - +
207C TRP 5.0 0.7 - - - +
210C SER* 1.3 76.2 + - - +
212C GLU* 1.3 75.2 + - + +
213C ALA* 3.0 9.5 + - + +
214C VAL* 3.0 20.0 + - + +
215C ASP 4.0 1.7 + - - -
597C ASP 4.0 11.4 - - - +
598C GLY* 3.6 31.9 - - - +
599C ARG* 3.9 2.0 - - - +
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Residues in contact with GLU 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C TRP 5.9 0.4 - - - -
210C SER 3.4 4.0 + - - -
211C LEU* 1.3 77.3 - - + +
213C ALA* 1.3 60.8 + - - +
215C ASP* 3.1 10.3 + - + +
216C ILE* 3.0 24.1 + - + +
596C LEU 4.1 0.7 - - - +
597C ASP* 3.2 29.9 - - + +
624C LEU* 5.4 2.4 - - - +
683C HIS* 2.9 30.9 + - - -
684C TRP* 3.0 30.2 + - + -
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Residues in contact with ALA 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 3.7 29.6 - - + -
211C LEU* 3.0 8.9 + - + +
212C GLU* 1.3 76.7 - - - +
214C VAL* 1.3 58.6 + - + +
215C ASP 3.0 0.2 + - - -
216C ILE* 4.4 4.3 - - - +
217C GLU* 2.8 36.2 + - - +
597C ASP* 3.1 33.5 + - - +
599C ARG* 4.0 10.3 - - + +
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Residues in contact with VAL 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C LEU* 6.1 3.4 - - + -
97C LEU* 3.8 20.4 - - + -
98C ILE* 6.1 0.4 - - + -
191C TYR* 4.3 15.7 - - + +
192C PHE* 3.8 30.1 - - + -
206C PHE* 3.9 16.8 - - + -
207C TRP* 3.4 22.6 - - + -
210C SER* 4.7 5.2 - - - +
211C LEU* 3.0 14.3 + - + +
213C ALA* 1.3 77.2 - - - +
215C ASP* 1.3 60.0 + - - +
217C GLU* 4.7 0.2 - - - -
218C HIS* 2.9 40.1 + - + +
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Residues in contact with ASP 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C ARG* 2.5 31.6 + - - +
207C TRP* 4.2 31.1 + - + +
211C LEU 4.0 1.2 + - - +
212C GLU* 3.1 12.3 + - + +
213C ALA 3.0 0.6 - - - -
214C VAL* 1.3 76.6 - - - +
216C ILE* 1.3 65.3 + - - +
217C GLU 3.2 1.7 + - - -
218C HIS* 3.4 1.4 + - - +
219C ARG* 2.6 59.6 + - - +
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Residues in contact with ILE 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212C GLU* 3.0 21.7 + - + +
213C ALA* 3.9 7.0 - - - +
215C ASP* 1.3 76.7 - - - +
217C GLU* 1.3 64.1 + - - +
219C ARG* 4.2 9.2 - - - +
220C ALA* 3.3 6.6 + - - +
597C ASP* 5.2 7.4 - - + +
599C ARG* 5.7 0.7 - - - +
623C LYS* 5.5 4.5 - - + +
624C LEU* 4.3 23.6 - - + +
627C ILE* 3.2 24.9 - - + +
684C TRP* 5.7 1.8 - - + -
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Residues in contact with GLU 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C VAL* 3.9 19.3 - - + +
96C ARG* 6.1 0.2 - - - +
97C LEU* 3.7 26.6 - - + +
213C ALA 2.8 28.7 + - - +
214C VAL 4.3 2.2 - - - +
216C ILE* 1.3 73.8 - - - +
218C HIS* 1.3 56.3 + - - +
220C ALA* 3.1 7.0 + - - +
221C ALA* 2.6 36.6 + - - +
422C PRO* 4.3 10.8 - - - +
423C ASN* 2.5 23.1 - - - +
428C GLY* 5.9 0.2 - - - -
599C ARG* 2.7 36.6 + - - +
620C LEU* 5.1 1.2 - - - +
623C LYS* 5.8 3.8 - - - +
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Residues in contact with HIS 218 (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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62C HIS* 3.3 16.2 + + - +
85C ARG* 4.8 6.5 - - + +
88C CYS 3.4 22.9 - - - -
89C ILE* 3.4 10.1 - - + +
90C ASP* 3.1 33.0 + - + -
93C VAL* 3.8 17.6 - - + +
94C LEU* 4.7 10.5 - - + -
206C PHE* 5.6 0.9 - + - -
207C TRP* 3.4 22.0 - + + -
214C VAL* 2.9 35.5 + - + +
215C ASP 3.4 3.5 + - - +
217C GLU* 1.3 77.2 - - - +
219C ARG* 1.3 55.5 + - - +
221C ALA* 3.1 6.0 + - - -
222C TRP* 2.8 36.3 + - - +
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Residues in contact with ARG 219 (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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85C ARG* 3.5 38.3 - - - +
215C ASP* 2.6 54.0 + - - +
216C ILE* 4.2 4.9 - - - +
218C HIS* 1.3 75.5 - - - +
220C ALA* 1.3 57.2 + - - +
222C TRP* 3.4 7.3 + - - +
223C LEU* 2.9 27.5 + - - +
624C LEU* 6.0 2.2 - - - -
627C ILE* 3.6 34.6 - - + +
631C GLU* 6.1 2.6 - - - +
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Residues in contact with ALA 220 (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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216C ILE 3.3 13.7 + - - +
217C GLU* 3.1 12.3 + - - +
219C ARG* 1.3 75.5 - - - +
221C ALA* 1.3 65.3 + - - +
222C TRP 2.9 4.0 - - - -
223C LEU* 2.8 16.4 + - - -
224C LEU* 2.9 25.7 + - + +
422C PRO* 4.7 11.2 - - + +
623C LYS* 5.2 11.4 - - + -
626C ILE* 5.9 2.7 - - + -
627C ILE* 3.4 15.0 - - + +
651C TRP* 6.3 0.9 - - + -
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Residues in contact with ALA 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C HIS* 3.5 12.1 - - + +
93C VAL* 3.2 35.9 - - + -
217C GLU 2.6 18.8 + - - +
218C HIS* 3.5 5.4 - - - +
220C ALA* 1.3 72.9 - - - +
222C TRP* 1.3 56.2 + - - +
224C LEU* 4.9 1.5 - - - +
225C ALA* 3.1 25.2 + - - +
422C PRO* 4.2 21.4 - - + +
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Residues in contact with TRP 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C HIS* 3.2 47.3 - + - +
66C VAL* 4.0 21.5 - - + -
83C LEU 3.4 21.8 - - - -
84C PRO* 4.6 0.2 - - + -
85C ARG* 3.4 47.3 - - + +
88C CYS* 3.7 24.5 - - + -
218C HIS 2.8 17.1 + - - +
219C ARG 3.4 6.1 - - - +
221C ALA* 1.3 77.8 - - - +
223C LEU* 1.3 68.0 + - - +
225C ALA* 3.5 6.7 - - - +
226C LYS* 3.4 16.1 + - + +
229C ARG* 4.7 3.6 + - - -
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Residues in contact with LEU 223 (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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219C ARG 2.9 16.6 + - - +
220C ALA* 2.8 10.4 + - - +
222C TRP* 1.3 71.5 - - - +
224C LEU* 1.3 59.4 + - - +
225C ALA 2.9 1.3 - - - -
226C LYS* 2.5 37.1 + - + +
227C GLN 2.9 4.2 + - - -
626C ILE* 3.3 46.4 - - + +
627C ILE* 4.4 9.0 - - + -
630C GLU* 4.0 30.7 - - - +
640C HIS* 4.2 7.4 - - + -
648C TYR* 3.3 35.9 - - + -
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Residues in contact with LEU 224 (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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220C ALA* 2.9 22.4 + - + +
221C ALA* 4.9 1.6 - - - +
223C LEU* 1.3 76.3 - - + +
225C ALA* 1.3 56.8 + - - +
227C GLN* 3.4 28.8 - - - +
228C GLU* 2.7 38.0 + - - +
420C VAL* 4.4 17.3 - - + +
422C PRO* 3.6 31.9 - - + -
626C ILE* 3.9 20.0 - - + -
651C TRP* 3.3 44.9 - - + -
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Residues in contact with ALA 225 (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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62C HIS 3.9 20.2 - - - +
63C LYS* 4.5 17.0 - - + +
221C ALA 3.1 22.2 + - - +
222C TRP 3.5 7.1 + - - +
223C LEU 2.9 1.0 + - - -
224C LEU* 1.3 79.2 - - - +
226C LYS* 1.3 58.6 + - - +
228C GLU* 3.8 13.0 - - - +
229C ARG* 3.1 35.5 + - - +
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Residues in contact with LYS 226 (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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222C TRP* 3.4 8.2 + - + +
223C LEU* 2.5 26.6 + - + +
225C ALA* 1.3 72.6 - - - +
227C GLN* 1.3 63.7 + - - +
228C GLU 3.2 0.2 - - - -
229C ARG* 3.2 22.8 + - + +
230C ASN* 2.9 34.2 + - - +
630C GLU* 5.3 2.9 - - - +
640C HIS* 2.7 61.1 + - + +
641C GLY* 3.6 6.1 - - - +
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Residues in contact with GLN 227 (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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223C LEU 2.9 5.3 + - - +
224C LEU* 3.4 29.9 + - - +
226C LYS* 1.3 75.7 - - - +
228C GLU* 1.3 65.2 + - - +
230C ASN* 2.8 17.7 + - - +
231C GLY* 3.1 10.7 + - - +
420C VAL* 3.9 22.2 - - - +
648C TYR* 3.6 50.7 - - + +
649C MET 3.9 8.6 + - - +
650C ALA* 3.5 26.8 + - - +
651C TRP* 3.7 19.5 + - - +
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Residues in contact with GLU 228 (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 LYS* 2.8 46.4 + - - +
224C LEU* 2.7 27.4 + - - +
225C ALA* 3.8 9.5 - - - +
227C GLN* 1.3 76.1 - - - +
229C ARG* 1.3 53.0 + - + +
231C GLY* 3.4 2.8 + - - -
417C HIS* 2.7 41.0 - - + +
418C GLY 4.0 10.8 - - - +
419C SER* 3.9 5.5 - - - -
420C VAL* 2.8 46.0 + - + +
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Residues in contact with ARG 229 (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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12C LEU* 3.6 27.6 - - + +
62C HIS 4.5 2.8 + - - -
63C LYS* 5.3 2.2 + - - +
67C PRO* 3.5 30.9 - - - +
222C TRP* 4.7 2.8 + - - -
225C ALA* 3.1 39.0 + - - +
226C LYS* 3.2 26.1 + - + +
227C GLN 3.2 0.6 - - - -
228C GLU* 1.3 78.1 - - + +
230C ASN* 1.3 67.7 + - - +
417C HIS* 3.5 11.9 + - - -
642C TRP* 5.3 0.7 - - - -
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Residues in contact with ASN 230 (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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226C LYS* 2.9 26.9 + - - +
227C GLN* 2.8 11.3 + - - +
229C ARG* 1.3 81.7 - - - +
231C GLY* 1.3 61.9 + - - +
415C LYS* 3.3 9.7 - - - +
417C HIS* 3.4 3.1 + - - -
640C HIS* 3.0 27.3 + - - -
641C GLY* 4.1 18.0 - - - -
642C TRP* 3.0 33.8 + - + +
647C ALA* 3.9 8.1 - - + +
648C TYR 2.8 27.8 + - - +
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Residues in contact with GLY 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227C GLN 3.1 6.8 + - - -
228C GLU 3.4 2.6 + - - -
230C ASN* 1.3 82.9 - - - +
232C PHE* 1.3 60.1 + - - -
233C PRO* 4.1 4.1 - - - +
415C LYS* 4.0 5.8 - - - -
416C ILE 4.0 6.1 - - - -
417C HIS* 3.5 21.1 - - - -
642C TRP* 4.2 1.2 - - - -
649C MET* 3.6 27.9 - - - +
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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