Contacts of the helix formed by residues 266 - 286 (chain A) in PDB entry 6RZ5
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 266 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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259A PHE* 5.3 1.3 - - + -
264A THR* 4.0 13.9 - - + +
265A LYS* 1.4 88.2 - - - +
267A CYS* 1.3 60.8 + - - +
268A ASP* 4.4 9.0 - - + +
269A SER* 2.7 45.8 + - - +
270A VAL* 3.0 12.1 + - - +
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Residues in contact with CYS 267 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A CYS* 2.0 53.6 - - + -
15A HIS 5.7 0.2 - - - +
265A LYS 5.4 1.8 - - - -
266A PRO* 1.3 71.6 - - - +
268A ASP* 1.3 61.6 + - - +
270A VAL* 3.9 7.3 - - - +
271A LEU* 3.0 33.1 + - - +
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Residues in contact with ASP 268 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
266A PRO* 3.3 7.1 - - + +
267A CYS* 1.3 79.6 + - - +
269A SER* 1.4 57.0 + - - +
271A LEU* 4.4 5.1 - - - +
272A ARG* 4.0 17.2 + - - +
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Residues in contact with SER 269 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259A PHE* 3.1 28.3 - - - -
266A PRO* 2.7 40.4 + - - +
268A ASP* 1.4 77.8 - - - +
270A VAL* 1.4 57.8 + - - +
271A LEU 3.3 1.1 - - - -
272A ARG* 3.5 5.7 + - - +
273A MET* 3.0 32.7 + - - +
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Residues in contact with VAL 270 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A GLN* 4.8 13.2 - - + +
179A ASP* 5.4 7.6 - - + -
259A PHE* 3.8 21.5 - - + -
265A LYS* 4.1 22.9 - - + +
266A PRO 3.0 16.4 + - - +
267A CYS* 3.4 7.4 + - - +
269A SER* 1.4 81.2 + - - +
271A LEU* 1.4 55.5 + - - +
273A MET* 3.7 6.6 - - + +
274A GLN* 3.1 38.1 + - + +
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Residues in contact with LEU 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17A THR* 6.3 3.8 - - - -
18A ILE* 5.1 12.0 - - + +
267A CYS 3.0 18.6 + - - +
268A ASP* 4.7 4.9 - - - +
270A VAL* 1.4 75.0 - - - +
272A ARG* 1.4 57.6 + - - +
274A GLN* 3.2 6.2 + - - +
275A LYS* 2.9 29.3 + - - +
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Residues in contact with ARG 272 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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268A ASP 4.0 12.4 + - - +
269A SER* 3.5 8.7 + - - +
271A LEU* 1.4 77.1 - - - +
273A MET* 1.4 62.2 + - + +
275A LYS* 4.0 7.4 - - - +
276A SER* 3.2 27.0 + - - -
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Residues in contact with MET 273 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252A GLN* 3.9 21.8 + - - +
255A ILE* 3.8 26.7 - - + -
256A HIS* 4.6 15.0 - - + +
259A PHE* 3.9 44.9 - - + -
269A SER* 3.0 23.1 + - - +
270A VAL* 3.7 7.9 - - - +
271A LEU 3.2 0.2 - - - -
272A ARG* 1.4 79.1 - - + +
274A GLN* 1.3 59.5 + - + +
276A SER* 3.4 6.8 + - - -
277A VAL* 3.2 30.6 + - - +
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Residues in contact with GLN 274 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A ILE* 4.5 18.6 - - + -
21A PHE* 5.9 0.2 - - - -
22A ARG* 5.6 5.4 - - - -
176A PRO* 3.5 26.5 - - - +
178A GLN* 3.6 36.8 + - + +
256A HIS* 3.9 15.3 - - - -
270A VAL* 3.1 27.0 + - + +
271A LEU* 3.8 4.3 - - - +
273A MET* 1.3 77.4 - - + +
275A LYS* 1.3 62.8 + - - +
277A VAL* 3.4 8.9 + - - +
278A VAL* 3.4 26.4 + - - +
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Residues in contact with LYS 275 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A ILE* 5.4 1.5 - - + +
21A PHE* 3.7 30.7 - - + -
271A LEU 2.9 17.0 + - - +
272A ARG* 4.1 8.1 - - - +
274A GLN* 1.3 75.2 - - - +
276A SER* 1.4 56.3 + - - +
278A VAL* 3.3 5.2 + - - +
279A ILE* 3.1 36.9 + - + +
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Residues in contact with SER 276 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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252A GLN* 3.6 28.7 + - - -
272A ARG 3.2 18.2 + - - -
273A MET* 3.6 7.6 - - - +
274A GLN 3.3 0.6 - - - -
275A LYS* 1.4 76.1 - - - +
277A VAL* 1.4 54.5 + - - +
279A ILE* 3.9 7.7 - - - +
280A THR* 2.8 43.3 + - - +
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Residues in contact with VAL 277 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A TYR* 4.4 7.9 - - - +
176A PRO* 4.3 13.9 - - + -
252A GLN* 4.9 2.7 - - - +
256A HIS* 3.5 29.6 - - + +
273A MET 3.2 17.7 + - - +
274A GLN* 3.7 13.2 - - - +
275A LYS 3.4 0.4 - - - -
276A SER* 1.4 74.0 - - - +
278A VAL* 1.4 63.0 + - + +
280A THR* 3.8 5.7 + - - -
281A LEU* 3.1 30.5 + - + +
2001A ZLK 3.6 43.9 - - + +
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Residues in contact with VAL 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ILE* 6.5 0.9 - - + -
21A PHE* 4.1 13.5 - - + -
22A ARG* 3.7 24.0 - - + +
25A VAL* 3.9 31.2 - - + -
26A TYR* 3.2 45.1 - - + +
274A GLN* 3.4 15.5 + - - +
275A LYS 3.3 8.6 + - - +
277A VAL* 1.4 76.5 - - + +
279A ILE* 1.3 54.6 + - - +
282A SER* 2.7 33.3 + - - -
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Residues in contact with ILE 279 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A PHE* 4.3 18.2 - - + -
25A VAL* 5.1 6.7 - - + -
29A LEU* 5.7 1.3 - - - -
275A LYS* 3.1 24.7 + - + +
276A SER* 4.0 6.5 - - - +
278A VAL* 1.3 76.5 - - + +
280A THR* 1.4 61.8 + - + +
282A SER* 3.3 7.6 + - - -
283A LEU* 3.0 38.8 + - + +
2008A OLC 4.4 24.2 - - + -
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Residues in contact with THR 280 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245A SER 4.6 0.2 - - - +
248A PRO* 3.8 19.1 - - + +
249A TYR* 3.7 23.4 + - - +
252A GLN* 3.5 21.7 - - + +
276A SER* 2.8 32.6 + - - +
279A ILE* 1.4 73.9 - - + +
281A LEU* 1.4 57.7 + - - +
283A LEU* 3.5 9.9 + - + +
284A ALA* 3.0 26.0 + - - +
2001A ZLK 3.4 23.9 - - - -
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Residues in contact with LEU 281 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A TYR* 3.7 18.4 - - + +
30A TYR* 3.6 21.5 + - - +
79A ARG* 4.4 11.7 - - - +
83A TYR* 6.0 0.4 - - - +
103A LEU* 3.8 21.8 - - + -
104A TYR* 4.9 7.0 - - + +
174A PHE* 5.8 6.1 - - + +
249A TYR* 4.3 13.0 - - + -
277A VAL* 3.1 19.4 + - + +
278A VAL 4.2 0.7 - - - +
280A THR* 1.4 74.9 + - - +
282A SER* 1.4 59.3 + - - +
284A ALA* 3.4 6.6 + - + +
285A ALA* 2.9 28.4 + - - +
2001A ZLK 4.0 34.1 - - + +
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Residues in contact with SER 282 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A VAL* 4.8 0.3 - - - +
26A TYR* 3.8 16.1 - - - -
29A LEU* 3.4 39.2 - - - +
30A TYR* 4.6 8.7 + - - -
33A ILE* 3.5 7.7 - - - +
278A VAL* 2.7 22.6 + - - +
279A ILE 3.3 5.6 + - - -
281A LEU* 1.4 75.9 - - - +
283A LEU* 1.4 58.2 + - - +
285A ALA* 3.5 4.7 + - - -
286A SER* 3.0 28.4 + - - -
2008A OLC 4.3 4.2 - - - +
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Residues in contact with LEU 283 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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244A VAL* 3.5 39.7 - - + +
245A SER* 2.7 28.4 + - - +
248A PRO* 4.2 18.8 - - + -
279A ILE* 3.0 31.1 + - + +
280A THR* 3.7 7.2 - - + +
281A LEU 3.3 0.2 - - - -
282A SER* 1.4 72.6 - - - +
284A ALA* 1.4 56.4 + - - +
286A SER* 2.8 21.3 + - - +
2008A OLC 3.8 34.5 - - + -
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Residues in contact with ALA 284 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A LEU* 5.0 2.9 - - + -
107A LEU* 3.7 23.0 - - + +
245A SER* 3.1 22.2 + - - +
249A TYR* 3.9 22.4 - - + -
280A THR 3.0 18.3 + - - +
281A LEU* 3.5 12.1 - - + +
282A SER 3.4 0.4 - - - -
283A LEU* 1.4 75.0 - - - +
285A ALA* 1.4 51.9 + - - +
287A ASN* 2.7 29.3 + - - +
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Residues in contact with ALA 285 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A TYR* 3.8 24.7 - - + -
33A ILE* 3.5 18.3 - - + +
72A CYS* 5.3 2.3 - - - -
76A LEU* 4.6 9.8 - - + +
103A LEU* 3.8 26.6 - - + +
106A ASN* 4.9 1.7 - - - +
281A LEU 2.9 17.5 + - - +
282A SER 3.8 4.9 - - - +
283A LEU 3.4 0.2 - - - -
284A ALA* 1.4 69.6 - - - +
286A SER* 1.4 55.3 + - - +
287A ASN* 3.1 15.5 + - - +
288A CYS* 3.8 7.6 - - - +
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Residues in contact with SER 286 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ILE* 3.8 23.3 - - - -
244A VAL* 5.5 0.7 - - - +
245A SER* 4.6 0.3 - - - -
282A SER 3.0 15.9 + - - -
283A LEU* 2.8 26.9 + - - +
284A ALA 3.3 0.6 - - - -
285A ALA* 1.4 71.1 - - - +
287A ASN* 1.4 63.3 + - - +
288A CYS 3.2 3.6 - - - -
289A CYS* 3.1 22.1 + - - +
290A PHE* 3.6 18.3 - - - -
2008A OLC 4.0 17.6 - - - +
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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