Contacts of the helix formed by residues 366 - 384 (chain C) in PDB entry 1F1H
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 ASN 366 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C THR* 4.1 0.8 - - - +
23C ASP 3.3 15.2 + - - -
24C THR 2.8 26.9 + - - +
25C LYS 4.0 5.5 + - - +
26C GLY* 3.4 19.7 - - - -
104C PRO* 3.8 7.5 - - - +
311C LEU 4.0 4.0 + - - +
314C PRO* 4.8 1.4 - - - +
364C ALA 3.6 2.6 + - - -
365C ALA* 1.3 69.5 - - - +
367C PRO* 1.3 71.4 - - - +
368C TYR* 3.0 28.2 + - - +
369C LEU* 3.6 26.9 - - + +
370C CYS* 2.8 23.7 + - - +
442C TYR* 5.6 2.9 + - + +
446C ARG* 5.2 2.4 - - - +
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Residues in contact with PRO 367 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C GLY 4.7 2.0 - - - +
232C ALA* 3.7 34.3 - - + +
235C ILE* 3.8 22.7 - - + -
236C GLN* 3.7 26.7 - - - +
239C LYS* 4.5 3.4 - - - +
268C MET* 5.2 3.1 - - + -
365C ALA 3.0 12.0 - - - +
366C ASN* 1.3 85.5 - - - +
368C TYR* 1.3 61.9 + - + +
370C CYS* 4.5 1.8 - - + -
371C PHE* 2.9 51.3 + - + -
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Residues in contact with TYR 368 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C THR* 3.4 28.1 + - + -
88C ARG* 3.8 14.0 + - - -
104C PRO* 3.3 33.2 - - + +
105C ARG* 3.9 24.4 + - + -
108C ALA* 4.0 21.9 - - + +
229C THR* 4.0 5.4 - - + -
232C ALA* 3.3 26.4 + - + -
233C ASP* 2.6 37.1 + - - -
236C GLN* 4.1 10.7 - - + +
366C ASN* 3.0 13.5 + - - +
367C PRO* 1.3 78.9 - - + +
369C LEU* 1.3 59.8 + - - +
371C PHE* 3.9 1.4 - - - +
372C ALA* 2.9 33.1 + - - +
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Residues in contact with LEU 369 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C THR* 3.8 24.7 - - + +
104C PRO* 3.8 28.3 - - + -
107C ILE* 3.8 24.9 - - + -
311C LEU* 3.5 18.6 - - + +
366C ASN* 3.3 18.9 + - + +
368C TYR* 1.3 80.1 - - - +
370C CYS* 1.3 58.5 + - - +
372C ALA* 3.9 4.9 - - - +
373C ALA* 3.0 31.0 + - - +
434C PHE* 4.2 12.7 - - + -
442C TYR* 3.8 27.6 - - + -
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Residues in contact with CYS 370 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268C MET* 4.9 2.2 - - - -
270C CYS* 5.0 0.4 - - - -
308C ILE* 4.9 1.1 - - - +
311C LEU* 3.7 22.6 - - - +
312C ALA* 3.5 31.4 - - - -
361C PRO* 4.3 7.9 - - - -
365C ALA* 3.9 9.9 - - + -
366C ASN 2.8 23.3 + - - +
367C PRO* 4.0 2.2 - - + +
369C LEU* 1.3 74.5 - - - +
371C PHE* 1.3 72.4 + - + +
373C ALA* 3.3 3.5 + - - +
374C LEU* 3.0 36.0 + - - +
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Residues in contact with PHE 371 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C ALA* 6.2 0.2 - - + -
126C PHE* 3.3 35.0 - + + -
128C PRO* 3.4 30.1 - - + -
228C MET* 3.6 36.7 - - + +
231C LYS* 4.1 8.1 - - + -
232C ALA* 3.8 28.0 - - + -
235C ILE* 4.2 4.0 - - + -
268C MET* 4.3 13.7 - - + -
270C CYS* 4.0 21.8 - - - -
367C PRO* 2.9 32.0 + - + +
368C TYR* 3.9 2.5 - - - +
370C CYS* 1.3 82.3 - - - +
372C ALA* 1.3 61.9 + - - +
374C LEU* 3.2 2.0 + - - -
375C LEU 3.1 17.7 + - - -
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Residues in contact with ALA 372 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C ILE* 4.5 3.1 - - + -
108C ALA* 4.4 8.3 - - - -
111C ALA* 4.2 17.7 - - + -
228C MET* 3.7 16.5 - - + -
368C TYR 2.9 19.5 + - - +
369C LEU 3.9 3.1 - - - +
371C PHE* 1.3 75.7 - - - +
373C ALA* 1.3 58.5 + - - +
375C LEU* 3.1 4.4 + - - +
376C MET* 2.9 34.1 + - - +
434C PHE* 4.2 18.2 - - + -
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Residues in contact with ALA 373 (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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308C ILE* 4.1 14.6 - - + +
311C LEU* 3.7 26.7 - - + -
369C LEU 3.0 20.5 + - - +
370C CYS 3.6 4.0 - - - +
372C ALA* 1.3 75.3 - - - +
374C LEU* 1.3 63.7 + - - +
377C ALA* 3.2 25.1 + - - +
427C PHE* 3.7 4.6 - - + -
428C LEU* 3.9 20.4 - - + -
434C PHE* 4.6 2.2 - - + -
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Residues in contact with LEU 374 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C PHE* 4.1 12.1 - - + -
270C CYS* 4.5 10.8 - - + -
272C MET* 3.9 24.9 - - + -
297C TYR* 3.8 5.9 + - - -
301C VAL* 4.2 21.6 - - + +
308C ILE* 3.5 32.3 - - + -
358C VAL* 4.4 11.4 - - + -
360C PHE* 4.7 0.9 - - + -
361C PRO* 4.5 11.9 - - + -
370C CYS* 3.0 37.2 + - - +
371C PHE 3.2 7.6 + - - +
373C ALA* 1.3 78.2 - - - +
375C LEU* 1.3 63.7 + - - +
377C ALA* 3.3 3.3 + - - +
378C GLY* 3.0 17.8 + - - -
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Residues in contact with LEU 375 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ALA* 3.7 31.6 - - + +
115C LEU* 4.4 5.6 - - + -
124C VAL* 3.7 40.4 - - + -
126C PHE* 4.6 1.7 - - + -
228C MET* 4.2 11.4 - - - -
274C LEU* 4.4 3.1 - - + -
297C TYR* 3.3 19.9 + - + +
371C PHE 3.1 9.4 + - - +
372C ALA 3.3 8.5 - - - +
374C LEU* 1.3 76.6 - - - +
376C MET* 1.3 55.5 + - - +
378C GLY* 2.8 4.2 + - - -
379C LEU* 2.8 60.9 + - + +
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Residues in contact with MET 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ALA* 4.1 16.6 - - + +
114C TYR* 4.1 21.5 - - + -
372C ALA 2.9 26.5 + - - +
373C ALA 4.1 0.2 - - - +
375C LEU* 1.3 73.6 - - - +
377C ALA* 1.3 57.1 + - - +
379C LEU* 3.9 8.7 - - - +
380C ASP* 3.1 26.9 + - - +
383C LYS* 5.8 0.2 + - - -
427C PHE* 3.5 29.6 - - - +
428C LEU* 3.7 26.0 - - + +
430C ALA* 3.2 34.1 - - + +
433C VAL* 3.5 26.2 - - + -
434C PHE* 4.8 0.7 - - + -
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Residues in contact with ALA 377 (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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300C GLY* 3.2 27.5 - - - +
301C VAL* 4.2 1.1 - - - -
304C HIS* 4.0 4.5 - - + -
308C ILE* 3.6 20.0 - - + -
373C ALA 3.2 18.7 + - - +
374C LEU 3.5 4.3 - - - +
375C LEU 3.1 0.6 - - - -
376C MET* 1.3 73.8 - - - +
378C GLY* 1.3 66.8 + - - +
380C ASP* 3.3 3.5 + - - +
381C GLY 3.1 15.9 + - - -
427C PHE* 3.5 21.9 - - + -
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Residues in contact with GLY 378 (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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297C TYR* 3.5 53.3 - - - -
301C VAL* 4.5 0.8 - - - +
374C LEU 3.0 8.2 + - - -
375C LEU 2.8 7.4 + - - -
377C ALA* 1.3 77.6 - - - +
379C LEU* 1.3 55.2 + - - +
381C GLY* 3.0 15.2 + - - -
382C ILE* 3.0 12.6 + - - +
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Residues in contact with LEU 379 (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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114C TYR* 3.7 37.2 - - + -
115C LEU* 3.4 39.9 - - + -
118C THR* 5.0 2.5 - - - +
120C ILE* 4.2 18.3 - - + +
274C LEU* 4.3 14.4 - - + -
375C LEU* 2.8 39.9 + - + +
376C MET* 3.9 9.2 - - - +
378C GLY* 1.3 72.3 - - - +
380C ASP* 1.3 59.9 + - - +
381C GLY 3.0 1.6 - - - -
382C ILE* 3.2 4.8 + - + +
383C LYS* 2.8 37.8 + - + +
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Residues in contact with ASP 380 (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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303C LYS* 4.4 4.5 + - - -
304C HIS* 2.9 28.6 + - - +
376C MET 3.1 19.0 + - - +
377C ALA 3.6 5.4 - - - +
378C GLY 3.3 0.4 - - - -
379C LEU* 1.3 75.2 - - - +
381C GLY* 1.3 59.2 + - - +
383C LYS* 4.0 22.1 + - - +
384C ASN* 3.4 32.2 + - - +
386C ILE* 3.6 11.1 - - - +
427C PHE* 4.0 17.8 - - + +
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Residues in contact with GLY 381 (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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296C TYR* 3.1 27.1 - - - +
300C GLY* 3.7 6.7 - - - -
377C ALA 3.1 5.9 + - - -
378C GLY 3.0 5.9 + - - -
380C ASP* 1.3 79.9 - - - +
382C ILE* 1.3 56.5 + - - +
384C ASN 3.5 0.2 - - - -
385C LYS 3.0 6.1 + - - -
386C ILE* 2.8 42.7 + - - -
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Residues in contact with ILE 382 (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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120C ILE* 3.5 38.1 - - + -
274C LEU* 4.1 7.6 - - + -
282C PHE* 5.3 0.2 - - + -
293C GLN* 3.5 49.8 - - + +
296C TYR* 3.7 12.1 - - + -
297C TYR* 4.0 17.3 - - + +
378C GLY 3.0 13.9 + - - +
379C LEU* 3.2 10.1 + - + +
381C GLY* 1.3 73.6 - - - +
383C LYS* 1.3 69.2 + - - +
384C ASN 3.0 2.6 + - - -
385C LYS* 3.0 30.4 + - - +
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Residues in contact with LYS 383 (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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114C TYR* 3.3 27.7 + - + +
118C THR* 5.0 9.0 - - + -
120C ILE* 4.2 16.6 - - + -
379C LEU* 2.8 21.3 + - + +
380C ASP* 4.0 25.8 + - - +
382C ILE* 1.3 75.9 - - - +
384C ASN* 1.3 73.3 + - - +
385C LYS* 3.9 6.8 + - - +
430C ALA* 4.8 7.7 - - - +
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Residues in contact with ASN 384 (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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303C LYS* 5.6 4.0 + - - +
380C ASP* 3.4 28.6 + - - +
381C GLY 3.5 0.7 - - - -
382C ILE 3.0 1.0 - - - -
383C LYS* 1.3 104.9 + - - +
385C LYS* 1.3 71.4 + - - +
386C ILE* 2.9 15.8 + - + +
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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