Contacts of the helix formed by residues 314 - 332 (chain C) in PDB entry 6XWQ
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 MET 314 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C SER* 4.8 5.8 + - - -
280C SER* 4.6 2.0 - - - -
309C GLY 5.2 0.2 - - - +
310C ALA 4.5 3.8 - - - +
311C THR* 3.4 19.7 - - - +
312C ILE 2.9 11.8 + - - +
313C ASN* 1.3 77.0 + - - +
315C ASP* 1.3 61.0 + - - +
317C THR* 4.0 14.4 - - - -
318C ALA* 3.2 23.7 + - - +
352C SER* 3.2 30.8 + - - +
355C THR* 3.2 30.5 - - - +
356C ALA 4.0 4.7 - - - +
357C GLY* 4.0 7.6 - - - -
405C ASN* 3.1 26.0 - - - +
501C ASP* 3.3 26.0 - - - +
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Residues in contact with ASP 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C TYR* 5.1 0.5 + - - -
94C THR* 3.2 41.3 + - - +
95C SER* 3.3 10.0 + - - -
98C ALA* 3.6 15.2 - - + +
241C LEU* 5.2 0.2 - - - -
244C GLN* 4.1 7.0 - - - +
249C TYR* 2.4 34.0 + - - +
313C ASN* 3.5 15.1 + - - +
314C MET* 1.3 71.7 - - - +
316C GLY* 1.3 59.9 + - - +
318C ALA* 3.3 2.7 + - - +
319C LEU* 2.9 31.0 + - - +
404C VAL* 4.6 5.6 - - + +
405C ASN* 2.7 7.4 + - - +
408C GLY* 4.3 4.5 - - - -
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Residues in contact with GLY 316 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C LEU* 3.7 23.2 - - - +
315C ASP* 1.3 73.2 - - - +
317C THR* 1.3 56.2 + - - -
319C LEU* 3.3 2.6 + - - +
320C TYR* 2.9 29.3 + - - +
401C ARG* 3.4 21.6 - - - +
404C VAL* 4.0 6.1 - - - +
405C ASN* 2.5 18.1 + - - -
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Residues in contact with THR 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314C MET* 4.0 17.9 - - - +
315C ASP 3.4 0.2 - - - -
316C GLY* 1.3 74.6 - - - +
318C ALA* 1.3 57.8 + - - +
320C TYR* 3.5 1.7 - - + +
321C GLN* 2.9 38.0 + - + +
352C SER* 4.4 12.6 - - - -
355C THR* 4.8 8.7 - - + +
362C GLY* 3.9 26.9 - - - -
401C ARG* 3.7 19.8 - - - +
405C ASN* 3.1 18.9 + - - -
501C ASP* 3.8 12.9 - - - +
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Residues in contact with ALA 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C SER* 4.3 11.2 - - - +
98C ALA* 4.8 0.4 - - + -
99C VAL* 3.6 31.0 - - + +
314C MET 3.2 20.3 + - - +
315C ASP* 3.3 7.3 + - - +
316C GLY 3.2 0.6 - - - -
317C THR* 1.3 79.2 - - - +
319C LEU* 1.3 57.0 + - - +
321C GLN* 3.4 5.8 + - - +
322C GLY 2.9 23.6 + - - -
348C ALA* 4.6 3.7 - - - +
352C SER* 3.8 18.8 - - - +
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Residues in contact with LEU 319 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C ALA* 3.3 31.1 + - + +
99C VAL* 4.7 1.6 - - - +
101C PHE* 4.3 3.6 - - + -
102C GLY* 3.6 15.0 - - - +
237C VAL* 4.2 11.4 - - + +
240C GLY* 3.4 41.5 - - - +
241C LEU* 4.2 11.4 - - + +
244C GLN* 3.9 16.2 - - + -
315C ASP 2.9 17.5 + - - +
316C GLY 3.8 3.4 - - - +
318C ALA* 1.3 71.5 - - - +
320C TYR* 1.3 63.3 + - - +
322C GLY* 3.2 1.7 + - - +
323C VAL* 2.9 50.3 + - + +
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Residues in contact with TYR 320 (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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233C VAL* 6.3 0.2 - - + -
237C VAL* 4.7 18.8 - - + +
316C GLY 2.9 17.0 + - - +
317C THR 3.5 5.8 - - - +
319C LEU* 1.3 78.5 - - - +
321C GLN* 1.3 58.4 + - + +
323C VAL* 3.4 2.6 + - - +
324C THR* 2.4 60.8 + - + -
362C GLY* 3.2 30.5 - - - -
363C ALA* 3.8 17.5 - - - +
366C LEU* 4.3 4.0 - - + +
390C ILE* 3.2 23.0 - - + +
394C ASP* 4.0 4.2 + - - +
397C LEU* 3.5 33.0 - - + +
401C ARG* 3.3 42.2 - - + -
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Residues in contact with GLN 321 (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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317C THR* 2.9 29.5 + - + +
318C ALA* 3.8 4.5 - - - +
320C TYR* 1.3 78.2 - - + +
322C GLY* 1.3 57.1 + - - +
325C VAL* 2.9 36.1 + - - +
348C ALA* 3.8 18.4 - - + +
351C ALA* 3.5 27.3 + - - +
352C SER* 4.5 1.9 - - - -
362C GLY 3.7 13.4 + - - +
365C MET* 3.4 39.8 + - - +
366C LEU* 3.6 21.2 - - + +
369C VAL* 4.1 14.2 - - + +
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Residues in contact with GLY 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C VAL* 4.5 19.5 - - - -
102C GLY 4.8 1.6 - - - -
103C LEU* 3.2 28.1 - - - +
318C ALA 2.9 15.8 + - - -
319C LEU* 3.2 4.0 + - - -
321C GLN* 1.3 77.5 - - - +
323C VAL* 1.3 62.0 + - - +
325C VAL* 4.4 3.8 - - - +
326C LEU* 3.7 9.9 + - - +
344C VAL* 5.2 4.2 - - - +
348C ALA* 5.0 3.3 - - - +
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Residues in contact with VAL 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C GLY* 3.3 34.1 - - - +
105C VAL* 4.2 4.5 - - + -
106C GLY* 4.5 8.7 - - - -
111C VAL* 4.1 22.7 - - + +
233C VAL* 5.7 2.7 - - + +
236C ALA* 4.7 11.4 - - + -
237C VAL* 4.5 20.9 - - + -
319C LEU* 2.9 28.2 + - + +
320C TYR 4.1 2.7 - - - +
322C GLY* 1.3 75.3 - - - +
324C THR* 1.3 61.0 + - - +
326C LEU* 3.4 4.8 + - - +
327C PHE* 2.9 25.5 + - - +
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Residues in contact with THR 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C VAL* 5.8 3.7 - - - +
237C VAL* 5.4 1.9 - - - +
320C TYR* 2.4 43.4 + - - -
321C GLN 3.3 2.7 + - - -
323C VAL* 1.3 75.6 - - - +
325C VAL* 1.3 59.9 + - - +
327C PHE* 3.2 5.0 + - - +
328C VAL* 2.9 31.6 + - + +
366C LEU* 3.6 30.5 - - + -
390C ILE* 3.6 40.2 - - + +
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Residues in contact with VAL 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C LEU* 6.3 0.4 - - + -
321C GLN 2.9 20.1 + - - +
322C GLY 4.4 2.0 - - - +
324C THR* 1.3 76.4 - - - +
326C LEU* 1.3 57.3 + - - +
328C VAL* 3.3 2.3 + - - +
329C ALA* 2.9 29.1 + - + +
336C LEU* 4.1 12.6 - - + -
344C VAL* 3.9 17.5 - - + -
366C LEU* 4.3 4.9 - - + -
369C VAL* 3.6 39.7 - - + +
370C LEU* 4.3 16.8 - - + +
373C VAL* 3.7 25.8 - - + -
375C LEU* 6.2 0.7 - - + -
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Residues in contact with LEU 326 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C LEU* 3.7 28.0 - - + +
106C GLY* 4.4 13.5 - - - +
107C ARG* 4.1 26.9 - - + +
110C ASN* 6.1 0.2 - - - -
111C VAL* 3.8 20.6 - - + +
322C GLY 3.7 10.5 + - - +
323C VAL* 3.4 9.1 + - - +
324C THR 3.3 0.2 - - - -
325C VAL* 1.3 77.4 - - - +
327C PHE* 1.3 61.0 + - - +
329C ALA* 3.4 5.0 + - - +
330C ASN* 2.9 47.5 + - + +
335C PRO* 5.8 2.2 - - + +
336C LEU* 5.0 21.3 - - + +
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Residues in contact with PHE 327 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C VAL* 3.7 27.3 - - + +
112C GLY* 3.4 32.6 - - - -
115C VAL* 4.7 6.7 - - + -
229C PRO* 5.5 2.9 - - + -
230C LEU* 4.7 4.5 - - + -
233C VAL* 4.0 14.6 - - + -
323C VAL 2.9 15.5 + - - +
324C THR* 3.2 9.8 + - - +
326C LEU* 1.3 77.2 - - - +
328C VAL* 1.3 79.5 + - + +
330C ASN* 3.2 2.4 + - - +
331C ALA* 2.9 33.8 + - + +
386C ALA* 4.2 10.8 - - + -
389C MET* 3.6 27.4 - - + -
390C ILE* 3.4 39.3 - - + -
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Residues in contact with VAL 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C THR* 2.9 26.1 + - + +
325C VAL 3.8 2.9 - - - +
327C PHE* 1.3 89.7 - - + +
329C ALA* 1.3 63.2 + - - +
331C ALA* 3.2 14.8 + - - +
332C ILE* 3.5 16.5 + - + +
366C LEU* 5.7 0.9 - - + -
370C LEU* 3.8 37.9 - - + -
375C LEU* 4.2 17.5 - - + -
383C VAL* 5.0 9.2 - - + +
386C ALA* 4.1 24.9 - - + -
387C TYR* 5.1 1.1 - - - +
390C ILE* 4.8 3.1 - - + -
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Residues in contact with ALA 329 (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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325C VAL* 2.9 19.4 + - + +
326C LEU* 3.8 3.8 - - + +
328C VAL* 1.3 79.1 - - - +
330C ASN* 1.3 59.1 + - - +
331C ALA 3.6 0.2 + - - -
332C ILE* 4.0 4.5 + - - +
333C GLY 3.6 2.3 + - - -
334C HIS* 2.8 48.5 + - + +
335C PRO* 4.8 0.2 - - + -
336C LEU* 3.7 26.5 - - + +
375C LEU* 4.8 15.5 - - + +
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Residues in contact with ASN 330 (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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110C ASN* 3.4 27.2 + - - +
111C VAL 3.5 16.1 + - - +
112C GLY 3.6 12.0 - - - +
113C ALA* 4.9 4.6 - - - +
326C LEU* 2.9 29.2 + - + +
327C PHE 3.8 1.3 - - - +
329C ALA* 1.3 77.1 - - - +
331C ALA* 1.3 65.3 + - - +
332C ILE 3.7 0.2 + - - -
333C GLY* 3.7 7.4 + - - -
334C HIS 4.7 0.2 - - - +
335C PRO* 3.7 32.0 - - + +
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Residues in contact with ALA 331 (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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112C GLY 4.1 8.3 - - - +
113C ALA 5.8 0.8 - - - +
115C VAL* 4.7 19.3 + - + +
116C ASN* 4.6 6.8 + - - -
117C LEU* 4.6 17.4 + - + -
118C GLY 4.8 0.7 + - - -
327C PHE* 2.9 30.6 + - + +
328C VAL* 3.2 9.8 + - - +
330C ASN* 1.3 80.0 - - - +
332C ILE* 1.3 65.2 + - + +
333C GLY 3.5 0.5 + - - -
386C ALA* 5.1 7.2 - - + -
389C MET* 5.8 0.2 - - + -
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Residues in contact with ILE 332 (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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117C LEU* 4.6 10.8 - - + -
118C GLY* 4.8 4.7 - - - +
119C SER* 3.6 45.6 + - - +
328C VAL* 3.5 16.8 + - + +
329C ALA* 4.2 4.0 - - - +
331C ALA* 1.3 80.5 - - + +
333C GLY* 1.3 57.5 + - - +
334C HIS* 3.5 30.3 + - + -
375C LEU* 3.6 31.6 - - + -
382C PRO* 4.5 17.0 - - + -
383C VAL* 4.1 15.5 - - + +
386C ALA* 5.5 1.6 - - + -
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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