Contacts of the helix formed by residues 37 - 50 (chain C) in PDB entry 3MAX
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 37 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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24C ILE* 3.4 22.6 - - + +
25C GLY* 3.8 8.4 - - - -
27C TYR 3.2 27.4 - - - +
28C TYR* 5.1 2.7 - - + -
29C TYR* 4.1 14.6 - - + +
35C MET* 3.5 15.2 - - + +
36C LYS* 1.4 82.0 - - - +
38C HIS* 1.3 55.3 + - - +
39C ARG* 4.8 3.4 - - + +
40C ILE* 2.9 35.8 + - + +
114C PHE* 3.8 30.3 - - + -
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Residues in contact with HIS 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C GLY* 3.9 18.0 + - - +
27C TYR 5.1 0.2 + - - -
36C LYS* 2.9 9.8 + - + +
37C PRO* 1.3 78.1 - - - +
39C ARG* 1.3 57.0 + - - +
41C ARG* 3.0 27.2 + - - +
42C MET* 2.9 47.4 + - + +
310C ILE* 4.4 7.6 - - + -
338C TYR* 3.2 47.7 - + - -
341C TYR* 3.9 14.3 + - - -
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Residues in contact with ARG 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C MET* 3.5 30.4 - - - +
36C LYS* 2.8 24.6 + - - +
37C PRO* 4.8 0.6 - - - +
38C HIS* 1.3 78.7 - - - +
40C ILE* 1.3 68.4 + - + +
42C MET* 3.6 13.3 - - - +
43C THR* 2.7 37.3 + - - -
140C TRP 5.1 1.0 + - - -
305C GLY 2.8 29.9 + - - +
306C GLY 3.3 12.5 + - - -
307C GLY* 3.2 28.1 + - - -
310C ILE* 3.8 26.4 - - + +
313C VAL* 4.1 17.5 - - + +
314C ALA* 4.9 1.0 - - - -
317C TRP* 3.6 16.5 - - - -
400C LLX 3.6 16.6 - - - -
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Residues in contact with ILE 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C TYR* 5.2 1.1 + - - +
20C TYR* 4.0 13.7 - - + -
24C ILE* 3.8 27.1 - - + -
37C PRO* 2.9 21.3 + - + +
39C ARG* 1.3 91.0 - - + +
41C ARG* 1.3 58.6 + - - +
43C THR* 3.3 4.9 + - - -
44C HIS* 2.9 28.8 + - - +
114C PHE* 6.5 0.2 - - + -
140C TRP* 3.3 32.3 - - + +
141C ALA* 4.0 23.8 - - + +
317C TRP* 3.6 20.4 - - + -
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Residues in contact with ARG 41 (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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20C TYR* 3.6 26.6 - - + +
22C GLY 3.7 13.3 + - - -
24C ILE* 4.7 0.8 - - - +
25C GLY* 3.3 30.8 + - - -
26C ASN* 2.9 33.5 + - - +
37C PRO 3.9 0.8 + - - -
38C HIS* 3.0 25.6 + - - +
40C ILE* 1.3 74.0 - - - +
42C MET* 1.3 60.4 + - - +
44C HIS* 3.2 3.3 + - + +
45C ASN* 2.8 31.0 + - + +
338C TYR* 3.2 27.6 + - + +
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Residues in contact with MET 42 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C HIS* 2.9 37.0 + - - +
39C ARG* 3.6 10.3 - - - +
41C ARG* 1.3 76.4 - - - +
43C THR* 1.3 63.0 + - - +
45C ASN* 3.4 1.6 + - - +
46C LEU* 3.0 25.5 + - - +
310C ILE* 3.6 46.9 - - - +
311C ARG* 4.1 5.8 - - - -
314C ALA* 4.2 5.9 - - + +
336C ASN* 5.7 0.3 - - - +
338C TYR* 3.9 24.4 - - + -
341C TYR* 4.0 26.9 - - + -
342C PHE* 4.0 25.9 - - + -
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Residues in contact with THR 43 (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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18C TYR* 5.1 0.2 - - - +
39C ARG 2.7 23.6 + - - -
40C ILE* 3.4 8.3 - - - -
42C MET* 1.3 75.4 - - - +
44C HIS* 1.3 64.4 + - - +
46C LEU* 3.2 2.6 + - - +
47C LEU* 2.9 41.0 + - + +
140C TRP* 4.0 12.1 - - + -
313C VAL* 4.3 0.2 - - - +
314C ALA* 3.5 23.7 + - - +
317C TRP* 3.6 40.7 - - + -
318C THR* 3.6 7.7 + - - +
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Residues in contact with HIS 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C TYR* 2.9 40.7 + + - +
20C TYR* 3.3 48.0 - + + -
40C ILE 2.9 14.1 + - - +
41C ARG* 3.4 8.3 - - + +
43C THR* 1.3 76.6 - - - +
45C ASN* 1.3 59.0 + - + +
47C LEU* 3.3 5.1 + - - +
48C LEU* 2.9 70.2 + - + +
58C ILE* 4.3 11.2 - - + -
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Residues in contact with ASN 45 (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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41C ARG* 2.8 20.8 + - + +
42C MET 3.9 1.3 - - - +
44C HIS* 1.3 77.2 - - + +
46C LEU* 1.3 58.8 - - - +
48C LEU* 3.4 12.2 + - - +
49C ASN* 2.8 44.8 + - - +
336C ASN* 3.1 15.4 - - - +
337C ASP* 2.7 54.2 + - - +
338C TYR* 3.9 14.0 - - + -
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Residues in contact with LEU 46 (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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42C MET 3.0 17.7 + - - +
43C THR 3.5 3.8 - - - +
45C ASN* 1.3 75.2 + - - +
47C LEU* 1.3 63.9 - - - +
49C ASN* 3.2 3.6 + - - -
50C TYR* 3.1 30.1 + - + -
314C ALA 3.9 17.3 - - - +
315C ARG* 4.2 5.2 - - - +
318C THR* 3.4 28.3 - - + +
333C LEU* 3.8 30.7 - - + -
334C PRO* 4.2 7.0 - - + -
336C ASN* 3.8 30.7 - - - +
342C PHE* 4.1 17.9 - - + -
348C LEU* 4.5 0.4 - - + -
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Residues in contact with LEU 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C TYR* 3.3 42.4 - - + +
43C THR* 2.9 29.9 + - + +
44C HIS* 3.3 7.0 - - - +
46C LEU* 1.3 76.4 - - - +
48C LEU* 1.3 63.8 + - + +
50C TYR* 3.3 9.5 + - - +
52C LEU* 3.3 40.4 + - + +
53C TYR 5.2 0.9 - - - -
56C MET* 4.9 4.9 - - + -
140C TRP* 4.2 0.2 - - - +
318C THR* 3.3 25.8 + - - +
321C THR* 3.3 37.9 - - + +
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Residues in contact with LEU 48 (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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44C HIS* 2.9 59.4 + - + +
45C ASN* 3.6 14.1 - - - +
47C LEU* 1.3 75.0 - - + +
49C ASN* 1.3 61.7 + - - +
51C GLY* 2.8 22.2 + - - -
53C TYR* 3.3 44.0 - - + -
56C MET* 6.3 0.9 - - + -
58C ILE* 4.0 8.7 - - + -
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Residues in contact with ASN 49 (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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45C ASN* 2.8 51.7 + - - +
46C LEU 3.2 4.5 + - - +
48C LEU* 1.3 73.2 - - - +
50C TYR* 1.3 59.6 + - - +
51C GLY* 3.0 6.2 + - - -
334C PRO* 3.7 19.6 - - + +
335C TYR* 3.1 25.0 - - - +
336C ASN* 3.3 12.3 - - + +
337C ASP 4.4 0.2 - - - +
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Residues in contact with TYR 50 (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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46C LEU* 3.1 23.5 + - + -
47C LEU 3.6 10.3 - - - +
48C LEU 3.2 0.2 - - - -
49C ASN* 1.3 75.4 - - - +
51C GLY* 1.3 59.8 + - - +
52C LEU* 3.4 19.2 + - + +
318C THR* 3.6 19.1 - - + -
329C ILE* 3.8 26.5 - - + +
330C PRO* 2.7 45.4 + - + -
332C GLU 3.7 3.5 + - - -
333C LEU* 3.7 13.0 + - + +
334C PRO* 3.5 28.7 - - + +
348C LEU* 3.4 34.7 - - + +
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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
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Atomic class I II III IV V VI VII VIII
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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