Contacts of the helix formed by residues 37 - 54 (chain C) in PDB entry 3HUU
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 37 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33C GLU 4.6 1.5 + - - +
34C ILE* 3.2 18.0 + - - +
35C ARG 3.2 1.9 - - - +
36C GLN* 1.3 76.6 - - - +
38C PRO* 1.3 73.5 - - - +
39C PHE* 3.0 30.1 + - - +
40C ASN* 3.0 25.6 + - - +
41C SER* 3.7 2.8 + - - -
208C ASP* 2.7 34.4 + - - +
209C VAL* 5.1 1.1 - - - +
210C MET* 3.7 22.5 - - + +
236C ASN* 3.6 7.8 + - - -
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Residues in contact with PRO 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C GLN 3.3 8.5 - - - +
37C ASN* 1.3 83.8 - - - +
39C PHE* 1.3 58.9 + - - +
40C ASN 3.2 0.2 - - - -
41C SER* 3.2 10.3 + - - -
42C ASP* 2.8 38.7 + - - +
209C VAL* 5.0 3.8 - - + -
210C MET* 4.3 2.5 - - - -
236C ASN* 3.8 9.9 - - - +
238C SER* 3.5 37.7 - - - +
240C LEU* 3.8 24.7 - - + -
36D GLN* 3.8 23.8 - - + +
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Residues in contact with PHE 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ASN* 3.0 21.2 + - - +
38C PRO* 1.3 79.6 - - - +
40C ASN* 1.3 70.4 + - - +
42C ASP* 3.8 5.4 - - - +
43C VAL* 2.9 46.7 + - + +
88C LEU* 4.3 19.5 - - + -
110C VAL* 4.2 23.8 - - + -
124C ASN* 5.7 0.2 - - - -
208C ASP* 5.7 1.3 - - - +
236C ASN* 3.6 12.7 - - - +
253C ILE* 3.8 29.2 - - + -
255C PRO* 3.9 9.9 - - + -
258C LEU* 4.1 16.6 - - + -
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Residues in contact with ASN 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C GLN* 3.5 29.3 - - - +
34C ILE* 2.8 35.5 + - - +
35C ARG 3.9 10.5 - - - +
37C ASN* 3.0 18.8 + - - +
39C PHE* 1.3 88.9 - - - +
41C SER* 1.3 63.0 + - - +
43C VAL* 3.1 8.2 - - - +
44C LEU* 3.0 28.6 + - - +
88C LEU* 4.7 11.5 - - + +
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Residues in contact with SER 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ARG 5.2 0.8 + - - -
37C ASN 3.7 1.7 + - - -
38C PRO* 3.2 16.2 + - - -
40C ASN* 1.3 79.2 - - - +
42C ASP* 1.3 61.4 + - - +
44C LEU* 4.0 6.4 - - - +
45C ASN* 3.1 24.4 + - - +
35D ARG* 2.9 50.0 + - - +
36D GLN* 3.8 6.1 + - - +
41D SER* 6.2 4.3 - - - -
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Residues in contact with ASP 42 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C PRO* 2.8 26.1 + - - +
39C PHE 3.8 0.4 + - - +
41C SER* 1.3 74.2 - - - +
43C VAL* 1.3 65.1 + - - +
45C ASN* 3.3 7.5 + - - +
46C GLY 3.1 17.5 + - - -
236C ASN* 4.5 3.3 - - - +
237C THR 4.8 4.9 - - - +
255C PRO* 3.3 37.3 - - + +
256C ASP* 3.6 14.9 - - + +
35D ARG* 2.6 36.4 + - - +
36D GLN* 2.9 18.7 + - - +
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Residues in contact with VAL 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C PHE* 2.9 40.7 + - + +
40C ASN* 3.1 15.5 - - - +
42C ASP* 1.3 73.7 - - - +
44C LEU* 1.3 66.5 + - + +
46C GLY 3.2 1.7 + - - -
47C ILE* 3.0 25.4 + - + +
88C LEU* 3.8 35.0 - - + -
110C VAL* 4.8 13.5 - - + -
255C PRO* 3.6 14.9 + - - +
258C LEU* 4.7 1.8 - - + -
259C GLY* 3.4 21.3 - - - +
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Residues in contact with LEU 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LEU* 3.5 31.6 - - + -
40C ASN 3.0 19.1 + - - +
41C SER* 4.0 5.8 - - - +
43C VAL* 1.3 77.7 - - + +
45C ASN* 1.3 59.5 + - - +
47C ILE* 3.2 7.7 + - + -
48C ASN* 2.8 54.3 + - - +
58C THR* 5.0 2.7 - - - +
60C MET* 3.5 29.4 - - + -
88C LEU* 6.4 2.0 - - + -
44D LEU* 3.7 18.6 - - + -
60D MET* 5.3 3.4 - - - -
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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
----------------------------------------------------------
41C SER 3.1 18.6 + - - +
42C ASP 3.5 5.5 + - - +
43C VAL 3.3 0.4 - - - -
44C LEU* 1.3 75.3 - - - +
46C GLY* 1.3 63.7 + - - +
48C ASN* 3.3 10.1 + - - +
49C GLN* 3.1 47.5 + - - +
256C ASP* 4.9 5.3 - - - +
27D GLN* 5.1 2.4 + - - -
30D SER* 3.5 17.0 + - - -
35D ARG* 3.6 35.9 - - - +
61D THR 5.1 1.0 - - - +
62D VAL* 3.1 24.0 - - - +
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Residues in contact with GLY 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C ASP 3.1 8.3 + - - -
43C VAL 3.2 2.2 + - - -
44C LEU 3.2 0.2 - - - -
45C ASN* 1.3 80.0 - - - +
47C ILE* 1.3 58.9 + - - +
49C GLN* 3.2 29.1 + - - +
50C ALA 3.3 5.0 + - - -
256C ASP* 3.6 24.5 - - - -
260C PHE* 3.3 19.5 - - - -
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Residues in contact with ILE 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ILE* 5.8 0.2 - - + -
25C LEU* 4.0 32.3 - - + -
43C VAL* 3.0 35.4 + - + +
44C LEU* 3.2 11.6 + - - +
46C GLY* 1.3 72.8 - - - +
48C ASN* 1.3 65.6 + - - +
50C ALA* 3.2 3.9 + - - +
51C CYS* 3.0 39.3 + - - -
58C THR* 4.5 4.9 - - + -
86C ILE* 3.9 28.5 - - + -
88C LEU* 4.1 12.3 - - + -
259C GLY* 3.3 20.9 - - - +
262C ALA* 4.8 1.1 - - + -
263C GLY* 4.5 3.6 - - - +
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Residues in contact with ASN 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C LEU* 2.8 49.7 + - - +
45C ASN* 3.7 9.6 - - - +
47C ILE* 1.3 73.0 - - - +
49C GLN* 1.3 63.5 + - - +
51C CYS* 4.6 4.4 - - - +
52C ASN* 3.0 36.2 + - - +
58C THR* 4.1 17.0 + - - +
27D GLN* 5.3 1.4 - - - +
59D ARG* 5.4 0.9 - - - -
60D MET* 3.5 49.0 + - - +
61D THR 5.2 1.8 + - - +
62D VAL* 5.2 5.4 - - + -
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Residues in contact with GLN 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* 3.1 40.1 + - - +
46C GLY* 3.3 15.8 - - - +
47C ILE 3.2 0.4 - - - -
48C ASN* 1.3 78.9 - - - +
50C ALA* 1.3 61.1 + - - +
52C ASN* 4.3 1.0 - - - +
53C VAL* 3.2 28.2 + - - +
256C ASP* 5.2 5.3 - - - +
260C PHE* 3.7 22.4 - - + +
62D VAL* 3.2 34.1 - - + +
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Residues in contact with ALA 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 GLY 3.3 3.2 + - - +
47C ILE 3.2 7.7 + - - +
49C GLN* 1.3 77.1 - - - +
51C CYS* 1.3 67.1 + - - +
53C VAL* 3.0 24.2 - - - +
54C ARG* 3.3 10.0 + - - +
260C PHE* 3.8 18.1 - - + +
263C GLY* 3.8 6.5 - - - -
264C ASN* 3.6 42.6 - - - +
267C ILE* 4.6 2.5 - - - -
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Residues in contact with CYS 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ILE* 4.1 15.9 - - - -
47C ILE* 3.0 35.9 + - - +
48C ASN* 4.2 4.9 - - - +
50C ALA* 1.3 77.3 - - - +
52C ASN* 1.3 64.0 + - - +
54C ARG 3.1 2.4 + - - -
55C GLY 3.0 5.7 + - - -
56C TYR* 2.9 42.1 + - - +
58C THR* 4.0 17.5 - - + -
263C GLY* 4.9 5.6 - - - -
267C ILE* 3.9 22.9 - - - -
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Residues in contact with ASN 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ASN* 3.0 28.9 + - - +
49C GLN* 4.3 2.5 - - - +
51C CYS* 1.3 76.5 - - - +
53C VAL* 1.3 67.4 + - + +
54C ARG 3.2 0.7 + - - -
55C GLY* 3.4 8.8 + - - -
56C TYR 4.2 0.9 - - - +
59D ARG* 3.0 37.4 + - - +
60D MET 2.9 27.5 + - - +
61D THR* 4.8 0.2 - - - +
62D VAL* 4.8 6.9 - - + +
72D GLU* 4.3 12.8 + - - +
76D MET* 4.3 10.5 - - + +
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Residues in contact with VAL 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C GLN* 3.2 15.9 - - - +
50C ALA* 3.0 24.5 - - - +
52C ASN* 1.3 77.9 - - + +
54C ARG* 1.3 71.2 + - + +
55C GLY 3.5 0.4 + - - -
260C PHE* 5.6 4.9 - - + -
264C ASN* 5.2 1.6 - - - +
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Residues in contact with ARG 54 (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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50C ALA 3.8 7.9 - - - +
51C CYS 3.1 6.1 + - - +
53C VAL* 1.3 93.7 - - + +
55C GLY* 1.3 59.7 + - - +
56C TYR* 3.3 14.3 - - - -
264C ASN* 3.1 44.2 + - - +
267C ILE* 3.7 33.7 - - + +
268C ASP* 2.7 34.1 + - - +
271C ARG* 4.1 19.5 + - - +
272C ASN* 5.8 0.6 - - - +
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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