Contacts of the strand formed by residues 26 - 38 (chain C) in PDB entry 1FL7
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 LEU 26 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C LEU* 3.8 31.4 - - + -
13C GLN* 3.4 13.2 - - - +
14C GLU* 4.3 18.4 - - + -
24C PRO* 3.9 10.7 - - + -
25C ILE* 1.3 75.5 - - - +
27C GLN* 1.3 59.9 + - - +
78C ASN* 2.7 15.5 + - - +
79C HIS* 3.1 37.0 + - - +
38D VAL* 3.9 4.3 - - - +
1I NAG 3.3 35.4 - - - +
2I NDG 5.5 2.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 27 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C LEU* 4.5 1.8 - - - -
13C GLN* 2.7 38.2 + - - +
15C ASN* 3.0 40.1 + - + +
16C PRO* 5.1 2.0 - - - +
26C LEU* 1.3 76.8 - - - +
28C CYS* 1.3 71.4 + - - +
29C MET* 3.5 29.6 + - + +
79C HIS* 3.3 6.3 - - - -
35D ARG* 4.5 9.9 - - - +
36D ASP 3.3 18.4 - - - +
37D LEU* 3.8 5.6 - - - +
38D VAL* 3.1 31.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C THR 3.5 0.4 - - - -
27C GLN* 1.3 72.7 - - - +
29C MET* 1.3 61.0 + - - +
60C CYS* 3.6 9.4 - - - -
61C VAL* 4.0 11.9 - - - -
62C ALA* 3.4 27.1 - - - +
79C HIS* 2.8 22.5 + - + +
81C ALA 3.6 3.1 - - - -
82C CYS* 2.0 53.6 - - + -
35D ARG* 3.4 0.5 - - - -
36D ASP* 2.9 29.0 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C GLU 3.9 1.2 - - - +
11C THR 3.0 27.0 + - - +
13C GLN* 3.5 38.0 - - + +
14C GLU 4.9 5.6 - - - +
16C PRO* 6.0 3.4 - - + -
27C GLN* 3.5 30.1 - - - +
28C CYS* 1.3 75.0 - - - +
30C GLY* 1.3 57.8 + - - +
60C CYS* 3.2 7.0 - - - -
33D TYR* 2.8 22.7 - - - +
34D THR 3.3 11.9 - - - +
35D ARG* 3.4 28.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C PRO* 3.4 10.3 - - - -
9C GLU 3.9 2.0 - - - -
10C CYS* 3.7 9.4 - - - -
29C MET* 1.3 77.0 - - - +
31C CYS* 1.3 62.9 + - - -
60C CYS* 3.6 3.2 - - - +
33D TYR* 3.1 17.1 - - - -
34D THR* 2.7 37.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C CYS* 2.0 66.6 - - + +
8C PRO* 2.6 17.0 + - - +
9C GLU* 4.5 2.8 - - - +
10C CYS 3.8 9.9 + - - +
30C GLY* 1.3 76.8 - - - -
32C CYS* 1.3 71.1 + - - +
84C CYS* 3.5 6.6 - - - -
31D TYR* 4.2 12.2 - - + -
32D CYS 3.1 5.6 - - - +
33D TYR* 3.7 18.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C CYS* 4.1 0.2 - - - -
31C CYS* 1.3 76.7 - - - +
33C PHE* 1.3 64.0 + - - +
34C SER* 3.8 3.3 + - - -
58C THR* 3.4 26.4 - - - +
59C CYS* 3.5 1.3 - - - -
60C CYS* 3.3 32.3 - - - -
84C CYS* 2.0 48.9 - - - -
31D TYR* 3.4 10.7 - - - -
32D CYS* 3.1 27.4 + - - +
34D THR* 4.8 1.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C CYS* 1.3 72.9 - - - +
34C SER* 1.3 91.5 + - - +
35C ARG* 3.9 27.4 - - + -
56C GLU* 5.7 0.9 - - + -
57C SER* 4.3 0.2 - - - -
58C THR* 2.6 32.1 + - - +
84C CYS* 5.0 0.6 - - - +
29D ALA* 4.0 10.1 - - + -
30D GLY* 3.3 37.0 - - - -
31D TYR* 3.6 29.1 - + + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C CYS 4.3 4.1 + - - -
33C PHE* 1.3 86.8 - - - +
35C ARG* 1.3 68.5 + - - +
56C GLU 3.1 16.4 - - - -
57C SER* 3.6 7.2 - - - -
58C THR 4.5 2.5 - - - -
30D GLY 3.1 25.5 + - - +
32D CYS* 4.4 2.9 - - - +
50D THR* 3.5 19.0 - - - -
51D CYS* 2.8 32.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A TYR* 3.9 13.1 + - - -
33C PHE* 3.9 18.9 - - + -
34C SER* 1.3 80.3 - - - +
36C ALA* 1.3 62.7 + - - +
37C TYR* 3.4 19.4 - - + -
55C SER* 3.5 5.7 + - - -
56C GLU* 2.6 67.1 + - + +
28D CYS 3.2 15.7 - - - +
29D ALA* 3.7 12.8 - - + +
51D CYS* 3.8 8.9 + - - -
101D PRO* 3.4 27.1 - - - +
410D SO4 3.6 19.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ARG* 1.3 76.8 - - - +
37C TYR* 1.3 69.3 + - - +
53C VAL* 4.5 3.1 - - + -
54C THR 3.2 13.0 - - - +
55C SER* 4.5 3.6 - - - -
8D ILE* 4.7 1.4 - - - +
27D TRP* 3.6 34.7 - - + +
28D CYS* 2.9 17.7 + - + +
51D CYS 4.3 0.2 + - - -
52D THR* 4.0 28.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ARG* 3.4 38.1 - - + -
36C ALA* 1.3 79.8 - - - +
38C PRO* 1.3 87.1 - - + +
40C PRO* 4.1 5.4 - - + -
53C VAL* 3.8 2.2 - - - +
54C THR* 2.8 59.2 + - + +
56C GLU* 2.8 29.6 + - + -
8D ILE* 3.7 8.5 - - + -
27D TRP* 3.8 11.4 - - - -
98D GLY* 3.6 5.0 - - - -
100D GLY* 3.1 20.1 + - - -
101D PRO* 3.5 39.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 38 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C TYR* 1.3 100.3 - - + +
39C THR* 1.3 69.6 + - - +
40C PRO* 3.2 5.7 - - - +
52C ASN 3.6 7.0 - - - +
53C VAL* 4.6 0.4 - - - -
10D ILE* 3.2 46.7 - - + +
25D THR* 4.7 0.2 - - + -
27D TRP* 3.3 27.6 - - + +
74D TYR* 6.1 1.1 - - - +
76D TYR* 5.2 1.1 - - + -
77D PRO* 3.7 25.6 - - + +
101D PRO* 4.6 4.2 - - - +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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