Contacts of the strand formed by residues 25 - 40 (chain C) in PDB entry 6CO1
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 SER 25 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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23C GLY 4.1 1.3 + - - -
24C TRP* 1.3 73.2 - - - +
26C HIS* 1.3 60.7 + - - +
66C PHE* 4.2 16.2 - - - -
107C ARG 2.9 14.7 + - - -
108C VAL* 3.4 15.2 - - - +
109C VAL* 2.9 30.8 + - - +
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Residues in contact with HIS 26 (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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17C ALA 3.5 15.4 + - - -
18C MET* 3.4 24.7 - - + +
20C LEU* 5.0 6.0 + - + +
21C GLY 5.2 0.8 + - - -
24C TRP* 3.5 23.2 + - - +
25C SER* 1.3 76.1 - - - +
27C SER* 1.3 55.7 + - - +
66C PHE* 3.4 9.1 - - - -
67C VAL* 2.8 45.5 + - - +
69C ARG* 3.3 29.3 + - + -
74C LEU* 4.2 8.7 - - + -
109C VAL* 3.1 26.7 - - + +
111C HIS* 3.2 21.0 + - + +
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Residues in contact with SER 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C HIS* 1.3 74.6 - - - +
28C CYS* 1.3 59.2 + - - +
29C HIS* 3.9 19.2 + - - -
65C GLY 3.4 14.6 - - - -
66C PHE* 4.2 14.8 - - - -
67C VAL 4.4 0.4 - - - +
108C VAL* 4.1 6.6 - - - +
109C VAL 3.0 5.8 + - - -
110C ALA* 3.2 25.1 - - - +
111C HIS* 2.8 35.8 + - - -
168C THR* 5.5 0.2 - - - +
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Residues in contact with CYS 28 (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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27C SER* 1.3 80.9 - - - +
29C HIS* 1.3 61.6 + - - +
64C GLY* 3.2 4.5 - - - -
65C GLY 2.9 29.4 + - - +
67C VAL* 3.9 12.5 - - + +
74C LEU* 3.7 46.9 - - - -
78C LEU* 3.3 26.5 - - + +
111C HIS* 3.4 14.8 - - - -
113C TYR* 4.1 10.8 - - + -
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Residues in contact with HIS 29 (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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27C SER* 3.9 29.3 + - - -
28C CYS* 1.3 71.7 + - - +
30C ALA* 1.3 61.1 + - - +
55C ARG* 4.9 11.3 + - - -
62C PHE* 3.1 41.5 + - + -
63C PRO 3.1 13.2 - - - +
64C GLY 3.5 11.8 + - - -
65C GLY* 3.5 16.8 + - - -
78C LEU* 4.1 4.0 - - - -
110C ALA* 5.6 0.8 - - + +
111C HIS 3.1 11.0 + - - +
112C LEU* 3.6 6.1 - - + +
113C TYR* 2.9 29.6 + - - -
166C VAL* 6.4 1.6 - - + -
168C THR* 5.9 2.9 - - + +
172C GLN* 4.5 17.3 + - - +
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Residues in contact with ALA 30 (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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29C HIS* 1.3 75.3 - - - +
31C MET* 1.3 59.9 + - - +
32C LEU* 3.8 15.1 + - + +
62C PHE* 3.7 8.3 - - - +
63C PRO* 3.0 30.1 + - + +
78C LEU* 4.7 0.7 - - + -
82C LEU* 4.1 21.8 - - + -
91C LEU* 3.5 31.0 - - + -
112C LEU* 4.7 0.7 - - - -
113C TYR 3.2 4.9 - - - +
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Residues in contact with MET 31 (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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30C ALA* 1.3 70.7 - - - +
32C LEU* 1.3 62.4 + - - +
33C TYR* 4.0 13.1 - - + -
50C VAL* 3.8 22.9 - - + -
62C PHE* 3.3 36.8 - - + -
112C LEU* 4.4 9.3 - - + +
113C TYR 2.7 14.0 + - - +
114C ALA* 3.4 6.4 - - + -
115C ARG 3.1 24.9 + - - +
172C GLN 4.1 0.9 - - - +
173C LEU* 3.6 25.8 - - + +
176C ALA* 3.5 34.5 - - + -
177C LEU* 4.9 1.6 - - + +
180C LEU* 4.3 13.0 - - - -
182C MET* 5.0 3.6 - - - +
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Residues in contact with LEU 32 (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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30C ALA* 3.8 18.5 + - + +
31C MET* 1.3 76.6 - - - +
33C TYR* 1.3 63.3 - - - +
50C VAL* 3.5 1.9 - - - +
51C LEU* 2.9 43.5 + - + +
63C PRO* 5.5 4.0 - - + -
86C LEU* 3.8 18.6 - - + -
89C LEU* 3.2 36.1 - - + -
91C LEU* 4.7 2.9 - - + -
115C ARG* 3.7 24.7 - - + +
117C LEU* 4.4 7.2 - - + -
122C LEU* 3.7 15.7 - - + +
125C VAL* 4.0 18.8 - - + -
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Residues in contact with TYR 33 (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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31C MET* 4.0 16.8 - - + -
32C LEU* 1.3 73.9 - - - +
34C ALA* 1.3 63.9 + - - +
48C PHE* 4.4 8.5 - + - -
49C SER 3.1 13.5 - - - +
50C VAL* 3.8 17.0 - - + -
114C ALA* 4.3 2.5 - - + -
115C ARG 3.4 26.9 + - - -
116C GLN* 3.4 42.0 + - + +
117C LEU* 2.8 25.6 + - - +
122C LEU* 3.8 4.8 - - - +
180C LEU* 3.6 37.9 + - + +
182C MET* 3.5 30.1 - - + -
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Residues in contact with ALA 34 (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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33C TYR* 1.3 75.7 - - - +
35C ALA* 1.3 62.5 + - - +
48C PHE* 3.3 8.8 - - - +
49C SER* 3.0 30.4 + - - -
116C GLN* 4.9 1.1 - - - -
117C LEU 3.0 22.4 - - - +
118C THR 3.6 4.3 - - - +
119C LEU* 3.5 31.0 - - + +
122C LEU* 4.1 13.7 - - + -
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Residues in contact with ALA 35 (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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71A PHE* 3.4 39.9 - - + -
72A TRP* 3.6 16.9 - - + -
34C ALA* 1.3 74.4 - - - +
36C ASN* 1.3 58.3 + - - +
37C PRO* 3.8 7.4 - - - +
47C ARG 4.3 0.9 - - - +
48C PHE* 3.6 15.0 - - + -
116C GLN* 4.5 12.2 - - - +
117C LEU 4.2 3.2 + - - -
118C THR* 5.7 0.2 - - - +
119C LEU* 4.0 15.6 + - - +
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Residues in contact with ASN 36 (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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68A ASP* 4.1 0.5 - - - +
70A ARG* 3.1 16.9 + - - -
34C ALA 3.4 0.8 + - - +
35C ALA* 1.3 73.7 - - - +
37C PRO* 1.3 66.0 - - - +
38C GLY* 3.1 6.1 + - - +
46C MET* 3.0 46.7 - - + +
47C ARG 2.8 31.4 + - - +
48C PHE* 4.0 10.3 - - - +
49C SER* 3.0 23.1 + - - +
119C LEU* 3.7 22.3 - - + +
144C ARG* 4.2 6.1 - - - +
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Residues in contact with PRO 37 (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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68A ASP* 3.7 26.9 - - + +
72A TRP* 3.8 31.4 - - + -
80A ARG* 3.8 41.2 + - - +
35C ALA 3.8 7.9 - - - +
36C ASN* 1.3 86.6 - - - +
38C GLY* 1.3 65.1 + - - +
39C GLN* 5.5 0.7 - - - +
119C LEU* 4.2 12.1 - - + -
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Residues in contact with GLY 38 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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80A ARG* 4.4 12.3 - - - -
36C ASN* 3.1 9.0 + - - +
37C PRO* 1.3 84.7 - - - +
39C GLN* 1.3 62.2 + - - +
45C PRO* 3.8 2.9 - - - +
46C MET* 3.1 39.3 + - - +
47C ARG 4.5 0.2 + - - -
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Residues in contact with GLN 39 (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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66A PHE* 6.2 1.8 - - - +
80A ARG* 6.4 0.2 - - - +
37C PRO 5.5 0.7 - - - +
38C GLY* 1.3 76.1 - - - +
40C LEU* 1.3 61.6 + - - +
41C PHE 3.9 1.4 + - - -
42C GLY* 3.4 37.7 + - - +
43C ARG* 3.8 5.5 + - - -
44C ILE 3.1 20.4 - - - +
45C PRO* 4.1 5.4 - - + +
46C MET* 3.6 8.2 - - - +
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Residues in contact with LEU 40 (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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39C GLN* 1.3 69.4 - - - +
41C PHE* 1.3 115.0 + - + +
42C GLY 3.0 2.2 + - - -
43C ARG 3.1 0.2 + - - -
44C ILE* 2.7 46.4 + - + +
46C MET* 4.2 15.1 - - + +
148C TYR* 3.6 35.4 - - + +
150C GLN* 5.5 2.0 - - - +
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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