Contacts of the helix formed by residues 21 - 41 (chain B) in PDB entry 2CT8
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 HIS 21 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19B VAL* 4.6 4.1 + - + +
20B PRO* 1.3 75.7 - - - +
22B LEU* 1.3 67.2 + - - +
23B GLY* 2.8 32.4 + - - -
24B HIS* 2.8 43.0 + + - +
25B ALA* 3.3 17.7 + - - +
83B LEU* 4.8 0.3 - - - +
296B MET* 4.5 12.5 - - + -
303B VAL* 3.5 34.4 - - + +
304B VAL 4.2 2.0 - - - -
306B PRO* 3.8 10.7 - - - +
1501B MSP 3.3 26.8 + + - -
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Residues in contact with LEU 22 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B HIS* 1.3 75.7 - - - +
23B GLY* 1.3 58.1 + - - +
25B ALA* 3.3 11.4 + - + -
26B TYR* 2.9 27.2 + - + +
289B TRP* 5.4 11.0 - - + -
296B MET* 3.5 18.6 - - + +
304B VAL* 3.4 38.3 + - + +
306B PRO* 3.9 6.7 - - + +
309B VAL* 5.0 11.4 - - + -
318B VAL* 5.3 3.4 - - + -
322B LEU* 4.0 28.9 - - + -
334B PHE* 3.9 32.3 - - + -
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Residues in contact with GLY 23 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B HIS* 2.8 23.0 - - - -
22B LEU* 1.3 73.4 - - - +
24B HIS* 1.3 61.8 + - - -
26B TYR* 2.9 22.0 + - - +
27B THR* 3.3 9.9 + - - -
289B TRP* 5.9 1.8 - - - -
296B MET* 4.5 2.6 - - - -
1501B MSP 3.5 36.6 - - - -
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Residues in contact with HIS 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B TYR* 3.1 45.6 + + + -
15B TYR 5.2 2.1 + - - -
18B ASP 5.9 0.7 - - - -
19B VAL 4.0 4.5 - - - -
20B PRO* 3.3 12.9 - - + +
21B HIS* 2.8 63.6 + + - +
23B GLY* 1.3 74.5 - - - +
25B ALA* 1.3 61.2 + - - +
27B THR 3.5 0.2 + - - -
28B THR* 3.1 23.4 + - - -
80B PHE* 3.9 22.9 - + + -
84B TRP* 3.9 5.2 - - + -
1501B MSP 3.7 25.4 + + - -
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Residues in contact with ALA 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B HIS 3.3 9.7 + - - +
22B LEU* 3.3 20.4 + - + +
23B GLY 3.1 0.8 - - - -
24B HIS* 1.3 77.2 - - - +
26B TYR* 1.3 56.1 + - - +
28B THR* 3.8 0.9 - - - -
29B ILE* 2.7 43.8 + - + +
83B LEU* 4.6 4.5 - - + -
84B TRP* 3.8 14.3 - - + -
87B LEU* 4.0 22.4 - - + -
306B PRO* 4.6 5.4 - - + -
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Residues in contact with TYR 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 2.9 13.6 + - + +
23B GLY* 2.9 11.2 + - - +
25B ALA* 1.3 76.0 - - - +
27B THR* 1.3 62.3 + - - +
29B ILE* 3.2 7.6 + - + +
30B ALA* 3.1 19.2 + - - +
286B HIS* 3.4 43.4 - + + +
287B GLY 4.1 3.7 + - - -
289B TRP* 3.2 39.6 + + + -
322B LEU* 3.4 47.4 + - + -
323B LEU* 4.4 7.0 - - + -
326B VAL* 5.2 4.2 + - - +
328B PHE* 3.2 35.7 - + - -
329B GLY 5.3 0.7 + - - -
330B GLN 5.4 2.8 + - - -
1501B MSP 4.0 3.8 - + - -
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Residues in contact with THR 27 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B THR* 4.5 2.2 - - - -
12B PRO* 3.5 29.4 - - + -
14B TYR* 3.3 12.3 - - - +
23B GLY 3.3 8.9 + - - -
24B HIS 4.0 1.6 - - - -
26B TYR* 1.3 76.6 - - - +
28B THR* 1.3 63.2 + - - +
30B ALA* 3.2 8.1 + - + +
31B ALA* 3.0 20.8 + - - +
255B LEU* 3.9 20.0 - - + +
286B HIS* 2.7 37.8 + - + -
1501B MSP 3.9 10.6 + - - -
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Residues in contact with THR 28 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B THR* 4.0 11.6 - - + +
14B TYR* 2.9 19.1 + - - -
24B HIS 3.1 11.1 + - - -
25B ALA 3.8 2.2 - - - -
27B THR* 1.3 74.0 - - - +
29B ILE* 1.3 55.8 + - - +
31B ALA* 3.1 2.1 + - - +
32B ASP* 2.7 32.7 + - - +
47B PHE* 4.2 8.7 - - + -
49B THR* 4.2 6.4 + - - +
84B TRP* 3.3 39.0 - - + -
89B ILE* 3.8 27.6 - - + -
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Residues in contact with ILE 29 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B ALA* 2.7 34.6 + - + +
26B TYR* 3.4 10.3 - - + +
28B THR* 1.3 73.0 - - - +
30B ALA* 1.3 56.6 + - - +
32B ASP* 2.9 8.8 + - - +
33B THR* 2.7 39.9 + - + +
87B LEU* 4.3 16.2 - - + -
89B ILE* 4.0 20.6 - - + -
315B LEU* 5.6 1.1 - - + -
318B VAL* 5.9 2.5 - - + -
319B ARG* 4.0 45.1 - - + +
322B LEU* 4.6 14.4 - - + -
323B LEU* 4.2 16.4 - - + -
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Residues in contact with ALA 30 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B TYR* 3.1 8.7 + - + +
27B THR* 3.5 9.9 - - - +
29B ILE* 1.3 78.6 - - - +
31B ALA* 1.3 65.3 + - - +
33B THR* 3.0 11.3 - - - +
34B ILE* 3.0 24.3 + - - +
255B LEU* 3.9 7.0 - - + -
323B LEU* 4.2 6.5 - - + +
328B PHE* 3.8 22.7 - - + -
398B PHE* 3.6 25.5 - - + -
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Residues in contact with ALA 31 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B VAL* 4.2 9.0 - - + +
11B THR* 3.5 29.8 - - + -
27B THR 3.0 8.5 + - - +
28B THR 3.1 6.9 + - - +
30B ALA* 1.3 75.7 - - - +
32B ASP* 1.3 52.8 + - - +
34B ILE* 2.9 8.2 - - - +
35B ALA* 2.8 35.0 + - - +
47B PHE* 3.6 12.3 - - + -
255B LEU* 3.2 21.7 - - + +
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Residues in contact with ASP 32 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B THR 2.7 15.9 + - - +
29B ILE 3.2 8.7 - - - +
31B ALA* 1.3 73.1 - - - +
33B THR* 1.3 56.7 + - - +
35B ALA* 3.2 3.6 + - - +
36B ARG* 2.8 50.4 + - - +
47B PHE* 3.2 17.1 - - + -
89B ILE* 3.6 14.9 - - + +
90B GLU* 2.9 33.2 + - - +
319B ARG* 2.6 39.8 + - - +
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Residues in contact with THR 33 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B ILE* 2.7 20.6 + - + +
30B ALA* 3.0 22.2 - - - +
32B ASP* 1.3 70.6 - - - +
34B ILE* 1.3 63.8 + - - +
36B ARG* 3.3 2.0 + - - +
37B TYR* 3.0 20.1 + - - +
319B ARG* 3.6 7.2 - - - +
323B LEU* 3.4 23.5 - - + +
393B MET* 5.4 1.4 - - - -
398B PHE* 4.0 13.2 - - + -
453B PRO* 3.3 42.1 + - - +
454B ILE* 3.8 6.8 + - - +
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Residues in contact with ILE 34 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B PHE* 4.2 16.4 - - + -
9B VAL* 3.9 21.3 - - + -
30B ALA 3.0 16.1 + - - +
31B ALA* 2.9 25.4 - - - +
33B THR* 1.3 78.7 + - - +
35B ALA* 1.3 61.3 + - - +
37B TYR* 3.5 13.1 - - + +
38B TYR* 3.3 36.8 + - + -
253B LEU* 4.4 15.5 - - + -
255B LEU* 4.4 1.3 - - + -
393B MET* 3.9 27.4 - - + +
394B GLU* 5.7 0.7 - - - +
396B VAL* 5.1 6.1 - - + -
398B PHE* 4.4 15.5 - - + -
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Residues in contact with ALA 35 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B PHE* 4.9 2.5 - - - -
9B VAL* 4.3 6.5 - - + -
31B ALA 2.8 13.2 + - - +
32B ASP 3.3 9.2 - - - +
33B THR 3.1 0.2 - - - -
34B ILE* 1.3 79.5 - - - +
36B ARG* 1.3 57.4 + - - +
38B TYR* 3.1 5.7 + - - +
39B ARG* 2.9 36.8 + - - +
45B VAL* 4.2 14.3 - - + +
47B PHE* 3.7 31.2 - - + -
90B GLU 5.4 0.7 - - - +
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Residues in contact with ARG 36 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B ASP* 2.8 40.4 + - - +
33B THR 3.7 5.4 - - - +
35B ALA* 1.3 74.7 - - + +
37B TYR* 1.3 66.9 + - - +
39B ARG* 4.4 11.9 - - - +
40B LEU* 2.9 27.4 + - - +
88B LYS 3.2 24.9 + - - -
90B GLU* 3.2 43.3 + - + +
452B TYR* 2.8 39.4 + - + +
453B PRO* 3.7 25.8 - - + -
456B PRO* 3.7 27.8 - - - +
457B ASN* 5.8 1.0 + - - -
460B LYS* 4.5 3.8 - - - +
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Residues in contact with TYR 37 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33B THR 3.0 13.9 + - - +
34B ILE* 3.5 17.5 - - + +
35B ALA 3.3 0.2 - - - -
36B ARG* 1.3 78.5 - - - +
38B TYR* 1.3 100.8 + + - +
40B LEU* 3.6 0.2 - - - +
41B ARG* 2.8 71.1 + - + +
389B TYR* 4.1 11.2 - + - -
390B GLU* 2.9 29.6 + - + +
393B MET* 3.3 37.2 - - + -
394B GLU* 3.3 19.3 + - - -
453B PRO* 3.7 15.0 - - + +
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Residues in contact with TYR 38 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B PHE* 3.4 46.2 - + + -
34B ILE* 3.3 30.0 + - + -
35B ALA 3.1 7.0 + - - +
36B ARG 3.1 0.4 - - - -
37B TYR* 1.3 101.2 - + - +
39B ARG* 1.3 66.2 + - - +
40B LEU 3.1 1.8 - - - -
41B ARG* 2.8 16.3 + - - +
42B ASP 3.3 0.2 + - - -
43B TYR* 3.2 60.0 + + + -
45B VAL* 3.8 14.1 - - + -
394B GLU* 3.8 33.6 + - + +
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Residues in contact with ARG 39 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ALA* 2.9 27.9 + - - +
36B ARG* 3.9 10.8 - - - +
38B TYR* 1.3 71.6 - - - +
40B LEU* 1.3 64.7 + - - +
42B ASP* 2.8 16.3 + - - -
43B TYR 4.2 6.9 - - - +
45B VAL* 3.5 44.5 + - + +
47B PHE* 3.9 10.7 - - - +
90B GLU* 2.8 48.7 + - - +
91B TYR 4.2 1.0 - - - -
92B THR* 3.6 19.6 + - - +
452B TYR* 6.2 0.9 - - + -
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Residues in contact with LEU 40 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ARG 2.9 18.0 + - - +
37B TYR 3.6 4.0 - - - +
39B ARG* 1.3 78.7 - - - +
41B ARG* 1.3 83.4 + - - +
42B ASP* 3.1 4.3 + - - -
449B HIS* 4.4 13.7 - - - +
452B TYR* 3.3 40.3 - - + -
453B PRO* 5.0 2.0 - - + -
471B PHE* 4.3 19.7 - - + -
472B LEU 3.8 17.4 - - - +
473B LYS* 3.7 18.9 - - - +
475B LEU* 4.1 15.7 - - + -
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Residues in contact with ARG 41 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B LYS* 3.9 11.6 + - - -
37B TYR* 2.8 81.7 + - + +
38B TYR* 2.8 11.2 + - - +
40B LEU* 1.3 98.5 - - - +
42B ASP* 1.3 68.9 + - - +
43B TYR* 3.5 22.8 + - + -
389B TYR* 3.7 13.7 - - - -
390B GLU* 3.1 33.3 + - - +
449B HIS 5.7 2.0 + - - -
453B PRO* 5.0 2.2 - - - +
473B LYS* 3.7 23.0 - - - +
474B GLU* 5.5 0.9 - - - +
475B LEU* 4.3 11.3 - - - +
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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