Contacts of the helix formed by residues 17 - 33 (chain A) in PDB entry 1FLZ
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 GLN 17 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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13A GLU* 2.4 61.2 + - - +
14A GLU* 2.9 28.8 - - + +
15A LYS 2.7 11.5 + - - -
16A GLN* 1.3 89.0 + - - +
18A PRO* 1.3 81.6 - - + +
19A HIS* 3.8 16.2 - - + -
20A PHE* 3.6 3.1 + - - +
21A LEU* 3.0 21.6 + - - +
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Residues in contact with PRO 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A GLN 4.2 3.4 - - - +
17A GLN* 1.3 93.2 - - + +
19A HIS* 1.3 58.9 + - - +
20A PHE 2.3 20.1 + - - -
21A LEU* 2.5 13.2 + - + -
22A ASN* 3.2 19.0 + - - +
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Residues in contact with HIS 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A GLU* 2.6 31.8 + - + -
17A GLN* 3.8 19.8 - - + +
18A PRO* 1.3 78.9 - - - +
20A PHE* 1.3 82.0 + - + +
22A ASN* 3.3 16.6 + - - +
23A THR* 3.4 11.6 + - - -
140A GLY* 4.6 10.6 + - - -
143A THR* 3.4 41.6 + - + +
144A PHE* 4.9 1.7 + - - -
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Residues in contact with PHE 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14A GLU* 4.0 11.7 - - - +
15A LYS* 3.5 35.2 - - + -
17A GLN 3.7 7.0 - - - +
18A PRO 2.3 7.7 + - - -
19A HIS* 1.3 86.4 - - + +
21A LEU* 1.3 57.6 + - + +
23A THR* 2.3 46.3 + - + +
24A LEU* 3.2 29.1 + - + -
45A PHE* 3.4 31.6 - + - -
140A GLY 5.4 2.2 - - - -
141A TRP* 4.6 5.2 - + - -
144A PHE* 3.2 51.6 - + + -
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Residues in contact with LEU 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A LYS 3.6 19.1 - - - +
16A GLN* 5.3 11.7 - - - +
17A GLN 3.0 20.1 + - - +
18A PRO* 2.5 12.3 + - + +
20A PHE* 1.3 79.3 - - + +
22A ASN* 1.3 60.1 + - - +
23A THR 2.8 6.1 + - - -
24A LEU* 3.1 23.9 + - + +
25A GLN* 2.9 37.3 + - - +
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Residues in contact with ASN 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A PRO* 3.2 25.1 + - - +
19A HIS* 3.5 12.7 - - - +
20A PHE 2.8 4.0 + - - -
21A LEU* 1.3 75.1 - - - +
23A THR* 1.3 55.4 + - - +
25A GLN* 3.7 21.3 + - - +
26A THR* 3.5 20.1 - - - +
140A GLY 5.4 0.5 + - - -
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Residues in contact with THR 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A HIS 3.7 5.2 - - - -
20A PHE* 2.3 32.1 + - + +
22A ASN* 1.3 69.4 + - - +
24A LEU* 1.3 73.8 + - + +
25A GLN 3.1 0.2 - - - -
26A THR* 2.5 20.0 + - - -
27A VAL* 2.8 20.6 - - - +
139A LEU* 3.1 10.4 - - - +
140A GLY* 2.4 41.0 + - - +
141A TRP* 4.2 28.7 - - + +
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Residues in contact with LEU 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20A PHE* 3.8 42.4 - - + +
21A LEU* 3.6 22.2 - - + +
23A THR* 1.3 92.4 - - + +
25A GLN* 1.3 55.8 + - + +
27A VAL* 2.9 8.1 - - + +
28A ALA* 2.4 39.5 + - + +
45A PHE* 5.0 5.6 - - + -
141A TRP* 4.7 11.2 - - + -
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Residues in contact with GLN 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A LEU* 2.9 37.1 + - - +
22A ASN* 3.7 24.2 + - - +
24A LEU* 1.3 74.6 - - + +
26A THR* 1.3 66.7 + - - +
27A VAL 2.9 0.9 - - - -
28A ALA* 4.5 5.6 - - - +
29A SER* 3.0 28.1 + - - -
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Residues in contact with THR 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A ASN 3.5 16.6 - - - +
23A THR* 2.5 31.6 + - - +
25A GLN* 1.3 77.4 - - + +
27A VAL* 1.3 64.5 + - - +
29A SER* 3.9 2.1 - - - -
30A GLU* 3.4 26.6 + - - +
136A HIS* 6.3 0.2 - - - -
139A LEU* 3.6 34.5 - - + +
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Residues in contact with VAL 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A THR 2.8 19.5 - - - +
24A LEU* 2.9 13.1 + - + +
26A THR* 1.3 83.8 + - - +
28A ALA* 1.3 74.7 + - - +
29A SER 2.4 4.8 + - - -
30A GLU* 3.1 9.3 + - - +
31A ARG* 3.4 37.2 + - + +
37A ILE* 5.5 3.1 - - + -
41A GLN* 6.1 0.7 - - + -
44A VAL* 5.9 0.9 - - + -
127A THR* 4.1 15.5 - - + +
136A HIS* 5.2 7.4 - - + -
139A LEU* 4.3 5.4 - - + -
141A TRP* 3.9 29.8 - - + +
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Residues in contact with ALA 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24A LEU* 2.4 28.9 + - + +
25A GLN* 4.3 4.5 - - - +
27A VAL* 1.3 75.4 - - - +
29A SER* 1.3 66.9 + - - +
31A ARG* 3.5 10.6 + - - +
32A GLN* 3.1 23.6 + - - +
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Residues in contact with SER 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A GLN* 3.0 17.9 + - - -
26A THR* 4.0 3.1 - - - -
27A VAL 2.4 8.3 + - - -
28A ALA* 1.3 70.5 - - - +
30A GLU* 1.3 53.0 + - - +
32A GLN* 2.3 57.1 + - - +
33A SER* 3.1 6.0 + - - -
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Residues in contact with GLU 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A THR 3.4 13.2 + - - +
27A VAL 3.1 5.2 + - - +
29A SER* 1.3 72.2 - - - +
31A ARG* 1.3 62.5 + - - +
33A SER* 2.9 20.9 + - - +
35A VAL* 3.2 25.4 - - + +
37A ILE* 3.1 10.6 - - - +
129A ARG* 2.3 55.8 + - - +
136A HIS* 2.6 28.0 + - - -
139A LEU* 5.8 1.7 - - - +
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Residues in contact with ARG 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A VAL* 3.4 27.7 + - + +
28A ALA* 3.6 11.9 - - - +
29A SER 2.7 3.0 + - - -
30A GLU* 1.3 74.7 - - - +
32A GLN* 1.3 58.4 + - - +
34A GLY* 3.2 22.0 + - - +
35A VAL 3.5 11.8 - - - +
37A ILE* 3.0 65.8 + - + +
39A PRO 2.8 20.8 + - - -
40A PRO* 4.4 2.1 - - - +
41A GLN* 3.0 37.8 - - - +
44A VAL* 3.6 11.5 - - - +
127A THR* 4.6 4.2 - - - +
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Residues in contact with GLN 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A ALA* 3.2 13.4 + - - +
29A SER* 2.3 44.6 + - - +
31A ARG* 1.3 67.2 - - - +
33A SER* 1.3 56.4 + - - +
34A GLY* 2.9 10.4 + - - -
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Residues in contact with SER 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A SER* 3.1 7.6 + - - -
30A GLU* 2.9 20.5 + - - +
32A GLN* 1.3 75.9 + - - +
34A GLY* 1.3 53.3 + - - +
35A VAL* 3.2 16.0 + - - +
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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