Contacts of the helix formed by residues 17 - 33 (chain K) in PDB entry 6ASX
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 PHE 17 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1282I GLY* 3.5 33.0 - - - -
483J LEU* 4.5 15.0 - - + -
905J ARG* 4.9 4.7 - - - -
910J ASN* 4.1 22.4 - - + -
911J LYS 5.7 4.0 - - - +
913J GLU* 4.3 31.4 - - + -
1360J GLY* 3.6 33.4 - - - +
1361J THR* 4.1 14.0 + - - +
15K ASN* 3.0 30.8 - - - +
16K ARG* 1.3 89.1 - - + +
18K ASP* 1.3 64.4 + - - +
19K LEU 3.2 1.5 + - - -
20K VAL* 3.9 12.8 + - + +
21K LEU* 3.9 17.2 + - - +
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Residues in contact with ASP 18 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1364J ALA* 5.0 7.8 - - - +
13K ILE* 3.8 21.5 - - + +
15K ASN* 3.0 32.1 + - + +
17K PHE* 1.3 78.5 - - - +
19K LEU* 1.3 58.8 + - - +
20K VAL 3.3 0.2 - - - -
21K LEU* 3.3 14.0 + - - +
22K VAL* 3.0 37.1 + - + +
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Residues in contact with LEU 19 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
482J ALA* 4.6 16.6 - - + -
6K VAL* 4.6 4.0 - - + -
9K ALA* 3.7 25.8 - - + +
10K VAL* 4.1 20.4 - - + -
13K ILE* 3.8 35.6 - - + +
16K ARG* 4.5 15.0 - - - +
17K PHE 3.2 1.0 - - - +
18K ASP* 1.3 79.0 - - - +
20K VAL* 1.3 56.6 + - + +
22K VAL* 3.9 0.3 - - - -
23K ALA* 2.9 33.5 + - - +
51K LEU* 3.9 21.5 - - + -
54K ILE* 3.8 21.1 - - + -
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Residues in contact with VAL 20 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1285I TYR* 5.5 0.9 - - + -
475J GLU* 4.2 8.5 - - + +
478J LEU* 4.1 15.4 - - + +
479J GLU* 3.7 40.8 - - + +
482J ALA* 3.8 28.0 - - + -
483J LEU* 4.8 7.4 - - + -
1361J THR* 4.9 12.6 - - + +
16K ARG 4.3 12.3 - - - +
17K PHE* 3.9 9.1 + - + +
18K ASP 3.3 0.2 - - - -
19K LEU* 1.3 76.8 - - - +
21K LEU* 1.3 58.6 + - + +
23K ALA* 3.8 4.0 - - - +
24K ALA* 2.9 31.4 + - + +
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Residues in contact with LEU 21 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1285I TYR* 3.9 23.1 - - + +
1361J THR* 3.8 32.1 - - + +
1364J ALA* 3.9 28.0 - - + -
1365J TYR 5.6 0.2 - - - +
17K PHE 3.9 11.0 + - - +
18K ASP* 3.3 15.0 + - - +
19K LEU 3.3 0.2 - - - -
20K VAL* 1.3 78.2 - - + +
22K VAL* 1.3 58.5 + - + +
24K ALA* 3.7 6.5 - - + +
25K ARG* 3.0 29.5 + - - +
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Residues in contact with VAL 22 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13K ILE* 4.4 18.2 - - + -
18K ASP* 3.0 26.3 + - + +
19K LEU 4.2 2.2 - - - +
21K LEU* 1.3 77.9 - - + +
23K ALA* 1.3 59.1 + - - +
25K ARG* 3.4 8.0 + - - +
26K ARG* 3.0 26.9 + - - +
54K ILE* 4.4 4.9 - - + -
59K ILE* 4.3 9.2 - - + -
60K ASN* 4.0 18.6 - - - -
61K ASN* 4.3 28.7 - - + +
64K LEU* 3.8 20.2 - - + +
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Residues in contact with ALA 23 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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478J LEU* 3.5 28.7 - - + +
19K LEU* 2.9 21.2 + - + +
20K VAL 4.0 0.7 - - - +
22K VAL* 1.3 78.9 - - - +
24K ALA* 1.3 56.3 + - - +
26K ARG* 3.4 6.7 + - - +
27K ALA* 2.9 31.4 + - - +
50K ALA* 4.0 12.0 - - + +
51K LEU* 4.1 16.2 - - + -
54K ILE* 5.3 4.5 - - + -
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Residues in contact with ALA 24 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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474J LEU* 4.3 2.8 - - + +
475J GLU* 3.7 36.3 - - + +
478J LEU* 3.5 13.4 - - + +
20K VAL* 2.9 19.0 + - + +
21K LEU* 3.7 8.7 - - + +
23K ALA* 1.3 74.6 - - - +
25K ARG* 1.3 59.7 + - - +
27K ALA* 3.8 2.3 - - - +
28K ARG* 2.9 37.0 + - - +
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Residues in contact with ARG 25 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21K LEU 3.0 16.6 + - - +
22K VAL* 3.7 6.2 - - - +
24K ALA* 1.3 76.7 - - - +
26K ARG* 1.3 61.6 + - - +
28K ARG* 3.5 8.2 + - - +
29K GLN* 3.0 29.6 + - + +
61K ASN* 3.0 27.5 + - - -
64K LEU* 3.7 27.1 - - + +
65K ASP* 2.6 28.4 + - - +
68K GLU* 2.8 40.9 + - - +
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Residues in contact with ARG 26 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22K VAL 3.0 17.6 + - - +
23K ALA* 3.8 4.9 - - - +
25K ARG* 1.3 78.3 - - - +
27K ALA* 1.3 56.7 + - - +
29K GLN* 2.9 33.2 + - - +
30K MET* 3.0 49.2 + - + +
35K LYS* 3.3 23.0 - - - +
36K ASP 3.5 23.4 + - - -
37K PRO* 4.1 0.4 - - - +
38K LEU* 3.9 16.8 - - - +
50K ALA* 4.1 17.0 - - + +
53K GLU* 3.3 29.3 + - - +
54K ILE* 6.1 1.6 - - + -
59K ILE* 4.8 20.1 - - + +
64K LEU* 4.6 13.0 - - + +
67K ARG* 4.8 5.3 - - - +
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Residues in contact with ALA 27 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
474J LEU* 3.7 26.7 - - + -
478J LEU* 4.8 1.8 - - + -
23K ALA 2.9 18.2 + - - +
24K ALA 4.1 0.4 - - - +
26K ARG* 1.3 76.8 - - - +
28K ARG* 1.3 57.9 + - - +
30K MET* 3.2 10.9 + - - +
31K GLN* 2.9 32.4 + - - +
46K THR* 4.1 26.7 + - - +
47K THR* 4.5 2.9 - - - +
50K ALA* 4.6 2.2 - - + -
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Residues in contact with ARG 28 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1312I ASN* 4.5 4.4 + - - -
1313I HIS 3.2 27.3 + - - -
1314I GLN* 3.3 43.6 + - - +
1315I MET* 4.5 3.4 - - - +
473J THR* 3.8 1.0 + - - -
474J LEU* 3.9 12.9 - - + +
475J GLU* 2.7 43.4 + - - -
24K ALA* 2.9 21.6 + - - +
25K ARG* 3.8 7.0 - - - +
27K ALA* 1.3 74.8 - - - +
29K GLN* 1.3 64.1 + - - +
31K GLN* 4.6 1.8 - - - +
32K VAL* 3.6 32.6 + - + +
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Residues in contact with GLN 29 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25K ARG* 3.0 19.5 + - + +
26K ARG* 2.9 36.6 + - - +
28K ARG* 1.3 79.0 - - - +
30K MET* 1.3 58.9 + - - +
33K GLY 3.6 0.2 + - - -
34K GLY* 2.7 38.1 + - - +
35K LYS* 3.0 24.8 + - - +
64K LEU* 4.0 22.5 + - - +
67K ARG* 6.4 0.4 - - - +
68K GLU* 3.2 37.2 + - - +
71K GLU* 5.6 0.6 + - - -
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Residues in contact with MET 30 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26K ARG* 3.0 53.4 + - + +
27K ALA* 3.2 5.6 + - - +
29K GLN* 1.3 80.2 - - - +
31K GLN* 1.3 64.0 + - - +
33K GLY* 3.8 7.8 + - - -
35K LYS 4.4 17.5 - - - +
37K PRO* 4.1 20.2 - - + -
46K THR* 3.3 43.5 - - + +
49K ILE* 3.7 29.8 - - + -
50K ALA* 4.0 6.3 - - + +
53K GLU* 4.4 0.9 - - - +
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Residues in contact with GLN 31 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1311I GLY* 2.4 37.5 + - - +
1312I ASN* 4.5 2.0 - - - -
1313I HIS* 3.1 48.1 + - - +
474J LEU* 4.1 15.2 - - - +
27K ALA 2.9 15.5 + - - +
28K ARG* 5.0 0.9 - - - -
30K MET* 1.3 78.9 - - - +
32K VAL* 1.3 70.6 + - + +
33K GLY* 3.3 1.4 + - - -
46K THR* 4.6 18.3 + - + +
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Residues in contact with VAL 32 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1312I ASN* 3.4 37.0 - - - +
1314I GLN* 5.4 2.7 - - - +
28K ARG* 3.6 26.5 + - + +
31K GLN* 1.3 78.5 - - + +
33K GLY* 1.3 58.8 + - - +
34K GLY 5.3 0.2 - - - +
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Residues in contact with GLY 33 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29K GLN 3.6 2.2 + - - -
30K MET 4.1 7.6 - - - -
31K GLN 3.2 3.5 - - - -
32K VAL* 1.3 81.1 - - - +
34K GLY* 1.3 68.0 + - - +
35K LYS 3.6 3.8 - - - -
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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
------------------------------------------------------------
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