Contacts of the strand formed by residues 53 - 77 (chain A) in PDB entry 4EWS
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 GLY 53 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ALA* 3.9 11.9 - - - -
49A MET 2.9 29.9 + - - -
51A LEU 3.8 1.0 - - - -
52A LEU* 1.3 79.3 - - - +
54A GLN* 1.4 64.3 + - - -
55A VAL* 3.4 4.3 + - - +
103A THR* 3.2 8.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 54 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLU* 3.3 33.8 + - + +
47A LYS* 3.3 20.6 - - - +
48A ALA* 3.2 28.5 + - - +
52A LEU 4.6 1.2 - - - +
53A GLY* 1.4 69.0 - - - -
55A VAL* 1.4 58.7 + - - +
101A TYR* 3.7 1.2 - - - -
102A THR* 2.8 50.4 + - + +
103A THR* 2.7 26.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 55 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLU* 4.1 2.5 - - - -
47A LYS 3.2 25.8 + - - +
49A MET* 3.7 27.3 - - + +
52A LEU* 4.3 8.3 - - + +
53A GLY 3.9 4.0 - - - +
54A GLN* 1.4 76.3 - - - +
56A LYS* 1.4 61.3 + - - +
57A TYR* 3.5 9.8 - - + -
99A TYR* 4.4 9.2 - - + -
100A GLY 3.4 10.1 - - - +
101A TYR* 3.7 25.8 - - + -
162A TRP* 3.7 43.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 56 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A GLY 3.6 11.7 - - - +
46A GLU* 3.4 29.6 - - + +
55A VAL* 1.4 69.4 - - - +
57A TYR* 1.3 64.0 + - - +
98A LYS 4.1 0.2 - - - +
99A TYR* 3.1 5.4 - - - +
100A GLY* 3.0 34.4 + - - +
102A THR* 3.6 9.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 57 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ILE* 4.5 5.2 - - + -
44A THR* 3.5 13.5 + - - -
45A GLY* 3.0 53.6 + - - +
46A GLU 3.7 3.6 - - - -
47A LYS* 3.4 35.6 + - + +
49A MET* 4.1 4.7 - - + -
55A VAL 3.5 13.9 - - - -
56A LYS* 1.3 79.3 + - - +
58A GLY* 1.3 63.1 - - - +
59A LEU* 5.1 1.6 - - + -
97A LEU* 4.4 8.3 - - + -
98A LYS 3.3 10.1 - - - +
99A TYR* 4.0 9.6 - - + -
162A TRP* 4.4 7.9 - - + -
166A LEU* 3.7 37.5 - - + +
170A PHE* 5.1 1.7 - - - +
171A ILE* 4.1 23.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 58 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ILE 3.4 10.1 - - - -
44A THR* 3.8 5.8 - - - -
57A TYR* 1.3 78.0 - - - +
59A LEU* 1.3 65.3 + - - -
60A HIS* 3.3 24.6 - - - -
96A THR 3.4 1.2 - - - +
97A LEU* 3.4 3.3 - - - +
98A LYS 2.8 35.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 59 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ASP* 3.3 8.5 - - - +
43A ILE* 2.8 46.1 + - + +
57A TYR* 5.1 1.8 - - + -
58A GLY* 1.3 69.9 - - - -
60A HIS* 1.3 59.0 + - - +
62A ILE* 4.0 13.4 - - + +
96A THR 3.6 3.1 - - - -
97A LEU* 3.9 21.5 - - + -
115A PHE* 3.7 31.6 - - + -
117A ILE* 4.1 17.9 - - + -
152A LEU* 5.3 5.8 - - + -
167A PHE* 5.1 5.2 - - + -
171A ILE* 3.9 42.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 60 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ASP* 2.8 27.9 + - + +
44A THR* 3.7 26.7 - - + -
58A GLY* 3.3 29.9 - - - -
59A LEU* 1.3 73.1 - - - +
61A ASN* 1.4 69.5 + - + +
62A ILE* 3.4 3.0 + - - -
95A GLY* 3.4 2.3 - - - -
96A THR* 2.8 38.6 + - - +
98A LYS* 3.8 34.8 - - + +
115A PHE* 4.5 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 61 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ASP* 3.5 11.7 + - - -
60A HIS* 1.4 78.4 - - + +
62A ILE* 1.4 65.5 + - - +
63A GLN* 3.0 37.9 + - - +
94A LYS* 3.3 12.7 - - - +
95A GLY* 3.6 6.5 - - - -
96A THR* 5.0 7.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 62 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 3.6 42.2 + - + +
41A PRO 3.9 21.3 - - - +
42A ASP* 4.8 2.0 + - - -
43A ILE* 4.0 23.8 - - + -
59A LEU* 4.0 24.5 - - + +
60A HIS 4.5 0.4 - - - +
61A ASN* 1.4 71.7 - - - +
63A GLN* 1.4 66.3 + - - +
93A PHE* 4.0 33.7 - - + -
94A LYS 3.3 5.6 - - - +
115A PHE* 4.2 20.6 - - + -
117A ILE* 5.6 2.5 - - + -
175A LEU* 4.9 12.3 - - + -
179A LEU* 6.2 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 63 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 5.0 2.2 - - - -
61A ASN* 3.0 46.0 + - - +
62A ILE* 1.4 81.0 + - - +
64A ILE* 1.4 64.6 + - - +
93A PHE* 3.3 6.3 - - - -
94A LYS* 2.8 50.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 64 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A PHE* 3.3 47.3 - - + +
36A GLN* 4.1 11.2 - - + +
40A TYR* 3.3 24.7 - - + +
63A GLN* 1.4 76.8 - - - +
65A SER* 1.4 58.4 + - - +
66A HIS 3.4 28.9 - - - +
67A LEU* 4.4 10.5 - - + -
91A VAL* 3.8 10.1 - - + -
92A VAL 3.6 6.7 - - - +
93A PHE* 4.2 11.4 - - + +
94A LYS* 5.5 1.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 65 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A GLN 3.8 0.6 + - - -
64A ILE* 1.4 73.1 - - - +
66A HIS* 1.3 58.6 + - - +
92A VAL* 2.6 35.4 + - - +
94A LYS* 4.3 29.4 - - - +
116A GLU* 3.9 9.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 66 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ILE* 3.4 11.6 - - - +
65A SER* 1.3 83.0 + - - +
67A LEU* 1.3 74.3 + - - +
68A SER* 3.7 22.2 - - - -
90A SER* 3.6 28.9 + - - -
91A VAL* 3.6 2.8 - - - -
92A VAL* 3.0 45.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 67 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLN* 3.8 38.5 + - + +
35A PHE* 3.5 32.1 - - + -
36A GLN* 4.4 11.2 - - + +
64A ILE* 4.4 11.4 - - + -
66A HIS* 1.3 85.6 + - - +
68A SER* 1.3 74.3 + - - +
69A ILE* 3.6 28.0 - - + -
89A VAL* 3.7 16.8 - - + -
90A SER 3.4 5.2 - - - +
91A VAL* 4.5 7.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLN* 6.0 1.6 - - - +
66A HIS* 3.7 16.1 - - - -
67A LEU* 1.3 80.3 - - - +
69A ILE* 1.3 65.6 + - - +
70A ALA* 5.1 0.3 + - - -
88A ASP 3.2 5.4 + - - +
89A VAL* 3.3 1.2 - - - -
90A SER* 2.8 44.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ALA* 3.7 48.2 - - + +
31A ILE* 3.8 17.0 - - + -
32A GLN* 4.1 6.9 - - + +
67A LEU* 3.6 25.4 - - + -
68A SER* 1.3 73.9 - - - +
70A ALA* 1.3 63.5 + - - +
71A SER* 4.0 15.7 - - - +
72A SER* 5.0 2.2 - - - +
86A ILE* 3.4 29.6 - - + -
88A ASP 3.9 2.2 - - - -
89A VAL* 3.7 18.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 70 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A SER* 3.8 0.8 + - - -
69A ILE* 1.3 73.0 - - - +
71A SER* 1.4 66.9 + - - +
87A GLN 3.4 12.7 + - - +
88A ASP* 3.2 32.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ILE* 3.7 6.2 - - - -
70A ALA* 1.4 82.7 - - - +
72A SER* 1.3 62.2 + - - +
73A GLN* 3.6 14.9 + - - +
86A ILE* 3.6 2.3 - - - +
87A GLN* 2.9 41.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ASN* 2.7 58.2 + - - -
27A THR* 3.4 13.3 - - - -
28A ALA* 4.8 3.3 + - - +
69A ILE* 5.2 3.6 - - - -
71A SER* 1.3 75.5 - - - +
73A GLN* 1.3 64.5 + - - +
84A VAL* 5.8 0.9 - - - -
85A SER 3.2 11.4 - - - -
86A ILE* 3.9 17.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ASN* 4.0 6.1 - - - +
71A SER* 3.6 8.9 + - - -
72A SER* 1.3 82.9 + - - +
74A VAL* 1.3 60.8 - - - +
83A ASP 3.7 0.9 - - - +
84A VAL* 3.3 3.8 - - - +
85A SER* 2.8 41.6 + - - +
87A GLN* 2.7 43.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LYS* 3.5 18.4 + - - -
20A LEU* 3.9 44.2 - - + +
21A LEU* 4.5 13.7 - - + +
24A ASN* 4.0 16.8 - - + +
73A GLN* 1.3 74.7 - - - +
75A GLU* 1.3 65.2 + - - +
82A ILE* 3.7 29.2 - - + -
83A ASP 3.4 2.9 - - - +
84A VAL* 3.9 17.0 - - + -
505A PGE 5.0 5.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LYS* 4.1 8.9 + - - +
74A VAL* 1.3 76.2 - - - +
76A LEU* 1.3 77.6 + - - +
77A VAL* 4.4 12.6 - - + +
82A ILE 3.8 0.7 - - - -
83A ASP* 2.8 45.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 76 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LYS* 4.1 15.4 - - + +
20A LEU* 3.7 29.4 - - + -
74A VAL* 5.4 0.2 - - + -
75A GLU* 1.3 81.5 - - - +
77A VAL* 1.3 62.3 + - - +
78A GLU 3.8 2.3 + - - -
81A SER 4.0 0.4 - - - -
82A ILE* 3.9 21.3 - - + -
223A ILE* 4.2 3.4 - - + -
224A THR 3.2 22.9 - - - +
225A ALA* 3.9 23.6 - - - +
226A SER 3.9 5.8 - - - +
227A TYR* 3.6 29.6 - - - +
228A LEU* 3.5 24.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLU* 3.7 14.8 + - + +
76A LEU* 1.3 73.5 - - - +
78A GLU* 1.4 67.1 + - - +
80A LYS* 3.0 48.2 + - + +
81A SER 2.8 25.2 + - - +
83A ASP* 3.3 28.9 - - - +
223A ILE* 3.4 7.7 - - - +
----------------------------------------------------------
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