Contacts of the strand formed by residues 74 - 91 (chain A) in PDB entry 4EC7
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 TRP 74 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A SER 5.1 2.3 - - - +
69A ILE* 3.8 15.7 - - + +
70A ASP* 2.9 18.0 + - + +
71A SER* 3.2 25.3 + - - +
73A HIS* 1.3 92.7 - - + +
75A ASN* 1.3 65.5 + - - +
76A SER* 3.9 1.0 + - - -
110A ILE* 3.9 27.4 - - + -
111A THR 3.9 3.4 - - - -
112A LYS* 3.3 69.4 - - + +
113A LYS* 4.0 1.3 - - - -
11B HIS* 4.5 11.4 - + - -
67B ARG* 5.0 7.9 - - + -
68B GLY* 3.4 41.1 - - - -
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Residues in contact with ASN 75 (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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64A SER 5.4 2.0 + - - -
71A SER* 4.9 0.6 + - - -
74A TRP* 1.3 75.5 + - - +
76A SER* 1.3 61.7 + - - +
77A TYR* 5.9 0.4 - - - -
110A ILE* 3.4 2.8 - - - +
111A THR* 2.8 44.0 + - - +
113A LYS* 3.2 44.9 - - - +
116A ASN* 3.2 32.8 + - + +
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Residues in contact with SER 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A SER 3.7 8.4 + - - +
65A GLY* 3.4 16.2 - - - -
66A CYS* 2.7 43.0 + - - +
69A ILE* 4.1 14.1 - - - +
74A TRP 3.9 0.6 + - - -
75A ASN* 1.3 78.1 - - - +
77A TYR* 1.3 68.8 + - - +
108A CYS* 3.8 5.2 - - - -
109A VAL 3.3 10.8 - - - -
110A ILE* 4.0 7.4 - - - -
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Residues in contact with TYR 77 (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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59A PRO* 3.5 18.2 - - + +
60A ASN* 5.8 0.9 - - + +
65A GLY* 5.4 0.2 - - - -
66A CYS* 3.2 11.0 - - - +
75A ASN 5.9 0.2 - - - -
76A SER* 1.3 78.9 - - - +
78A CYS* 1.3 70.9 + - - +
79A THR* 4.0 17.5 - - + +
109A VAL* 2.9 51.2 + - + +
111A THR* 5.0 2.5 - - - -
10B GLU* 3.1 36.1 + - - -
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Residues in contact with CYS 78 (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 CYS* 1.9 72.4 - - + -
56A CYS* 3.7 6.0 - - - +
58A ASN 4.3 7.0 - - - +
59A PRO* 2.9 36.1 + - - +
77A TYR* 1.3 76.1 - - - +
79A THR* 1.3 60.7 + - - +
106A CYS* 3.6 17.7 - - - -
107A VAL 3.3 28.3 - - - -
108A CYS 3.5 0.2 - - - -
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Residues in contact with THR 79 (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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56A CYS* 3.3 9.4 - - - -
77A TYR* 4.0 25.5 + - + +
78A CYS* 1.3 74.8 - - - +
80A GLU* 1.3 82.9 + - - +
107A VAL* 2.8 39.3 + - + +
109A VAL* 4.2 14.8 - - + -
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Residues in contact with GLU 80 (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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54A THR 4.6 2.2 - - - +
55A LYS* 3.6 8.5 - - - +
56A CYS* 2.7 41.6 + - - +
79A THR* 1.3 95.4 + - - +
81A THR* 1.3 64.2 + - - +
82A ASP* 5.1 2.8 - - - +
103A GLU* 3.0 42.9 - - + +
105A ALA 3.0 15.0 - - - +
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Residues in contact with THR 81 (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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79A THR* 6.3 0.2 - - + -
80A GLU* 1.3 75.6 - - - +
82A ASP* 1.3 65.5 + - - +
103A GLU* 3.7 2.3 - - - -
104A THR* 2.9 27.7 + - - +
105A ALA* 3.0 26.1 + - - +
107A VAL* 3.5 32.5 - - + -
104B THR 4.5 1.4 + - - -
105B ALA* 3.8 12.9 - - + +
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Residues in contact with ASP 82 (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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80A GLU* 5.1 2.7 - - - +
81A THR* 1.3 81.0 + - - +
83A THR* 1.3 63.5 + - - +
84A PHE* 4.6 8.5 - - + -
101A ARG* 3.1 46.0 + - + +
102A ILE 3.5 3.1 - - - +
103A GLU* 3.3 30.0 + - - +
104A THR* 3.7 6.7 - - - +
52B PHE* 4.3 10.9 - - - -
54B THR* 5.4 0.7 + - - -
104B THR 4.7 4.2 - - - +
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Residues in contact with THR 83 (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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82A ASP* 1.3 75.3 - - - +
84A PHE* 1.3 81.9 + - - +
85A ILE* 3.4 28.1 - - + +
101A ARG* 3.6 1.2 - - - -
102A ILE* 2.7 45.7 + - + +
104A THR* 3.4 17.0 - - - +
52B PHE* 4.1 15.3 + - - -
83B THR* 4.6 4.5 - - - +
85B ILE* 4.9 1.4 - - - +
104B THR* 3.5 29.7 - - + +
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Residues in contact with PHE 84 (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 ILE* 3.4 41.1 - - + -
82A ASP* 4.6 9.0 - - + -
83A THR* 1.3 86.9 + - - +
85A ILE* 1.3 65.6 + - - +
86A LYS 4.0 0.2 + - - -
99A PHE* 3.9 15.1 - - + -
100A ILE* 3.3 5.8 - - - +
101A ARG* 3.5 61.2 - - + -
200A L44 4.0 14.4 - - + -
20B TRP* 3.8 23.9 - - + -
52B PHE* 3.5 37.4 + + + +
85B ILE* 5.0 4.2 - - - +
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Residues in contact with ILE 85 (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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51A PHE* 3.4 28.9 - - + -
52A PHE 6.1 1.8 - - - +
83A THR* 3.4 34.5 - - + +
84A PHE* 1.3 78.6 - - - +
86A LYS* 1.3 75.2 + - - +
99A PHE* 3.8 1.6 - - - -
100A ILE* 2.6 43.1 + - - +
102A ILE* 3.8 16.8 - - + -
200A L44 5.3 4.7 - - + -
83B THR* 4.9 4.9 - - - +
84B PHE 5.3 3.6 - - - +
85B ILE* 4.1 35.7 - - + -
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Residues in contact with LYS 86 (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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85A ILE* 1.3 83.5 - - - +
87A ALA* 1.3 61.3 + - - +
97A TRP* 3.7 10.8 - - + -
98A ARG 3.3 10.1 - - - +
99A PHE* 3.4 30.0 - - + -
200A L44 2.4 122.8 + - + +
40B VAL* 6.1 1.2 - - - +
48B LYS 5.1 3.6 + - - -
49B GLU* 5.8 6.5 - - - +
50B TYR 6.0 1.0 - - - +
85B ILE* 5.9 3.9 - - + +
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Residues in contact with ALA 87 (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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36A VAL* 4.6 2.0 - - + -
49A GLU* 3.7 11.0 - - - +
51A PHE* 3.5 32.5 - - + -
85A ILE 4.3 0.2 - - - +
86A LYS* 1.3 76.0 - - - +
88A LEU* 1.3 65.8 + - - +
89A THR* 3.5 2.5 + - + +
97A TRP* 3.5 11.2 - - - -
98A ARG 2.6 36.4 + - - +
100A ILE* 4.0 17.3 - - + -
200A L44 5.2 0.2 - - + -
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Residues in contact with LEU 88 (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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36A VAL* 3.9 1.7 - - - +
37A MET* 3.1 35.9 + - + -
39A ASN 4.1 11.9 - - - +
40A VAL* 4.2 12.8 - - + -
41A ASN 5.4 1.1 - - - +
49A GLU* 3.0 31.8 + - - +
87A ALA* 1.3 71.6 - - - +
89A THR* 1.3 63.6 + - - +
95A ALA* 4.9 7.6 - - + -
96A SER* 3.5 25.8 - - - +
97A TRP* 3.5 34.2 - - + +
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Residues in contact with THR 89 (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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34A VAL* 3.6 16.3 - - + +
35A THR 3.2 13.0 - - - +
36A VAL* 4.7 3.4 - - + -
37A MET* 4.0 7.9 - - - +
87A ALA* 3.5 14.6 - - + +
88A LEU* 1.3 79.2 - - - +
90A MET* 1.3 67.6 + - - +
95A ALA* 3.3 7.6 - - - +
96A SER* 2.8 40.3 + - - -
98A ARG* 3.1 24.7 + - + +
100A ILE* 3.9 26.2 - - + -
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Residues in contact with MET 90 (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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34A VAL* 3.0 14.6 - - - +
35A THR* 3.0 37.6 + - + +
37A MET* 4.2 18.4 - - - +
89A THR* 1.3 82.4 - - - +
91A GLU* 1.3 59.4 + - - +
92A GLY 3.1 26.4 + - - +
93A ASN* 4.1 14.1 - - - +
94A GLN 3.3 9.0 - - - +
95A ALA* 3.7 22.4 - - + +
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Residues in contact with GLU 91 (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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32A ASN* 4.0 21.9 + - - +
33A THR 4.4 12.1 - - - +
34A VAL* 3.7 7.5 - - + +
90A MET* 1.3 72.1 - - - +
92A GLY* 1.3 65.5 + - - +
94A GLN* 3.0 27.8 + - + +
98A ARG* 2.8 40.0 + - - +
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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