Contacts of the strand formed by residues 75 - 91 (chain B) in PDB entry 1FZV
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 LEU 75 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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70B CYS* 3.8 27.4 + - + +
72B ASP* 2.9 39.2 + - + +
73B GLU* 4.0 4.2 - - - +
74B ASN* 1.3 81.8 - - + +
76B HIS* 1.3 61.5 + - - +
113B CYS* 4.5 14.4 - - + +
114B ARG* 3.3 6.7 - - - +
115B PRO* 3.5 35.9 - - + -
116B LEU* 5.5 0.2 - - - -
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Residues in contact with HIS 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B CYS* 3.6 7.2 - - - -
75B LEU* 1.3 76.3 - - - +
77B CYS* 1.3 63.5 + - - +
78B VAL* 3.2 26.0 + - + +
114B ARG* 2.8 56.4 + - - +
115B PRO 3.3 16.5 + - - -
116B LEU* 3.6 22.1 - - + +
117B ARG* 3.9 18.9 + - - -
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Residues in contact with CYS 77 (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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35B CYS* 2.0 57.4 - - + -
36B ARG 3.7 6.7 - - - -
66B CYS* 3.9 8.9 - - - +
67B THR* 3.7 19.7 - - - +
68B GLY 3.7 22.6 + - - +
70B CYS* 3.6 5.0 - - - -
76B HIS* 1.3 73.9 + - - +
78B VAL* 1.3 62.3 + - - +
111B CYS* 3.9 6.7 - - - -
112B GLU 3.6 0.7 - - - -
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Residues in contact with VAL 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B CYS* 3.6 5.2 - - - -
76B HIS* 3.2 39.7 - - + +
77B CYS* 1.3 79.8 - - - +
79B PRO* 1.3 80.9 - - + +
80B VAL* 5.0 3.1 - - + -
111B CYS* 3.2 2.3 - - - -
112B GLU* 2.7 45.3 + - - +
114B ARG* 3.6 23.8 - - + +
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Residues in contact with PRO 79 (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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66B CYS* 3.3 24.0 - - + -
77B CYS 4.9 0.2 - - - +
78B VAL* 1.3 95.7 - - + +
80B VAL* 1.3 62.5 + - - +
81B GLU 3.4 11.9 - - - +
82B THR* 4.1 16.4 - - + -
108B HIS* 4.1 25.4 - - + +
110B ARG 3.4 4.5 - - - +
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Residues in contact with VAL 80 (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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78B VAL* 4.5 3.6 - - + +
79B PRO* 1.3 76.2 - - - +
81B GLU* 1.3 61.8 + - - +
110B ARG* 2.9 56.2 + - + +
111B CYS* 4.0 5.2 - - - +
112B GLU* 3.6 33.0 - - + +
114B ARG* 3.8 21.3 - - - +
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Residues in contact with GLU 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B PRO* 3.4 2.4 - - - +
80B VAL* 1.3 83.6 - - - +
82B THR* 1.3 74.9 + - - +
108B HIS* 3.8 1.4 - - - -
109B VAL* 2.9 41.3 + - + +
110B ARG* 2.7 57.9 + - + +
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Residues in contact with THR 82 (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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79B PRO* 4.1 15.3 - - + -
81B GLU* 1.3 86.8 - - - +
83B ALA* 1.3 66.1 + - - +
106B SER* 4.8 5.4 - - - +
107B GLN 3.1 13.5 - - - +
108B HIS* 4.1 17.3 - - + +
109B VAL* 3.9 3.5 - - - +
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Residues in contact with ALA 83 (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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82B THR* 1.3 77.9 + - - +
84B ASN* 1.3 76.9 + - - +
106B SER* 3.7 5.0 + - - -
107B GLN* 2.7 33.1 + - + +
109B VAL* 3.5 19.7 - - + -
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Residues in contact with ASN 84 (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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21A VAL* 5.5 8.5 - - + +
83B ALA* 1.3 88.5 + - - +
85B VAL* 1.3 64.0 + - - +
86B THR* 5.6 1.1 - - - +
104B THR* 3.3 26.0 - - + +
105B PHE 3.4 8.8 - - - +
106B SER* 5.0 1.2 - - - -
107B GLN* 4.3 4.6 - - - +
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Residues in contact with VAL 85 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A VAL* 5.7 1.3 - - - -
24A VAL* 4.0 22.4 - - + -
63B LEU* 3.7 17.3 - - + -
84B ASN* 1.3 75.8 - - - +
86B THR* 1.3 65.3 + - - +
87B MET* 3.6 34.2 + - + -
103B LEU 3.7 0.9 - - - +
104B THR* 3.3 0.8 - - - -
105B PHE* 2.8 35.8 + - + +
107B GLN* 3.8 22.4 - - - +
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Residues in contact with THR 86 (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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21A VAL* 3.7 22.7 - - + +
22A GLU 3.6 17.1 + - - +
23A VAL* 3.5 21.9 - - + -
24A VAL* 2.9 28.1 + - - +
84B ASN* 5.6 0.7 - - - +
85B VAL* 1.3 74.9 - - - +
87B MET* 1.3 62.1 + - - +
102B GLU* 4.1 21.3 - - + +
103B LEU 3.3 7.2 - - - +
104B THR* 2.7 25.5 + - - +
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Residues in contact with MET 87 (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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23A VAL* 4.4 2.9 - - - -
24A VAL* 3.8 19.1 - - + -
29A VAL* 3.9 13.9 - - + -
61B VAL* 3.8 27.6 - - + -
62B SER 3.5 16.4 - - - +
63B LEU* 3.5 32.5 - - + -
85B VAL* 3.6 21.8 - - + -
86B THR* 1.3 78.3 - - - +
88B GLN* 1.3 61.1 + - - +
89B LEU* 3.6 15.8 + - + +
101B VAL 3.5 1.2 - - - +
102B GLU* 3.4 2.7 - - - -
103B LEU 2.6 42.1 + - - +
105B PHE* 4.0 8.7 - - + -
107B GLN* 5.4 0.4 - - - +
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Residues in contact with GLN 88 (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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23A VAL* 3.9 14.3 - - + +
24A VAL 2.9 19.7 + - - +
25A PRO* 3.8 6.6 - - - +
26A PHE* 3.1 43.6 + - - +
29A VAL* 3.8 3.8 - - - +
87B MET* 1.3 71.8 - - - +
89B LEU* 1.3 65.1 + - - +
100B TYR* 3.7 36.8 - - + +
101B VAL 3.3 11.2 - - - +
102B GLU* 4.5 6.4 + - + +
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Residues in contact with LEU 89 (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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26A PHE* 4.2 1.3 - - - -
29A VAL* 3.9 8.5 - - + -
44B VAL* 3.6 31.0 - - + -
56B PHE* 4.2 11.2 - - + -
57B SER 3.8 8.7 - - - +
58B PRO* 3.7 20.4 - - + +
61B VAL* 3.9 9.2 - - + -
87B MET* 3.6 28.7 - - + +
88B GLN* 1.3 83.3 - - - +
90B LEU* 1.3 63.9 + - - +
100B TYR* 3.1 9.0 - - - +
101B VAL* 2.6 49.1 + - + +
103B LEU* 4.3 13.5 - - + -
105B PHE* 4.4 5.2 - - + -
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Residues in contact with LEU 90 (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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26A PHE* 3.8 19.2 - - + -
55B MET 3.5 0.3 - - - +
56B PHE* 3.4 4.9 - - - +
57B SER* 2.9 47.0 + - - +
89B LEU* 1.3 72.7 - - - +
91B LYS* 1.3 60.4 + - - +
92B ILE* 3.8 26.3 + - + -
98B PRO* 4.0 11.9 - - + -
99B SER 3.7 29.4 - - - +
100B TYR* 3.8 34.8 - - + +
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Residues in contact with LYS 91 (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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55B MET* 3.2 39.3 - - + +
56B PHE* 4.7 9.9 - - + -
89B LEU 3.8 1.4 + - - -
90B LEU* 1.3 72.6 - - - +
92B ILE* 1.3 60.8 + - - +
93B ARG* 4.1 13.6 + - + +
96B ASP* 5.6 7.1 - - - +
97B ARG 4.4 1.1 + - - +
98B PRO* 3.4 4.7 - - - +
99B SER* 2.6 52.7 + - - +
101B VAL* 3.6 32.3 - - + -
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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
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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