Contacts of the strand formed by residues 57 - 73 (chain A) in PDB entry 2CAS
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 57 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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54A LEU 4.7 2.7 + - - -
55A GLU* 3.3 0.8 - - - +
56A ASN* 1.3 77.1 - - - +
58A TRP* 1.3 57.3 + - - +
538A LYS* 3.2 16.3 - - - +
539A LEU* 3.0 46.7 + - - -
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Residues in contact with TRP 58 (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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53A PHE* 3.7 1.2 - - - +
54A LEU* 2.8 42.2 + - + +
55A GLU 3.7 15.1 + - - +
56A ASN* 3.3 25.0 + - + +
57A GLY* 1.3 75.9 - - - +
59A VAL* 1.3 62.9 + - - +
135A GLU* 3.5 23.6 - - - -
137A HIS* 3.6 25.4 - + - -
536A LYS* 3.8 21.1 - - + -
537A ALA 3.0 29.6 - - - -
538A LYS* 3.3 41.8 - - + +
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Residues in contact with VAL 59 (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* 5.3 2.2 - - + -
52A LYS 3.7 5.2 - - - +
53A PHE* 2.6 54.7 - - + +
54A LEU* 4.3 1.6 - - - -
58A TRP* 1.3 75.4 - - - +
60A GLU* 1.3 65.1 + - - +
61A ILE* 3.9 6.3 - - + -
133A MET* 3.6 22.0 - - + -
536A LYS* 3.2 8.3 - - - +
537A ALA* 2.6 68.6 + - + +
539A LEU* 4.1 9.2 - - + -
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Residues in contact with GLU 60 (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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50A GLU 3.6 3.3 - - - +
52A LYS* 3.0 62.8 + - - +
54A LEU* 3.9 15.7 - - + +
59A VAL* 1.3 77.5 - - - +
61A ILE* 1.4 58.6 + - - +
62A THR* 3.6 16.7 - - + +
534A VAL* 4.0 17.1 - - + +
535A PHE 3.4 12.8 - - - +
536A LYS* 3.6 21.1 + - - -
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Residues in contact with ILE 61 (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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49A THR* 4.6 1.6 - - - +
50A GLU 3.4 9.0 - - - +
51A PHE* 3.6 39.9 - - + -
59A VAL* 3.9 4.9 - - + -
60A GLU* 1.4 71.4 - - - +
62A THR* 1.3 69.1 + - - +
63A ALA 4.0 0.2 - - - -
121A PHE* 3.8 31.9 - - + -
129A ILE* 4.5 8.5 - - + -
133A MET* 4.3 6.3 - - + -
136A LEU* 4.0 16.4 - - + -
533A LEU 3.6 0.7 - - - +
534A VAL* 3.2 4.2 - - - +
535A PHE* 2.9 46.3 + - + +
537A ALA* 3.6 31.0 - - + +
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Residues in contact with THR 62 (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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49A THR* 3.3 3.6 - - - -
50A GLU* 2.8 55.1 + - + +
52A LYS* 5.8 2.0 - - + -
60A GLU* 3.6 27.6 - - - +
61A ILE* 1.3 78.8 - - - +
63A ALA* 1.3 56.6 + - - +
64A ASN* 3.6 14.7 + - - -
532A LYS* 4.2 14.4 - - - +
533A LEU 3.4 3.6 - - - -
534A VAL* 3.6 20.5 - - + +
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Residues in contact with ALA 63 (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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49A THR* 3.9 8.5 - - - -
61A ILE 4.0 0.6 - - - -
62A THR* 1.3 71.2 - - - +
64A ASN* 1.3 61.4 + - - +
120A TRP* 3.4 31.6 - - + +
121A PHE* 3.8 29.6 - - + -
532A LYS* 3.4 5.9 - - - +
533A LEU* 2.8 42.2 + - + +
535A PHE* 4.8 0.4 - - + -
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Residues in contact with ASN 64 (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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46A ASN* 3.4 36.4 + - + +
47A ASN* 3.2 20.4 + - - -
48A GLN 2.5 28.9 + - - +
49A THR* 4.4 2.0 - - - +
50A GLU* 2.9 24.4 + - - -
62A THR* 3.6 12.5 + - - -
63A ALA* 1.3 72.6 - - - +
65A SER* 1.3 61.4 + - - +
120A TRP* 4.4 5.1 - - - +
530A LYS* 5.8 3.8 - - + +
531A GLY 3.5 4.7 - - - +
532A LYS* 3.7 24.3 - - - +
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Residues in contact with SER 65 (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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46A ASN 3.5 0.8 + - - +
47A ASN* 3.3 5.8 - - - -
64A ASN* 1.3 76.6 - - - +
66A SER* 1.3 63.5 + - - +
67A ARG* 3.6 7.6 + - - -
119A VAL* 2.8 39.0 + - - +
120A TRP* 3.5 23.5 - - - -
529A TRP* 3.5 11.1 - - - -
530A LYS* 3.4 0.9 - - - -
531A GLY 2.9 33.8 + - - +
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Residues in contact with SER 66 (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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45A PHE* 3.3 42.1 - - - -
46A ASN 2.7 33.9 + - - -
47A ASN* 2.6 11.3 + - - +
65A SER* 1.3 72.8 + - - +
67A ARG* 1.3 84.9 + - - +
146A PHE* 5.7 1.1 - - - -
199A PRO* 4.2 2.1 - - - +
528A TRP* 5.3 0.9 - - - -
529A TRP* 3.3 8.1 - - - -
530A LYS* 3.6 12.7 - - - +
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Residues in contact with ARG 67 (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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45A PHE* 4.8 1.3 - - - -
47A ASN* 2.9 19.2 + - - +
65A SER* 3.6 5.7 + - - -
66A SER* 1.3 103.7 + - - +
68A LEU* 1.3 61.6 + - - +
69A VAL* 3.9 3.6 - - + -
118A GLY 4.6 0.2 + - - -
119A VAL* 3.2 27.8 + - + +
195A LEU* 4.7 5.2 - - + -
196A GLY 2.8 29.4 + - - +
197A PHE 3.9 13.9 + - - -
198A TYR 3.6 21.6 + - - -
199A PRO* 3.5 15.3 - - - +
201A LYS 4.4 9.4 - - - -
203A THR* 3.9 24.9 - - + -
528A TRP* 3.3 13.9 - - - -
529A TRP* 2.9 49.6 + - + +
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Residues in contact with LEU 68 (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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67A ARG* 1.3 72.4 - - - +
69A VAL* 1.3 63.6 + - - +
70A HIS* 6.0 0.9 - - + -
201A LYS 5.4 0.4 + - - -
202A PRO* 3.4 32.4 - - + +
203A THR* 2.7 33.4 + - - +
526A ASP* 3.9 22.0 - - + -
527A PHE 3.3 20.9 - - - +
528A TRP* 3.9 40.7 - - + +
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Residues in contact with VAL 69 (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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67A ARG* 4.5 2.9 - - + +
68A LEU* 1.3 76.3 - - - +
70A HIS* 1.3 64.1 + - - +
112A VAL* 5.4 2.9 - - + -
195A LEU* 4.2 9.9 - - + -
203A THR* 3.3 17.7 - - + -
204A ILE* 3.9 4.9 - - - -
205A PRO* 3.4 33.0 - - + -
525A SER 4.0 0.5 - - - +
526A ASP* 3.2 7.8 - - - +
527A PHE* 2.8 63.7 + - + +
529A TRP* 4.0 26.9 - - + -
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Residues in contact with HIS 70 (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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68A LEU* 5.5 1.3 - - + +
69A VAL* 1.3 74.0 - - - +
71A LEU* 1.3 62.3 + - - +
72A ASN* 3.3 32.5 + - - -
202A PRO* 5.6 6.7 - - + -
203A THR 2.7 16.3 + - - +
204A ILE* 3.6 19.0 - - + +
205A PRO* 3.3 20.1 - - - +
524A TYR* 3.4 26.1 - + - -
526A ASP* 2.7 29.6 - - - +
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Residues in contact with LEU 71 (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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70A HIS* 1.3 77.5 - - - +
72A ASN* 1.3 73.7 + - - +
110A SER* 3.9 15.7 - - - +
173A LEU* 3.2 35.9 - - + -
205A PRO* 3.6 26.5 - - + -
500A VAL* 3.3 20.2 - - + +
501A LYS* 4.3 2.0 - - - +
502A VAL* 4.0 19.1 - - + +
524A TYR* 3.3 5.4 - - - +
525A SER* 2.9 40.6 + - - +
527A PHE* 3.9 10.8 - - + -
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Residues in contact with ASN 72 (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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70A HIS* 3.3 29.9 + - - -
71A LEU* 1.3 85.4 - - - +
73A MET* 1.3 68.9 + - - +
74A PRO* 3.8 1.0 - - - +
502A VAL* 4.2 6.1 + - - +
523A THR 4.3 1.7 - - - +
524A TYR* 3.6 15.6 - - - +
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Residues in contact with MET 73 (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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72A ASN* 1.3 81.4 + - - +
74A PRO* 1.3 74.4 - - + +
75A GLU 3.7 1.0 + - - -
502A VAL* 4.2 16.6 - - + +
505A ASN* 6.3 0.4 - - - -
520A ARG* 3.8 46.2 - - + +
521A ILE 3.7 17.9 - - - +
522A VAL* 3.8 30.7 - - + +
523A THR* 3.4 25.4 + - - +
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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