Contacts of the strand formed by residues 150 - 158 (chain K) in PDB entry 1ZUM
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 150 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144K ILE 5.4 0.7 - - - +
146K ILE* 3.9 20.9 - - + +
147K ASP 3.5 17.5 - - - -
148K GLY* 2.9 13.4 + - - +
149K ASP* 1.3 89.5 - - + +
151K PHE* 1.3 61.0 + - - +
152K SER 4.0 0.9 + - - -
492K THR* 4.0 8.5 - - + -
493K VAL 3.2 8.5 - - - +
494K LYS* 3.8 20.9 - - + -
495K VAL* 3.8 7.9 - - - +
498K LYS* 4.3 11.5 - - - +
285L TRP* 6.4 0.7 - + - -
455L CYS* 3.8 20.9 - - + -
458L VAL* 3.6 37.9 - - + -
3108L GAI 3.8 17.5 - - - -
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Residues in contact with PHE 151 (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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440I ASN* 5.0 11.4 - - - -
151J PHE* 4.3 3.1 - + - -
153J TYR* 3.5 52.9 - + - -
155J ARG* 5.0 8.7 - - + -
143K THR* 4.1 19.3 - - + -
144K ILE 5.9 0.4 - - - -
150K PHE* 1.3 73.2 - - - +
152K SER* 1.3 70.0 + - - +
153K TYR* 3.4 34.1 - + + -
491K VAL 3.7 1.7 - - - +
492K THR* 3.5 0.5 - - - -
493K VAL* 2.7 41.9 + - + +
495K VAL* 3.8 20.2 - - + +
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Residues in contact with SER 152 (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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143K THR* 3.5 1.9 - - - -
144K ILE* 2.8 43.5 + - - +
146K ILE* 4.1 7.4 - - - -
150K PHE 4.0 1.2 - - - -
151K PHE* 1.3 81.5 - - - +
153K TYR* 1.3 66.9 + - - +
490K THR* 3.6 8.7 - - - +
491K VAL 3.3 3.6 - - - -
492K THR* 3.1 29.7 + - - +
463L SER* 3.2 22.0 + - - -
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Residues in contact with TYR 153 (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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143J THR* 3.9 14.6 - - + -
151J PHE* 3.5 38.9 - + - -
142K LYS 3.0 13.9 - - - +
143K THR* 4.0 9.9 - - + +
144K ILE* 4.4 1.6 - - - +
151K PHE* 3.4 32.1 - + + -
152K SER* 1.3 75.9 + - - +
154K THR* 1.3 70.9 + - - +
155K ARG* 4.0 18.5 - - + -
490K THR* 3.4 4.3 - - - +
491K VAL* 2.8 75.7 + - + +
493K VAL* 4.7 5.1 - - + +
440L ASN* 4.6 6.9 + - - -
443L SER* 4.0 10.2 + - - -
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Residues in contact with THR 154 (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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143J THR* 3.0 26.7 + - - +
141K GLY* 3.5 3.7 - - - -
142K LYS* 2.7 29.9 + - + +
144K ILE* 3.9 22.7 - - + -
153K TYR* 1.3 81.3 - - - +
155K ARG* 1.3 66.4 + - - +
156K HIS* 4.4 0.2 + - - -
488K VAL* 4.0 8.5 - - + -
489K LYS 3.0 7.9 - - - -
490K THR* 3.8 19.5 - - - +
464L PRO* 4.0 9.4 - - + -
480L TYR* 2.8 28.0 + - + +
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Residues in contact with ARG 155 (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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143J THR* 4.6 10.8 - - - +
151J PHE* 4.8 10.8 - - + -
499J ASN 4.0 10.9 + - - -
500J SER* 4.0 18.0 + - - -
141K GLY* 4.8 0.2 - - - -
153K TYR* 4.0 24.9 - - + -
154K THR* 1.3 78.3 - - - +
156K HIS* 1.3 65.0 + - - +
157K GLU* 2.7 34.2 + - + +
487K LYS 3.5 2.4 - - - +
488K VAL* 3.7 2.1 - - - -
489K LYS* 2.9 50.7 + - + +
491K VAL* 5.3 1.8 - - + +
444L GLN* 3.8 32.3 + - - +
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Residues in contact with HIS 156 (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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500J SER* 4.1 6.3 - - - +
139K TYR* 3.3 55.6 + + + +
140K HIS 3.0 27.3 + - - -
141K GLY* 4.2 6.9 - - - -
142K LYS* 6.0 1.1 - - + -
154K THR* 4.6 0.4 - - - -
155K ARG* 1.3 77.6 + - - +
157K GLU* 1.3 62.7 + - - +
158K PRO* 4.6 0.9 - - - +
185K THR 5.6 1.0 - - - +
486K THR* 4.2 12.1 - - + +
487K LYS 3.4 3.4 - - - -
488K VAL* 4.0 19.9 - - + +
480L TYR* 3.1 34.6 + + - -
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Residues in contact with GLU 157 (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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500J SER* 3.7 11.2 - - - +
77K ARG* 5.7 2.9 - - - +
155K ARG* 2.7 41.3 + - - +
156K HIS* 1.3 74.6 - - - +
158K PRO* 1.3 75.4 - - + +
185K THR 5.0 0.2 - - - -
486K THR* 3.2 8.5 - - - -
487K LYS* 2.7 52.8 + - + +
489K LYS* 3.0 35.1 + - + +
444L GLN 4.2 1.6 - - - +
447L GLN* 5.7 4.7 - - - +
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Residues in contact with PRO 158 (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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500J SER* 3.5 34.8 - - - +
70K PHE* 3.7 21.1 - - + -
77K ARG* 4.8 0.9 - - - +
156K HIS 4.6 0.4 - - - +
157K GLU* 1.3 97.5 - - + +
159K VAL* 1.3 64.3 + - - +
185K THR 3.2 23.6 - - - +
186K GLY 3.5 22.9 - - - +
187K ASN* 3.5 11.7 - - - +
485K TYR 3.8 6.7 - - - +
486K THR* 4.7 0.2 - - - -
487K LYS* 4.0 8.4 - - - +
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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